Defining the role of polyamines in colon carcinogenesis using mouse models

PubMed Central

Ignatenko, Natalia A.; Gerner, Eugene W.; Besselsen, David G.

2011-01-01

Genetics and diet are both considered important risk determinants for colorectal cancer, a leading cause of death in the US and worldwide. Genetically engineered mouse (GEM) models have made a significant contribution to the characterization of colorectal cancer risk factors. Reliable, reproducible, and clinically relevant animal models help in the identification of the molecular events associated with disease progression and in the development of effictive treatment strategies. This review is focused on the use of mouse models for studying the role of polyamines in colon carcinogenesis. We describe how the available mouse models of colon cancer such as the multiple intestinal neoplasia (Min) mice and knockout genetic models facilitate understanding of the role of polyamines in colon carcinogenesis and help in the development of a rational strategy for colon cancer chemoprevention. PMID:21712957

A preclinical orthotopic model for glioblastoma recapitulates key features of human tumors and demonstrates sensitivity to a combination of MEK and PI3K pathway inhibitors.

PubMed

El Meskini, Rajaa; Iacovelli, Anthony J; Kulaga, Alan; Gumprecht, Michelle; Martin, Philip L; Baran, Maureen; Householder, Deborah B; Van Dyke, Terry; Weaver Ohler, Zoë

2015-01-01

Current therapies for glioblastoma multiforme (GBM), the highest grade malignant brain tumor, are mostly ineffective, and better preclinical model systems are needed to increase the successful translation of drug discovery efforts into the clinic. Previous work describes a genetically engineered mouse (GEM) model that contains perturbations in the most frequently dysregulated networks in GBM (driven by RB, KRAS and/or PI3K signaling and PTEN) that induce development of Grade IV astrocytoma with properties of the human disease. Here, we developed and characterized an orthotopic mouse model derived from the GEM that retains the features of the GEM model in an immunocompetent background; however, this model is also tractable and efficient for preclinical evaluation of candidate therapeutic regimens. Orthotopic brain tumors are highly proliferative, invasive and vascular, and express histology markers characteristic of human GBM. Primary tumor cells were examined for sensitivity to chemotherapeutics and targeted drugs. PI3K and MAPK pathway inhibitors, when used as single agents, inhibited cell proliferation but did not result in significant apoptosis. However, in combination, these inhibitors resulted in a substantial increase in cell death. Moreover, these findings translated into the in vivo orthotopic model: PI3K or MAPK inhibitor treatment regimens resulted in incomplete pathway suppression and feedback loops, whereas dual treatment delayed tumor growth through increased apoptosis and decreased tumor cell proliferation. Analysis of downstream pathway components revealed a cooperative effect on target downregulation. These concordant results, together with the morphologic similarities to the human GBM disease characteristics of the model, validate it as a new platform for the evaluation of GBM treatment. © 2015. Published by The Company of Biologists Ltd.

A preclinical orthotopic model for glioblastoma recapitulates key features of human tumors and demonstrates sensitivity to a combination of MEK and PI3K pathway inhibitors

PubMed Central

El Meskini, Rajaa; Iacovelli, Anthony J.; Kulaga, Alan; Gumprecht, Michelle; Martin, Philip L.; Baran, Maureen; Householder, Deborah B.; Van Dyke, Terry; Weaver Ohler, Zoë

2015-01-01

Current therapies for glioblastoma multiforme (GBM), the highest grade malignant brain tumor, are mostly ineffective, and better preclinical model systems are needed to increase the successful translation of drug discovery efforts into the clinic. Previous work describes a genetically engineered mouse (GEM) model that contains perturbations in the most frequently dysregulated networks in GBM (driven by RB, KRAS and/or PI3K signaling and PTEN) that induce development of Grade IV astrocytoma with properties of the human disease. Here, we developed and characterized an orthotopic mouse model derived from the GEM that retains the features of the GEM model in an immunocompetent background; however, this model is also tractable and efficient for preclinical evaluation of candidate therapeutic regimens. Orthotopic brain tumors are highly proliferative, invasive and vascular, and express histology markers characteristic of human GBM. Primary tumor cells were examined for sensitivity to chemotherapeutics and targeted drugs. PI3K and MAPK pathway inhibitors, when used as single agents, inhibited cell proliferation but did not result in significant apoptosis. However, in combination, these inhibitors resulted in a substantial increase in cell death. Moreover, these findings translated into the in vivo orthotopic model: PI3K or MAPK inhibitor treatment regimens resulted in incomplete pathway suppression and feedback loops, whereas dual treatment delayed tumor growth through increased apoptosis and decreased tumor cell proliferation. Analysis of downstream pathway components revealed a cooperative effect on target downregulation. These concordant results, together with the morphologic similarities to the human GBM disease characteristics of the model, validate it as a new platform for the evaluation of GBM treatment. PMID:25431423

Targeting SMN to Cajal bodies and nuclear gems during neuritogenesis

PubMed Central

Navascues, Joaquin; Berciano, Maria T.; Tucker, Karen E.

2006-01-01

Neurite outgrowth is a central feature of neuronal differentiation. PC12 cells are a good model system for studying the peripheral nervous system and the outgrowth of neurites. In addition to the dramatic changes observed in the cytoplasm, neuronal differentiation is also accompanied by striking changes in nuclear morphology. The large and sustained increase in nuclear transcription during neuronal differentiation requires synthesis of a large number of factors involved in pre-mRNA processing. We show that the number and composition of the nuclear subdomains called Cajal bodies and gems changes during the course of N-ras-induced neuritogenesis in the PC12-derived cell line UR61. The Cajal bodies found in undifferentiated cells are largely devoid of the survival of motor neurons (SMN) protein product. As cells shift to a differentiated state, SMN is not only globally upregulated, but is progressively recruited to Cajal bodies. Additional SMN foci (also known as Gemini bodies, gems) can also be detected. Using dual-immunogold labeling electron microscopy and mouse embryonic fibroblasts lacking the coilin protein, we show that gems clearly represent a distinct category of nuclear body. PMID:15164213

The gut microbiota modulates host amino acid and glutathione metabolism in mice

PubMed Central

Mardinoglu, Adil; Shoaie, Saeed; Bergentall, Mattias; Ghaffari, Pouyan; Zhang, Cheng; Larsson, Erik; Bäckhed, Fredrik; Nielsen, Jens

2015-01-01

The gut microbiota has been proposed as an environmental factor that promotes the progression of metabolic diseases. Here, we investigated how the gut microbiota modulates the global metabolic differences in duodenum, jejunum, ileum, colon, liver, and two white adipose tissue depots obtained from conventionally raised (CONV-R) and germ-free (GF) mice using gene expression data and tissue-specific genome-scale metabolic models (GEMs). We created a generic mouse metabolic reaction (MMR) GEM, reconstructed 28 tissue-specific GEMs based on proteomics data, and manually curated GEMs for small intestine, colon, liver, and adipose tissues. We used these functional models to determine the global metabolic differences between CONV-R and GF mice. Based on gene expression data, we found that the gut microbiota affects the host amino acid (AA) metabolism, which leads to modifications in glutathione metabolism. To validate our predictions, we measured the level of AAs and N-acetylated AAs in the hepatic portal vein of CONV-R and GF mice. Finally, we simulated the metabolic differences between the small intestine of the CONV-R and GF mice accounting for the content of the diet and relative gene expression differences. Our analyses revealed that the gut microbiota influences host amino acid and glutathione metabolism in mice. PMID:26475342

“Glowing Head” Mice: A Genetic Tool Enabling Reliable Preclinical Image-Based Evaluation of Cancers in Immunocompetent Allografts

PubMed Central

Day, Chi-Ping; Carter, John; Ohler, Zoe Weaver; Bonomi, Carrie; El Meskini, Rajaa; Martin, Philip; Graff-Cherry, Cari; Feigenbaum, Lionel; Tüting, Thomas; Van Dyke, Terry; Hollingshead, Melinda; Merlino, Glenn

2014-01-01

Preclinical therapeutic assessment currently relies on the growth response of established human cell lines xenografted into immunocompromised mice, a strategy that is generally not predictive of clinical outcomes. Immunocompetent genetically engineered mouse (GEM)-derived tumor allograft models offer highly tractable preclinical alternatives and facilitate analysis of clinically promising immunomodulatory agents. Imageable reporters are essential for accurately tracking tumor growth and response, particularly for metastases. Unfortunately, reporters such as luciferase and GFP are foreign antigens in immunocompetent mice, potentially hindering tumor growth and confounding therapeutic responses. Here we assessed the value of reporter-tolerized GEMs as allograft recipients by targeting minimal expression of a luciferase-GFP fusion reporter to the anterior pituitary gland (dubbed the “Glowing Head” or GH mouse). The luciferase-GFP reporter expressed in tumor cells induced adverse immune responses in wildtype mouse, but not in GH mouse, as transplantation hosts. The antigenicity of optical reporters resulted in a decrease in both the growth and metastatic potential of the labeled tumor in wildtype mice as compared to the GH mice. Moreover, reporter expression can also alter the tumor response to chemotherapy or targeted therapy in a context-dependent manner. Thus the GH mice and experimental approaches vetted herein provide concept validation and a strategy for effective, reproducible preclinical evaluation of growth and response kinetics for traceable tumors. PMID:25369133

Gemfibrozil, food and drug administration-approved lipid-lowering drug, increases longevity in mouse model of late infantile neuronal ceroid lipofuscinosis.

PubMed

Ghosh, Arunava; Rangasamy, Suresh Babu; Modi, Khushbu K; Pahan, Kalipada

2017-05-01

Late Infantile Neuronal Ceroid Lipofuscinosis (LINCL) is a rare neurodegenerative disease caused by mutations in the Cln2 gene that leads to deficiency or loss of function of the tripeptidyl peptidase 1 (TPP1) enzyme. TPP1 deficiency is known to cause the accumulation of autofluoroscent lipid-protein pigments in brain. Similar to other neurodegenerative disorders, LINCL is also associated with neuroinflammation and neuronal damage. Despite investigations, no effective therapy is currently available for LINCL. Therefore, we administered gemfibrozil (gem), an food and drug administration (FDA)-approved lipid-lowering drug, which has been shown to stimulate lysosomal biogenesis and induce anti-inflammation, orally, at a dose of 7.5 mg/kg body wt/day to Cln2 (-/-) mice. We observed that gem-fed Cln2 (-/-) mice lived longer by more than 10 weeks and had better motor activity compared to vehicle (0.1% Methyl cellulose) treatment. Gem treatment lowered the burden of storage materials, increased anti-inflammatory factors like SOCS3 and IL-1Ra, up-regulated anti-apoptotic molecule like phospho-Bad, and reduced neuronal apoptosis in the brain of Cln2 (-/-) mice. Collectively, this study reinforces a neuroprotective role of gem that may be of therapeutic interest in improving the quality of life in LINCL patients. © 2017 International Society for Neurochemistry.

GEM1: First-year modeling and IT activities for the Global Earthquake Model

NASA Astrophysics Data System (ADS)

Anderson, G.; Giardini, D.; Wiemer, S.

2009-04-01

GEM is a public-private partnership initiated by the Organisation for Economic Cooperation and Development (OECD) to build an independent standard for modeling and communicating earthquake risk worldwide. GEM is aimed at providing authoritative, open information about seismic risk and decision tools to support mitigation. GEM will also raise risk awareness and help post-disaster economic development, with the ultimate goal of reducing the toll of future earthquakes. GEM will provide a unified set of seismic hazard, risk, and loss modeling tools based on a common global IT infrastructure and consensus standards. These tools, systems, and standards will be developed in partnership with organizations around the world, with coordination by the GEM Secretariat and its Secretary General. GEM partners will develop a variety of global components, including a unified earthquake catalog, fault database, and ground motion prediction equations. To ensure broad representation and community acceptance, GEM will include local knowledge in all modeling activities, incorporate existing detailed models where possible, and independently test all resulting tools and models. When completed in five years, GEM will have a versatile, penly accessible modeling environment that can be updated as necessary, and will provide the global standard for seismic hazard, risk, and loss models to government ministers, scientists and engineers, financial institutions, and the public worldwide. GEM is now underway with key support provided by private sponsors (Munich Reinsurance Company, Zurich Financial Services, AIR Worldwide Corporation, and Willis Group Holdings); countries including Belgium, Germany, Italy, Singapore, Switzerland, and Turkey; and groups such as the European Commission. The GEM Secretariat has been selected by the OECD and will be hosted at the Eucentre at the University of Pavia in Italy; the Secretariat is now formalizing the creation of the GEM Foundation. Some of GEM's global components are in the planning stages, such as the developments of a unified active fault database and earthquake catalog. The flagship activity of GEM's first year is GEM1, a focused pilot project to develop GEM's first hazard and risk modeling products and initial IT infrastructure, starting in January 2009 and ending in March 2010. GEM1 will provide core capabilities for the present and key knowledge for future development of the full GEM computing Environment and product set. We will build GEM1 largely using existing tools and datasets, connected through a unified IT infrastructure, in order to bring GEM's initial capabilities online as rapidly as possible. The Swiss Seismological Service at ETH-Zurich is leading the GEM1 effort in cooperation with partners around the world. We anticipate that GEM1's products will include: • A global compilation of regional seismic source zone models in one or more common representations • Global synthetic earthquake catalogs for use in hazard calculations • Initial set of regional and global catalogues for validation • Global hazard models in map and database forms • First compilation of global vulnerabilities and fragilities • Tools for exposure and loss assessment • Validation of results and software for existing risk assessment tools to be used in future GEM stages • Demonstration risk scenarios for target cities • First version of GEM IT infrastructure All these products will be made freely available to the greatest extent possible. For more information on GEM and GEM1, please visit http://www.globalquakemodel.org.

The determination of the orbit of the Japanese satellite Ajisai and the GEM-T1 and GEM-T2 gravity field models

NASA Technical Reports Server (NTRS)

Sanchez, Braulio V.

1990-01-01

The Japanese Experimental Geodetic Satellite Ajisai was launched on August 12, 1986. In response to the TOPEX-POSEIDON mission requirements, the GSFC Space Geodesy Branch and its associates are producing improved models of the Earth's gravitational field. With the launch of Ajisai, precise laser data is now available which can be used to test many current gravity models. The testing of the various gravity field models show improvements of more than 70 percent in the orbital fits when using GEM-T1 and GEM-T2 relative to results obtained with the earlier GEM-10B model. The GEM-T2 orbital fits are at the 13-cm level (RMS). The results of the tests with the various versions of the GEM-T1 model indicate that the addition of satellite altimetry and surface gravity anomalies as additional data types should improve future gravity field models.

Comparison of global brain gene expression profiles between inbred long-sleep and inbred short-sleep mice by high-density gene array hybridization.

PubMed

Xu, Y; Ehringer, M; Yang, F; Sikela, J M

2001-06-01

Inbred long-sleep (ILS) and short-sleep (ISS) mice show significant central nervous system-mediated differences in sleep time for sedative dose of ethanol and are frequently used as a rodent model for ethanol sensitivity. In this study, we have used complementary DNA (cDNA) array hybridization methodology to identify genes that are differentially expressed between the brains of ILS and ISS mice. To carry out this analysis, we used both the gene discovery array (GDA) and the Mouse GEM 1 Microarray. GDA consists of 18,378 nonredundant mouse cDNA clones on a single nylon filter. Complex probes were prepared from total brain mRNA of ILS or ISS mice by using reverse transcription and 33P labeling. The labeled probes were hybridized in parallel to the gene array filters. Data from GDA experiments were analyzed with SQL-Plus and Oracle 8. The GEM microarray includes 8,730 sequence-verified clones on a glass chip. Two fluorescently labeled probes were used to hybridize a microarray simultaneously. Data from GEM experiments were analyzed by using the GEMTools software package (Incyte). Differentially expressed genes identified from each method were confirmed by relative quantitative reverse transcription-polymerase chain reaction (RT-PCR). A total of 41 genes or expressed sequence tags (ESTs) display significant expression level differences between brains of ILS and ISS mice after GDA, GEM1 hybridization, and quantitative RT-PCR confirmation. Among them, 18 clones were expressed higher in ILS mice, and 23 clones were expressed higher in ISS mice. The individual gene or EST's function and mapping information have been analyzed. This study identified 41 genes that are differentially expressed between brains of ILS and ISS mice. Some of them may have biological relevance in mediation of phenotypic variation between ILS and ISS mice for ethanol sensitivity. This study also demonstrates that parallel gene expression comparison with high-density cDNA arrays is a rapid and efficient way to discover potential genes and pathways involved in alcoholism and alcohol-related physiologic processes.

The GEM-T2 gravitational model

NASA Technical Reports Server (NTRS)

Marsh, J. G.; Lerch, F. J.; Putney, B. H.; Felsentreger, T. L.; Sanchez, B. V.; Klosko, S. M.; Patel, G. B.; Robbins, J. W.; Williamson, R. G.; Engelis, T. E.

1989-01-01

The GEM-T2 is the latest in a series of Goddard Earth Models of the terrestrial field. It was designed to bring modeling capabilities one step closer towards ultimately determining the TOPEX/Poseidon satellite's radial position to an accuracy of 10-cm RMS (root mean square). It also improves models of the long wavelength geoid to support many oceanographic and geophysical applications. The GEM-T2 extends the spherical harmonic field to include more than 600 coefficients above degree 36 (which was the limit for its predecessor, GEM-T1). Like GEM-T1, it was produced entirely from satellite tracking data, but it now uses nearly twice as many satellites (31 vs. 17), contains four times the number of observations (2.4 million), has twice the number of data arcs (1132), and utilizes precise laser tracking from 11 satellites. The estimation technique for the solution has been augmented to include an optimum data weighting procedure with automatic error calibration for the gravitational parameters. Results for the GEM-T2 error calibration indicate significant improvement over previous satellite-only models. The error of commission in determining the geoid has been reduced from 155 cm in GEM-T1 to 105 cm for GEM-T2 for the 36 x 36 portion of the field, and 141 cm for the entire model. The orbital accuracies achieved using GEM-T2 are likewise improved. Also, the projected radial error on the TOPEX satellite orbit indicates 9.4 cm RMS for GEM-T2, compared to 24.1 cm for GEM-T1.

GEM at 10: a decade's experience with the Guideline Elements Model.

PubMed

Hajizadeh, Negin; Kashyap, Nitu; Michel, George; Shiffman, Richard N

2011-01-01

The Guideline Elements Model (GEM) was developed in 2000 to organize the information contained in clinical practice guidelines using XML and to represent guideline content in a form that can be understood by human readers and processed by computers. In this work, we systematically reviewed the literature to better understand how GEM was being used, potential barriers to its use, and suggestions for improvement. Fifty external and twelve internally produced publications were identified and analyzed. GEM was used most commonly for modeling and ontology creation. Other investigators applied GEM for knowledge extraction and data mining, for clinical decision support for guideline generation. The GEM Cutter software-used to markup guidelines for translation into XML- has been downloaded 563 times since 2000. Although many investigators found GEM to be valuable, others critiqued its failure to clarify guideline semantics, difficulties in markup, and the fact that GEM files are not usually executable.

OSI-027 inhibits pancreatic ductal adenocarcinoma cell proliferation and enhances the therapeutic effect of gemcitabine both in vitro and in vivo.

PubMed

Zhi, Xiao; Chen, Wei; Xue, Fei; Liang, Chao; Chen, Bryan Wei; Zhou, Yue; Wen, Liang; Hu, Liqiang; Shen, Jian; Bai, Xueli; Liang, Tingbo

2015-09-22

Despite its relative rarity, pancreatic ductal adenocarcinoma (PDAC) accounts for a large percentage of cancer deaths. In this study, we investigated the in vitro efficacy of OSI-027, a selective inhibitor of mammalian target of rapamycin complex 1 (mTORC1) and mTORC2, to treat PDAC cell lines alone, and in combination with gemcitabine (GEM). Similarly, we tested the efficacy of these two compounds in a xenograft mouse model of PDAC. OSI-027 significantly arrested cell cycle in G0/G1 phase, inhibited the proliferation of Panc-1, BxPC-3, and CFPAC-1 cells, and downregulated mTORC1, mTORC2, phospho-Akt, phospho-p70S6K, phospho-4E-BP1, cyclin D1, and cyclin-dependent kinase 4 (CDK4) in these cells. Moreover, OSI-027 also downregulated multidrug resistance (MDR)-1, which has been implicated in chemotherapy resistance in PDAC cells and enhanced apoptosis induced by GEM in the three PDAC cell lines. When combined, OSI-027 with GEM showed synergistic cytotoxic effects both in vitro and in vivo. This is the first evidence of the efficacy of OSI-027 in PDAC and may provide the groundwork for a new clinical PDAC therapy.

OSI-027 inhibits pancreatic ductal adenocarcinoma cell proliferation and enhances the therapeutic effect of gemcitabine both in vitro and in vivo

PubMed Central

Xue, Fei; Liang, Chao; Chen, Bryan Wei; Zhou, Yue; Wen, Liang; Hu, Liqiang; Shen, Jian; Bai, Xueli; Liang, Tingbo

2015-01-01

Despite its relative rarity, pancreatic ductal adenocarcinoma (PDAC) accounts for a large percentage of cancer deaths. In this study, we investigated the in vitro efficacy of OSI-027, a selective inhibitor of mammalian target of rapamycin complex 1 (mTORC1) and mTORC2, to treat PDAC cell lines alone, and in combination with gemcitabine (GEM). Similarly, we tested the efficacy of these two compounds in a xenograft mouse model of PDAC. OSI-027 significantly arrested cell cycle in G0/G1 phase, inhibited the proliferation of Panc-1, BxPC-3, and CFPAC-1 cells, and downregulated mTORC1, mTORC2, phospho-Akt, phospho-p70S6K, phospho-4E-BP1, cyclin D1, and cyclin-dependent kinase 4 (CDK4) in these cells. Moreover, OSI-027 also downregulated multidrug resistance (MDR)-1, which has been implicated in chemotherapy resistance in PDAC cells and enhanced apoptosis induced by GEM in the three PDAC cell lines. When combined, OSI-027 with GEM showed synergistic cytotoxic effects both in vitro and in vivo. This is the first evidence of the efficacy of OSI-027 in PDAC and may provide the groundwork for a new clinical PDAC therapy. PMID:26213847

Genetically Engineered Macrophages: A Potential Platform for Cancer Immunotherapy.

PubMed

Moyes, Kara W; Lieberman, Nicole A P; Kreuser, Shannon A; Chinn, Harrison; Winter, Conrad; Deutsch, Gail; Hoglund, Virginia; Watson, Reid; Crane, Courtney A

2017-02-01

In spite of their successes against hematologic malignancies, immunotherapeutic interventions for the treatment of patients with glioblastoma (GBM) have thus far been unsuccessful. This is in part due to the presence of a tumor microenvironment that fosters neoplastic growth and protects the tumor from destruction by the immune system. A novel genetically engineered macrophage-based platform has been developed with the potential to minimize the effects of the suppressive tumor microenvironment and improve innate and adaptive antitumor immune responses. A newly described lentiviral expression system was validated for the generation of transduced monocytes and monocyte-derived macrophages, and transgene expression was shown to be stable over the course of weeks to months, both in vitro and in a mouse xenograft model of GBM. Furthermore, the genetically engineered macrophages (GEMs) neither caused morbidity in animals nor contributed to accelerated tumor growth. The versatility of GEMs is also highlighted by showing that they can be engineered to secrete proteins that either reduce immune suppression, such as the soluble transforming growth factor beta receptor II, or promote immune cell activation, by expressing interleukin 21. There is also the potential to prevent GEM-mediated immune suppression by using the CRISPR system to knock out genes responsible for dysfunction of cytotoxic cells, including interleukin 10 and programmed death-ligand 1. Together, these results suggest that GEMs are an ideal cell type for transforming the tumor microenvironment and enhancing antitumor immunity. Importantly, it is anticipated that these findings will have broad applicability to other types of tumors with microenvironments that currently preclude successful immunotherapeutic approaches.

Gravity model improvement using GEOS-3 (GEM 9 and 10)

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Klosko, S. M.; Laubscher, R. E.; Wagner, C. A.

1977-01-01

The use of collocation permitted GEM 9 to be a larger field than previous derived satellite models, GEM 9 having harmonics complete to 20 x 20 with selected higher degree terms. The satellite data set has approximately 840,000 observations, of which 200,000 are laser ranges taken on 9 satellites equipped with retroreflectors. GEM 10 is complete to 22 x 22 with selected higher degree terms out to degree and order 30 amounting to a total of 592 coefficients. Comparisons with surface gravity and altimeter data indicate a substantial improvement in GEM 9 over previous satellite solutions; GEM 9 is in even closer agreement with surface data than the previously published GEM 6 solution which contained surface gravity. In particular the free air gravity anomalies calculated from GEM 9 and a surface gravity solution are in excellent agreement for the high degree terms.

Gemcitabine-based polymer-drug conjugate for enhanced anticancer effect in colon cancer.

PubMed

Liang, Tie-Jun; Zhou, Zhong-Mei; Cao, Ying-Qing; Ma, Ming-Ze; Wang, Xiao-Jun; Jing, Kai

2016-11-20

In this study, we have demonstrated gemcitabine (GEM)-conjugated amphiphilic biodegradable polymeric drug carriers. Our aim was to increase the chemotherapeutic potential of GEM in colon cancer by forming a unique polymer-drug conjugates. The polymer-drug conjugate micelles were nanosized with a typical spherical shape. The GEM-conjugated methoxy poly(ethylene glycol)-poly(lactic acid) (GEM-PL) exhibited a controlled release of drug in both the pH conditions. The developed GEM-PL efficiently killed the HT29 cancers cells in a typical time dependent manner. The clonogenic assay further confirmed the superior anticancer effect of GEM-PL which showed least number of colonies. GEM-PL formulation exhibited a significantly higher apoptosis of cancer cells (∼25%) when stained using Annexin-V/PI kit. Conjugation of GEM to the mPEG-PLA significantly enhanced the blood circulation potential in animal model compared to that of free GEM. GEM-PL could prevent quick elimination of the drug and can provide sufficient time for the greater accumulation of GEM at the tumor sites. GEM-PL showed a remarkable tumor regression effect as evident from the lowest tumor volume in HT-29 containing tumor model. Overall, mPEG-PLA/GEM conjugates showed the potential of polymer-based drug targeting and might hold significant clinical potential in the treatment of colon cancers. Copyright © 2016 Elsevier B.V. All rights reserved.

Overview of the Gems Model of Volunteer Administration (Generate, Educate, Mobilize and Sustain)

ERIC Educational Resources Information Center

Culp, Ken, III

2012-01-01

To organize and coordinate the efforts of many volunteers, a framework for volunteer engagement is needed. The "GEMS" Model of volunteer administration was developed to assist Extension professionals and volunteer coordinators to effectively administer volunteer programs without delivering the program themselves. The GEMS Model is…

Synthesis of GEMS from Shock-accelerated Crystalline Dust in Superbubbles: Model and Predictions

NASA Technical Reports Server (NTRS)

Westphal, Andrew J.; Bradley, John P.

2005-01-01

GEMS (Glass Embedded with Metals and Sulfides) are highly enigmatic yet common components of anhydrous IDPs. We have recently proposed a model of GEMS formation from shock-accelerated crystalline dust in superbubbles[1] which explains the three most perplexing properties of GEMS: pseudomorphism[2], their chemistry[3], and their size range. In this Abstract, we briefly review the main points of the model, and suggest tests that will either prove or rule out this hypothesis.

Simulation of the West African monsoon onset using the HadGEM3-RA regional climate model

NASA Astrophysics Data System (ADS)

Diallo, Ismaïla; Bain, Caroline L.; Gaye, Amadou T.; Moufouma-Okia, Wilfran; Niang, Coumba; Dieng, Mame D. B.; Graham, Richard

2014-08-01

The performance of the Hadley Centre Global Environmental Model version 3 regional climate model (HadGEM3-RA) in simulating the West African monsoon (WAM) is investigated. We focus on performance for monsoon onset timing and for rainfall totals over the June-July-August (JJA) season and on the model's representation of the underlying dynamical processes. Experiments are driven by the ERA-Interim reanalysis and follow the CORDEX experimental protocol. Simulations with the HadGEM3 global model, which shares a common physical formulation with HadGEM3-RA, are used to gain insight into the causes of HadGEM3-RA simulation errors. It is found that HadGEM3-RA simulations of monsoon onset timing are realistic, with an error in mean onset date of two pentads. However, the model has a dry bias over the Sahel during JJA of 15-20 %. Analysis suggests that this is related to errors in the positioning of the Saharan heat low, which is too far south in HadGEM3-RA and associated with an insufficient northward reach of the south-westerly low-level monsoon flow and weaker moisture convergence over the Sahel. Despite these biases HadGEM3-RA's representation of the general rainfall distribution during the WAM appears superior to that of ERA-Interim when using Global Precipitation Climatology Project or Tropical Rain Measurement Mission data as reference. This suggests that the associated dynamical features seen in HadGEM3-RA can complement the physical picture available from ERA-Interim. This approach is supported by the fact that the global HadGEM3 model generates realistic simulations of the WAM without the benefit of pseudo-observational forcing at the lateral boundaries; suggesting that the physical formulation shared with HadGEM3-RA, is able to represent the driving processes. HadGEM3-RA simulations confirm previous findings that the main rainfall peak near 10°N during June-August is maintained by a region of mid-tropospheric ascent located, latitudinally, between the cores of the African Easterly Jet and Tropical Easterly Jet that intensifies around the time of onset. This region of ascent is weaker and located further south near 5°N in the driving ERA-Interim reanalysis, for reasons that may be related to the coarser resolution or the physics of the underlying model, and this is consistent with a less realistic latitudinal rainfall profile than found in the HadGEM3-RA simulations.

Geopotential models of the Earth from satellite tracking, altimeter and surface gravity observations: GEM-T3 and GEM-T3S

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Nerem, R. S.; Putney, B. H.; Felsentreger, T. L.; Sanchez, B. V.; Klosko, S. M.; Patel, G. B.; Williamson, R. G.; Chinn, D. S.; Chan, J. C.

1992-01-01

Improved models of the Earth's gravitational field have been developed from conventional tracking data and from a combination of satellite tracking, satellite altimeter and surface gravimetric data. This combination model represents a significant improvement in the modeling of the gravity field at half-wavelengths of 300 km and longer. Both models are complete to degree and order 50. The Goddard Earth Model-T3 (GEM-T3) provides more accurate computation of satellite orbital effects as well as giving superior geoidal representation from that achieved in any previous GEM. A description of the models, their development and an assessment of their accuracy is presented. The GEM-T3 model used altimeter data from previous satellite missions in estimating the orbits, geoid, and dynamic height fields. Other satellite tracking data are largely the same as was used to develop GEM-T2, but contain certain important improvements in data treatment and expanded laser tracking coverage. Over 1300 arcs of tracking data from 31 different satellites have been used in the solution. Reliable estimates of the model uncertainties via error calibration and optimal data weighting techniques are discussed.

Gaseous Elemental Mercury (GEM) Emissions from Snow Surfaces in Northern New York

PubMed Central

Maxwell, J. Alexander; Holsen, Thomas M.; Mondal, Sumona

2013-01-01

Snow surface-to-air exchange of gaseous elemental mercury (GEM) was measured using a modified Teflon fluorinated ethylene propylene (FEP) dynamic flux chamber (DFC) in a remote, open site in Potsdam, New York. Sampling was conducted during the winter months of 2011. The inlet and outlet of the DFC were coupled with a Tekran Model 2537A mercury (Hg) vapor analyzer using a Tekran Model 1110 two port synchronized sampler. The surface GEM flux ranged from −4.47 ng m−2 hr−1 to 9.89 ng m−2 hr−1. For most sample periods, daytime GEM flux was strongly correlated with solar radiation. The average nighttime GEM flux was slightly negative and was not well correlated with any of the measured meteorological variables. Preliminary, empirical models were developed to estimate GEM emissions from snow surfaces in northern New York. These models suggest that most, if not all, of the Hg deposited with and to snow is reemitted to the atmosphere. PMID:23874951

Gaseous elemental mercury (GEM) emissions from snow surfaces in northern New York.

PubMed

Maxwell, J Alexander; Holsen, Thomas M; Mondal, Sumona

2013-01-01

Snow surface-to-air exchange of gaseous elemental mercury (GEM) was measured using a modified Teflon fluorinated ethylene propylene (FEP) dynamic flux chamber (DFC) in a remote, open site in Potsdam, New York. Sampling was conducted during the winter months of 2011. The inlet and outlet of the DFC were coupled with a Tekran Model 2537A mercury (Hg) vapor analyzer using a Tekran Model 1110 two port synchronized sampler. The surface GEM flux ranged from -4.47 ng m(-2) hr(-1) to 9.89 ng m(-2) hr(-1). For most sample periods, daytime GEM flux was strongly correlated with solar radiation. The average nighttime GEM flux was slightly negative and was not well correlated with any of the measured meteorological variables. Preliminary, empirical models were developed to estimate GEM emissions from snow surfaces in northern New York. These models suggest that most, if not all, of the Hg deposited with and to snow is reemitted to the atmosphere.

Superior therapeutic efficacy of nab-paclitaxel over cremophor-based paclitaxel in locally advanced and metastatic models of human pancreatic cancer.

PubMed

Rajeshkumar, N V; Yabuuchi, Shinichi; Pai, Shweta G; Tong, Zeen; Hou, Shihe; Bateman, Scott; Pierce, Daniel W; Heise, Carla; Von Hoff, Daniel D; Maitra, Anirban; Hidalgo, Manuel

2016-08-09

Albumin-bound paclitaxel (nab-paclitaxel, nab-PTX) plus gemcitabine (GEM) combination has demonstrated efficient antitumour activity and statistically significant overall survival of patients with metastatic pancreatic ductal adenocarcinoma (PDAC) compared with GEM monotherapy. This regimen is currently approved as a standard of care treatment option for patients with metastatic PDAC. It is unclear whether cremophor-based PTX combined with GEM provide a similar level of therapeutic efficacy in PDAC. We comprehensively explored the antitumour efficacy, effect on metastatic dissemination, tumour stroma and survival advantage following GEM, PTX and nab-PTX as monotherapy or in combination with GEM in a locally advanced, and a highly metastatic orthotopic model of human PDAC. Nab-PTX treatment resulted in significantly higher paclitaxel tumour plasma ratio (1.98-fold), robust stromal depletion, antitumour efficacy (3.79-fold) and survival benefit compared with PTX treatment. PTX plus GEM treatment showed no survival gain over GEM monotherapy. However, nab-PTX in combination with GEM decreased primary tumour burden, metastatic dissemination and significantly increased median survival of animals compared with either agents alone. These therapeutic effects were accompanied by depletion of dense fibrotic tumour stroma and decreased proliferation of carcinoma cells. Notably, nab-PTX monotherapy was equivalent to nab-PTX plus GEM in providing survival advantage to mice in a highly aggressive metastatic PDAC model, indicating that nab-PTX could potentially stop the progression of late-stage pancreatic cancer. Our data confirmed that therapeutic efficacy of PTX and nab-PTX vary widely, and the contention that these agents elicit similar antitumour response was not supported. The addition of PTX to GEM showed no survival advantage, concluding that a clinical combination of PTX and GEM may unlikely to provide significant survival advantage over GEM monotherapy and may not be a viable alternative to the current standard-of-care nab-PTX plus GEM regimen for the treatment of PDAC patients.

Gravity model improvement using GEOS 3 /GEM 9 and 10/. [and Seasat altimetry data

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Wagner, C. A.; Klosko, S. M.; Laubscher, R. E.

1979-01-01

Although errors in previous gravity models have produced large uncertainties in the orbital position of GEOS 3, significant improvement has been obtained with new geopotential solutions, Goddard Earth Model (GEM) 9 and 10. The GEM 9 and 10 solutions for the potential coefficients and station coordinates are presented along with a discussion of the new techniques employed. Also presented and discussed are solutions for three fundamental geodetic reference parameters, viz. the mean radius of the earth, the gravitational constant, and mean equatorial gravity. Evaluation of the gravity field is examined together with evaluation of GEM 9 and 10 for orbit determination accuracy. The major objectives of GEM 9 and 10 are achieved. GEOS 3 orbital accuracies from these models are about 1 m in their radial components for 5-day arc lengths. Both models yield significantly improved results over GEM solutions when compared to surface gravimetry, Skylab and GEOS 3 altimetry, and highly accurate BE-C (Beacon Explorer-C) laser ranges. The new values of the parameters discussed are given.

Gravitational field modes GEM 3 and 4

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Wagner, C. A.; Putney, B. H.; Sandson, M. L.; Brownd, J. E.; Richardson, J. A.; Taylor, W. A.

1972-01-01

A refinement in the satellite geopotential solution for a Goddard Earth Model (GEM 3) was obtained. The solution includes the addition of two low inclination satellites, SAS at 3 deg and PEOLE at 15 deg, and is based upon 27 close earth satellites containing some 400,000 observations of electronic, laser, and optical data. In addition, a new combination satellite/gravimetry solution (GEM 4) was derived. The new model includes 61 center of mass tracking station locations with data from GRARR, Laser, MOTS, Baker-Nunn, and NWL Tranet Doppler tracking sites. Improvement was obtained for the zonal coefficients of the new models and is shown by tests on the long period perturbations of the orbits. Individual zonal coefficients agree very closely among different models that contain low inclination satellites. Tests of models with surface gravity data show that the GEM 3 satellite model has significantly better agreement with the gravimetry data than the GEM 1 satellite model, and that it also has better agreement with the gravimetry data than the 1969 SAO Standard Earth 2 model.

Comparative verification between GEM model and official aviation terminal forecasts

NASA Technical Reports Server (NTRS)

Miller, Robert G.

1988-01-01

The Generalized Exponential Markov (GEM) model uses the local standard airways observation (SAO) to predict hour-by-hour the following elements: temperature, pressure, dew point depression, first and second cloud-layer height and amount, ceiling, total cloud amount, visibility, wind, and present weather conditions. GEM is superior to persistence at all projections for all elements in a large independent sample. A minute-by-minute GEM forecasting system utilizing the Automated Weather Observation System (AWOS) is under development.

Hyaluronic acid-coated, prodrug-based nanostructured lipid carriers for enhanced pancreatic cancer therapy.

PubMed

Lu, Zhihe; Su, Jingrong; Li, Zhengrong; Zhan, Yuzhu; Ye, Decai

2017-01-01

Gemcitabine (GEM) and Baicalein (BCL) are reported to have anti-tumor effects including pancreatic cancer. Hyaluronic acid (HA) can bind to over-expressed receptors in various kinds of cancer cells. The aim of this study is to develop prodrugs containing HA, BCL and GEM, and construct nanomedicine incorporate GEM and BCL in the core and HA on the surface. This system could target the cancer cells and co-deliver the drugs. GEM-stearic acid lipid prodrug (GEM-SA) and hyaluronic acid-amino acid-baicalein prodrug (HA-AA-BCL) were synthesized. Then, GEM and BCL prodrug-based targeted nanostructured lipid carriers (HA-GEM-BCL NLCs) were prepared by the nanoprecipitation technique. The in vitro cytotoxicity studies of the NLCs were evaluated on AsPC1 pancreatic cancer cell line. In vivo anti-tumor effects were observed on the murine-bearing pancreatic cancer model. HA-GEM-BCL NLCs were effective in entering pancreatic cancer cells over-expressing HA receptors, and showed cytotoxicity of tumor cells in vitro. In vivo study revealed significant tumor growth inhibition ability of HA-GEM-BCL NLCs in murine pancreatic cancer model. It could be concluded that HA-GEM-BCL NLCs could be featured as promising co-delivery, tumor-targeted nanomedicine for the treatment of cancers.

Modelling two-way interactions between atmospheric pollution and weather using high-resolution GEM-MACH

NASA Astrophysics Data System (ADS)

Makar, Paul; Gong, Wanmin; Pabla, Balbir; Cheung, Philip; Milbrandt, Jason; Gravel, Sylvie; Moran, Michael; Gilbert, Samuel; Zhang, Junhua; Zheng, Qiong

2013-04-01

The Global Environmental Multiscale (GEM) model is the source of the Canadian government's operational numerical weather forecast guidance, and GEM-MACH is the Canadian operational air-quality forecast model. GEM-MACH comprises GEM and the 'Modelling Air-quality and Chemistry' module, a gas-phase, aqueous-phase and aerosol chemistry and microphysics subroutine package called from within GEM's physics module. The present operational GEM-MACH model is "on-line" (both chemistry and meteorology are part of the same modelling structure) but is not fully coupled (weather variables are provided as inputs to the chemistry, but the chemical variables are not used to modify the weather). In this work, we describe modifications made to GEM-MACH as part of the 2nd phase of the Air Quality Model Evaluation International Initiative, in order to bring the model to a fully coupled status and present the results of initial tests comparing uncoupled and coupled versions of the model to observations for a high-resolution forecasting system. Changes to GEM's cloud microphysics and radiative transfer packages were carried out to allow two-way coupling. The cloud microphysics package used here is the Milbrandt-Yau 2-moment (MY2) bulk microphysics scheme, which solves prognostic equations for the total droplet number concentration and the mass mixing ratios of six hydrometeor categories. Here, we have replaced the original cloud condensation nucleation parameterization of MY2 (empirically relating supersaturation and CCN number) with the aerosol activation scheme of Abdul-Razzak and Ghan (2002). The latter scheme makes use of the particle size and speciation distribution of GEM-MACH's chemistry code as well as meteorological inputs to predict the number of aerosol particles activated to form cloud droplets, which is then used in the MY2 microphysics. The radiative transfer routines of GEM assume a default constant concentration aerosol profile between the surface and 1500m, and a single set of optical properties for extinction, single scattering albedo, and asymmetry factor. Ozone in GEM is taken from a default 2D (latitude-height) monthly climatology. We have replaced the ozone below the model top with the ozone calculated from GEM-MACH's chemistry, and the default optical parameters associated with particulate matter have been replaced by those calculated with a Mie scattering algorithm. These changes were found to have a significant local impact on both weather and air-quality predictions for short-term test runs of 24 hours duration. In that particular case, the maximum number concentration of cloud droplets decreased by an order of magnitude, while the number of raindrops increased by an order of magnitude and changed in spatial distribution, but surface rainfall was found to decrease. The differences in meteorology had a profound effect on local pollutant plume concentrations at specific locations and times. We compare results over a longer time period, using two parallel forecast systems, one with feedbacks between meteorology and chemistry, one without. Both nest GEM-MACH from a North American domain (10 km horizontal grid spacing) to a 1535 x 1360 km, 2.5 km domain. These systems will be evaluated against monitoring networks within the high resolution domain.

Comment on "The shape and composition of interstellar silicate grains"

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bradley, J P; Ishii, H

2007-09-27

In the paper entitled 'The shape and composition of interstellar silicate grains' (A & A, 462, 667-676 (2007)), Min et al. explore non-spherical grain shape and composition in modeling the interstellar 10 and 20 {micro}m extinction features. This progression towards more realistic models is vitally important to enabling valid comparisons between dust observations and laboratory measurements. Min et al. proceed to compare their model results with GEMS (glass with embedded metals and sulfides) from IDPs (interplanetary dust particles) and to discuss the nature and origin of GEMS. Specifically, they evaluate the hypothesis of Bradley (1994) that GEMS are interstellar (IS)more » amorphous silicates. From a comparison of the mineralogy, chemical compositions, and infrared (IR) spectral properties of GEMS with their modeling results, Min et al. conclude: 'GEMS are, in general, not unprocessed leftovers from the diffuse ISM'. This conclusion is based, however, on erroneous and incomplete GEMS data. It is important to clarify first that Bradley (1994) never proposed that GEMS are unprocessed leftovers from the diffuse ISM, nor did he suggest that individual subnanogram mass GEMS are a representative sampling of the enormous mass of silicates in the diffuse ISM. Bradley (1994) simply showed that GEMS properties are consistent with those of IS amorphous silicates. It is widely accepted that circumstellar outflows are important sources of IS silicates, and whether GEMS are processed or not, the circumstellar heritage of some has been rigorously confirmed through measurements of non-solar oxygen (O) isotope abundances (Messenger et al., 2003; Floss et al., 2006). Keller et al. (2000) assert that even GEMS without detectable O isotope anomalies are probably also extrasolar IS silicates because they are embedded in carbonaceous material with non-solar D/H isotopic composition. (Much of the silicate dust in the ISM may be isotopically homogenized (Zhukovska et al., 2007)). Recent measurements show that the elemental compositions of GEMS with non-solar isotopic compositions are 'remarkably similar' to those with solar isotopic compositions (Keller & Messenger, 2007). About 80% of all isotopically anomalous IS silicates identified to date are GEMS with detectable and variable O isotopic memories of a circumstellar ancestry (Messenger, 2007). Bradley (1999) proposed that GEMS are IS silicates from 'a presolar interstellar molecular cloud, presumably the local molecular cloud from which the solar system formed'. Although based on incorrect data (detailed below), Min et al. propose that most GEMS actually formed in the presolar molecular cloud, and they further propose that none of them are IS silicates. IS silicate sources include molecular clouds, circumstellar outflows, supernovae, and even recently discovered black hole winds (Molster & Waters; 2003; Jones, 2005; Zhukovska et al. 2007; Markwick-Kemper et al. 2007). The average IS 10 {micro}m extinction feature observed along lines of sight towards the galactic center (modeled by Min et al.) presumably provides a good average for IS silicates, but it cannot distinguish amorphous silicates originating in the presolar molecular cloud from amorphous silicates originating in other interstellar molecular clouds or indeed other sources of amorphous IS silicates. Even if most GEMS accreted in the presolar molecular cloud, then they must also be representatives of some portion of the IS amorphous silicate population. Laboratory heating experiments indicate it is highly unlikely that GEMS were modified in a protoplanetary accretion disk environment (Brownlee et al. 2005). In summary, Min et al. conclude from their modeling of the shape and composition of IS silicates that the properties of GEMS are generally inconsistent with those of IS silicates. First, it has been rigorously confirmed via ion microprobe measurements that some GEMS are indeed presolar IS silicates. Second, regardless of whether GEMS, or components of GEMS, originated in presolar circumstellar outflows or a presolar molecular cloud they are all IS silicates. Third, key GEMS data reported in Min et al. are inaccurate. Had complete isotopic, chemical, mineralogical and infrared (IR) spectral properties of GEMS been considered, Min et al. may have concluded that the properties of GEMS, although not an exact match, are generally consistent with those of amorphous silicates in the ISM.« less

A gravity model for crustal dynamics (GEM-L2)

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Klosko, S. M.; Patel, G. B.; Wagner, C. A.

1985-01-01

The Laser Geodynamics Satellite (Lageos) was the first NASA satellite which was placed into orbit exclusively for laser ranging applications. Lageos was designed to permit extremely accurate measurements of the earth's rotation and the movement of the tectonic plates. The Goddard earth model, GEM-L2, was derived mainly on the basis of the precise laser ranging data taken on many satellites. Douglas et al. (1984) have demonstrated the utility of GEM-L2 in detecting the broadest ocean circulations. As Lageos data constitute the most extensive set of satellite laser observations ever collected, the incorporation of 2-1/2 years of these data into the Goddard earth models (GEM) has substantially advanced the geodynamical objectives. The present paper discusses the products of the GEM-L2 solution.

RGK protein-mediated impairment of slow depolarization- dependent Ca2+ entry into developing myotubes

PubMed Central

Romberg, Christin F; Beqollari, Donald; Meza, Ulises; Bannister, Roger A

2014-01-01

Three physiological functions have been described for the skeletal muscle 1,4-dihydropyridine receptor (CaV1.1): (1) voltage-sensor for excitation-contraction (EC) coupling, (2) L-type Ca2+ channel, and (3) voltage-sensor for slow depolarization-dependent Ca2+ entry. Members of the RGK (Rad, Rem, Rem2, Gem/Kir) family of monomeric GTP-binding proteins are potent inhibitors of the former two functions of CaV1.1. However, it is not known whether the latter function that has been attributed to CaV1.1 is subject to modulation by RGK proteins. Thus, the purpose of this study was to determine whether Rad, Gem and/or Rem inhibit the slowly developing, persistent Ca2+ entry that is dependent on the voltage-sensing capability of CaV1.1. As a means to investigate this question, Venus fluorescent protein-fused RGK proteins (V-Rad, V-Rem and V-Gem) were overexpressed in “normal” mouse myotubes. We observed that such overexpression of V-Rad, V-Rem or V-Gem in myotubes caused marked changes in morphology of the cells. As shown previously for YFP-Rem, both L-type current and EC coupling were also impaired greatly in myotubes expressing either V-Rad or V-Gem. The reductions in L-type current and EC coupling were paralleled by reductions in depolarization-induced Ca2+ entry. Our observations provide the first evidence of modulation of this enigmatic Ca2+ entry pathway peculiar to skeletal muscle. PMID:24476902

The DcpS inhibitor RG3039 improves survival, function and motor unit pathologies in two SMA mouse models

PubMed Central

Gogliotti, Rocky G.; Cardona, Herminio; Singh, Jasbir; Bail, Sophie; Emery, Carina; Kuntz, Nancy; Jorgensen, Michael; Durens, Madel; Xia, Bing; Barlow, Courtenay; Heier, Christopher R.; Plasterer, Heather L.; Jacques, Vincent; Kiledjian, Megerditch; Jarecki, Jill; Rusche, James; DiDonato, Christine J.

2013-01-01

Spinal muscular atrophy (SMA) is caused by insufficient levels of the survival motor neuron (SMN) protein due to the functional loss of the SMN1 gene and the inability of its paralog, SMN2, to fully compensate due to reduced exon 7 splicing efficiency. Since SMA patients have at least one copy of SMN2, drug discovery campaigns have sought to identify SMN2 inducers. C5-substituted quinazolines increase SMN2 promoter activity in cell-based assays and a derivative, RG3039, has progressed to clinical testing. It is orally bioavailable, brain-penetrant and has been shown to be an inhibitor of the mRNA decapping enzyme, DcpS. Our pharmacological characterization of RG3039, reported here, demonstrates that RG3039 can extend survival and improve function in two SMA mouse models of varying disease severity (Taiwanese 5058 Hemi and 2B/− SMA mice), and positively impacts neuromuscular pathologies. In 2B/− SMA mice, RG3039 provided a >600% survival benefit (median 18 days to >112 days) when dosing began at P4, highlighting the importance of early intervention. We determined the minimum effective dose and the associated pharmacokinetic (PK) and exposure relationship of RG3039 and DcpS inhibition ex vivo. These data support the long PK half-life with extended pharmacodynamic outcome of RG3039 in 2B/− SMA mice. In motor neurons, RG3039 significantly increased both the average number of cells with gems and average number of gems per cell, which is used as an indirect measure of SMN levels. These studies contribute to dose selection and exposure estimates for the first studies with RG3039 in human subjects. PMID:23736298

Building Single-Cell Models of Planktonic Metabolism Using PSAMM

NASA Astrophysics Data System (ADS)

Dufault-Thompson, K.; Zhang, Y.; Steffensen, J. L.

2016-02-01

The Genome-scale models (GEMs) of metabolic networks simulate the metabolic activities of individual cells by integrating omics data with biochemical and physiological measurements. GEMs were applied in the simulation of various photo-, chemo-, and heterotrophic organisms and provide significant insights into the function and evolution of planktonic cells. Despite the quick accumulation of GEMs, challenges remain in assembling the individual cell-based models into community-level models. Among various problems, the lack of consistencies in model representation and model quality checking has hindered the integration of individual GEMs and can lead to erroneous conclusions in the development of new modeling algorithms. Here, we present a Portable System for the Analysis of Metabolic Models (PSAMM). Along with the software a novel format of model representation was developed to enhance the readability of model files and permit the inclusion of heterogeneous, model-specific annotation information. A number of quality checking procedures was also implemented in PSAMM to ensure stoichiometric balance and to identify unused reactions. Using a case study of Shewanella piezotolerans WP3, we demonstrated the application of PSAMM in simulating the coupling of carbon utilization and energy production pathways under low-temperature and high-pressure stress. Applying PSAMM, we have also analyzed over 50 GEMs in the current literature and released an updated collection of the models with corrections on a number of common inconsistencies. Overall, PSAMM opens up new opportunities for integrating individual GEMs for the construction and mathematical simulation of community-level models in the scope of entire ecosystems.

GEM System: automatic prototyping of cell-wide metabolic pathway models from genomes.

PubMed

Arakawa, Kazuharu; Yamada, Yohei; Shinoda, Kosaku; Nakayama, Yoichi; Tomita, Masaru

2006-03-23

Successful realization of a "systems biology" approach to analyzing cells is a grand challenge for our understanding of life. However, current modeling approaches to cell simulation are labor-intensive, manual affairs, and therefore constitute a major bottleneck in the evolution of computational cell biology. We developed the Genome-based Modeling (GEM) System for the purpose of automatically prototyping simulation models of cell-wide metabolic pathways from genome sequences and other public biological information. Models generated by the GEM System include an entire Escherichia coli metabolism model comprising 968 reactions of 1195 metabolites, achieving 100% coverage when compared with the KEGG database, 92.38% with the EcoCyc database, and 95.06% with iJR904 genome-scale model. The GEM System prototypes qualitative models to reduce the labor-intensive tasks required for systems biology research. Models of over 90 bacterial genomes are available at our web site.

Overexpression of survival motor neuron improves neuromuscular function and motor neuron survival in mutant SOD1 mice.

PubMed

Turner, Bradley J; Alfazema, Neza; Sheean, Rebecca K; Sleigh, James N; Davies, Kay E; Horne, Malcolm K; Talbot, Kevin

2014-04-01

Spinal muscular atrophy results from diminished levels of survival motor neuron (SMN) protein in spinal motor neurons. Low levels of SMN also occur in models of amyotrophic lateral sclerosis (ALS) caused by mutant superoxide dismutase 1 (SOD1) and genetic reduction of SMN levels exacerbates the phenotype of transgenic SOD1(G93A) mice. Here, we demonstrate that SMN protein is significantly reduced in the spinal cords of patients with sporadic ALS. To test the potential of SMN as a modifier of ALS, we overexpressed SMN in 2 different strains of SOD1(G93A) mice. Neuronal overexpression of SMN significantly preserved locomotor function, rescued motor neurons, and attenuated astrogliosis in spinal cords of SOD1(G93A) mice. Despite this, survival was not prolonged, most likely resulting from SMN mislocalization and depletion of gems in motor neurons of symptomatic mice. Our results reveal that SMN upregulation slows locomotor deficit onset and motor neuron loss in this mouse model of ALS. However, disruption of SMN nuclear complexes by high levels of mutant SOD1, even in the presence of SMN overexpression, might limit its survival promoting effects in this specific mouse model. Studies in emerging mouse models of ALS are therefore warranted to further explore the potential of SMN as a modifier of ALS. Copyright © 2014 Elsevier Inc. All rights reserved.

The GEM-Mars general circulation model for Mars: Description and evaluation

NASA Astrophysics Data System (ADS)

Neary, L.; Daerden, F.

2018-01-01

GEM-Mars is a gridpoint-based three-dimensional general circulation model (GCM) of the Mars atmosphere extending from the surface to approximately 150 km based on the GEM (Global Environmental Multiscale) model, part of the operational weather forecasting and data assimilation system for Canada. After the initial modification for Mars, the model has undergone considerable changes. GEM-Mars is now based on GEM 4.2.0 and many physical parameterizations have been added for Mars-specific atmospheric processes and surface-atmosphere exchange. The model simulates interactive carbon dioxide-, dust-, water- and atmospheric chemistry cycles. Dust and water ice clouds are radiatively active. Size distributed dust is lifted by saltation and dust devils. The model includes 16 chemical species (CO2, Argon, N2, O2, CO, H2O, CH4, O3, O(1D), O, H, H2, OH, HO2, H2O2 and O2(a1Δg)) and has fully interactive photochemistry (15 reactions) and gas-phase chemistry (31 reactions). GEM-Mars provides a good simulation of the water and ozone cycles. A variety of other passive tracers can be included for dedicated studies, such as the emission of methane. The model has both a hydrostatic and non-hydrostatic formulation, and together with a flexible grid definition provides a single platform for simulations on a variety of horizontal scales. The model code is fully parallelized using OMP and MPI. Model results are evaluated by comparison to a selection of observations from instruments on the surface and in orbit, relating to atmosphere and surface temperature and pressure, dust and ice content, polar ice mass, polar argon, and global water and ozone vertical columns. GEM-Mars will play an integral part in the analysis and interpretation of data that is received by the NOMAD spectrometer on the ESA-Roskosmos ExoMars Trace Gas Orbiter. The present paper provides an overview of the current status and capabilities of the GEM-Mars model and lays the foundations for more in-depth studies in support of the NOMAD mission.

Grohar: Automated Visualization of Genome-Scale Metabolic Models and Their Pathways.

PubMed

Moškon, Miha; Zimic, Nikolaj; Mraz, Miha

2018-05-01

Genome-scale metabolic models (GEMs) have become a powerful tool for the investigation of the entire metabolism of the organism in silico. These models are, however, often extremely hard to reconstruct and also difficult to apply to the selected problem. Visualization of the GEM allows us to easier comprehend the model, to perform its graphical analysis, to find and correct the faulty relations, to identify the parts of the system with a designated function, etc. Even though several approaches for the automatic visualization of GEMs have been proposed, metabolic maps are still manually drawn or at least require large amount of manual curation. We present Grohar, a computational tool for automatic identification and visualization of GEM (sub)networks and their metabolic fluxes. These (sub)networks can be specified directly by listing the metabolites of interest or indirectly by providing reference metabolic pathways from different sources, such as KEGG, SBML, or Matlab file. These pathways are identified within the GEM using three different pathway alignment algorithms. Grohar also supports the visualization of the model adjustments (e.g., activation or inhibition of metabolic reactions) after perturbations are induced.

Genome-Scale Metabolic Modeling of Archaea Lends Insight into Diversity of Metabolic Function

PubMed Central

2017-01-01

Decades of biochemical, bioinformatic, and sequencing data are currently being systematically compiled into genome-scale metabolic reconstructions (GEMs). Such reconstructions are knowledge-bases useful for engineering, modeling, and comparative analysis. Here we review the fifteen GEMs of archaeal species that have been constructed to date. They represent primarily members of the Euryarchaeota with three-quarters comprising representative of methanogens. Unlike other reviews on GEMs, we specially focus on archaea. We briefly review the GEM construction process and the genealogy of the archaeal models. The major insights gained during the construction of these models are then reviewed with specific focus on novel metabolic pathway predictions and growth characteristics. Metabolic pathway usage is discussed in the context of the composition of each organism's biomass and their specific energy and growth requirements. We show how the metabolic models can be used to study the evolution of metabolism in archaea. Conservation of particular metabolic pathways can be studied by comparing reactions using the genes associated with their enzymes. This demonstrates the utility of GEMs to evolutionary studies, far beyond their original purpose of metabolic modeling; however, much needs to be done before archaeal models are as extensively complete as those for bacteria. PMID:28133437

An improved model of the Earth's gravity field - GEM-T3

NASA Technical Reports Server (NTRS)

Nerem, R. S.; Lerch, F. J.; Putney, B. H.; Klosko, S. M.; Patel, G. B.; Williamson, R. G.; Pavlis, E. C.

1992-01-01

An improved model of the Earth's gravitational field is developed from a combination of conventional satellite tracking, satellite altimeter measurements, and surface gravimetric data (GEM-T3). This model gives improved performance for the computation of satellite orbital effects as well as a superior representation of the geoid from that achieved in any previous Goddard Earth Model. The GEM-T3 model uses altimeter data directly to define the orbits, geoid, and dynamic height fields. Altimeter data acquired during the GEOS-3 (1975-1976), SEASAT (1978), and GEOSAT (1986-1987) missions were used to compute GEM-T3. In order to accommodate the non-gravitational signal mapped by these altimeters, spherical harmonic models of the dynamic height of the ocean surface were recovered for each mission simultaneously with the gravitational field. The tracking data utilized in the solution includes more than 1300 arcs of data encompassing 31 different satellites. The observational data base is highly dependent on SLR, but also includes TRANET Doppler, optical, S-Band average range-rate and satellite-to-satellite tracking acquired between ATS-6 and GEOS-3. The GEM-T3 model has undergone extensive error calibration.

A COMSOL-GEMS interface for modeling coupled reactive-transport geochemical processes

NASA Astrophysics Data System (ADS)

Azad, Vahid Jafari; Li, Chang; Verba, Circe; Ideker, Jason H.; Isgor, O. Burkan

2016-07-01

An interface was developed between COMSOL MultiphysicsTM finite element analysis software and (geo)chemical modeling platform, GEMS, for the reactive-transport modeling of (geo)chemical processes in variably saturated porous media. The two standalone software packages are managed from the interface that uses a non-iterative operator splitting technique to couple the transport (COMSOL) and reaction (GEMS) processes. The interface allows modeling media with complex chemistry (e.g. cement) using GEMS thermodynamic database formats. Benchmark comparisons show that the developed interface can be used to predict a variety of reactive-transport processes accurately. The full functionality of the interface was demonstrated to model transport processes, governed by extended Nernst-Plank equation, in Class H Portland cement samples in high pressure and temperature autoclaves simulating systems that are used to store captured carbon dioxide (CO2) in geological reservoirs.

Unsupervised Gaussian Mixture-Model With Expectation Maximization for Detecting Glaucomatous Progression in Standard Automated Perimetry Visual Fields.

PubMed

Yousefi, Siamak; Balasubramanian, Madhusudhanan; Goldbaum, Michael H; Medeiros, Felipe A; Zangwill, Linda M; Weinreb, Robert N; Liebmann, Jeffrey M; Girkin, Christopher A; Bowd, Christopher

2016-05-01

To validate Gaussian mixture-model with expectation maximization (GEM) and variational Bayesian independent component analysis mixture-models (VIM) for detecting glaucomatous progression along visual field (VF) defect patterns (GEM-progression of patterns (POP) and VIM-POP). To compare GEM-POP and VIM-POP with other methods. GEM and VIM models separated cross-sectional abnormal VFs from 859 eyes and normal VFs from 1117 eyes into abnormal and normal clusters. Clusters were decomposed into independent axes. The confidence limit (CL) of stability was established for each axis with a set of 84 stable eyes. Sensitivity for detecting progression was assessed in a sample of 83 eyes with known progressive glaucomatous optic neuropathy (PGON). Eyes were classified as progressed if any defect pattern progressed beyond the CL of stability. Performance of GEM-POP and VIM-POP was compared to point-wise linear regression (PLR), permutation analysis of PLR (PoPLR), and linear regression (LR) of mean deviation (MD), and visual field index (VFI). Sensitivity and specificity for detecting glaucomatous VFs were 89.9% and 93.8%, respectively, for GEM and 93.0% and 97.0%, respectively, for VIM. Receiver operating characteristic (ROC) curve areas for classifying progressed eyes were 0.82 for VIM-POP, 0.86 for GEM-POP, 0.81 for PoPLR, 0.69 for LR of MD, and 0.76 for LR of VFI. GEM-POP was significantly more sensitive to PGON than PoPLR and linear regression of MD and VFI in our sample, while providing localized progression information. Detection of glaucomatous progression can be improved by assessing longitudinal changes in localized patterns of glaucomatous defect identified by unsupervised machine learning.

An improved model of the Earth's gravitational field: GEM-T1

NASA Technical Reports Server (NTRS)

Marsh, J. G.; Lerch, F. J.; Christodoulidis, D. C.; Putney, B. H.; Felsentreger, T. L.; Sanchez, B. V.; Smith, D. E.; Klosko, S. M.; Martin, T. V.; Pavlis, E. C.

1987-01-01

Goddard Earth Model T1 (GEM-T1), which was developed from an analysis of direct satellite tracking observations, is the first in a new series of such models. GEM-T1 is complete to degree and order 36. It was developed using consistent reference parameters and extensive earth and ocean tidal models. It was simultaneously solved for gravitational and tidal terms, earth orientation parameters, and the orbital parameters of 580 individual satellite arcs. The solution used only satellite tracking data acquired on 17 different satellites and is predominantly based upon the precise laser data taken by third generation systems. In all, 800,000 observations were used. A major improvement in field accuracy was obtained. For marine geodetic applications, long wavelength geoidal modeling is twice as good as in earlier satellite-only GEM models. Orbit determination accuracy has also been substantially advanced over a wide range of satellites that have been tested.

The GEMS Model of Volunteer Administration.

ERIC Educational Resources Information Center

Culp, Ken, III; Deppe, Catherine A.; Castillo, Jaime X.; Wells, Betty J.

1998-01-01

Describes GEMS, a spiral model that profiles volunteer administration. Components include Generate, Educate, Mobilize, and Sustain, four sets of processes that span volunteer recruitment and selection to retention or disengagement. (SK)

Use of Excel ion exchange equilibrium solver with WinGEMS to model and predict NPE distribution in the Mead/Westvaco Evandale, TX, hardwood bleach plant

Treesearch

Christopher Litvay; Alan Rudie; Peter Hart

2003-01-01

An Excel spreadsheet developed to solve the ion-exchange equilibrium in wood pulps has been linked by dynamic data exchange to WinGEMS and used to model the non-process elements in the hardwood bleach plant of the Mead/Westvaco Evandale mill. Pulp and filtrate samples were collected from the diffusion washers and final wash press of the bleach plant. A WinGEMS model of...

The General Ensemble Biogeochemical Modeling System (GEMS) and its applications to agricultural systems in the United States: Chapter 18

USGS Publications Warehouse

Liu, Shuguang; Tan, Zhengxi; Chen, Mingshi; Liu, Jinxun; Wein, Anne; Li, Zhengpeng; Huang, Shengli; Oeding, Jennifer; Young, Claudia; Verma, Shashi B.; Suyker, Andrew E.; Faulkner, Stephen P.

2012-01-01

The General Ensemble Biogeochemical Modeling System (GEMS) was es in individual models, it uses multiple site-scale biogeochemical models to perform model simulations. Second, it adopts Monte Carlo ensemble simulations of each simulation unit (one site/pixel or group of sites/pixels with similar biophysical conditions) to incorporate uncertainties and variability (as measured by variances and covariance) of input variables into model simulations. In this chapter, we illustrate the applications of GEMS at the site and regional scales with an emphasis on incorporating agricultural practices. Challenges in modeling soil carbon dynamics and greenhouse emissions are also discussed.

Unique attributes of cyanobacterial metabolism revealed by improved genome-scale metabolic modeling and essential gene analysis

DOE PAGES

Broddrick, Jared T.; Rubin, Benjamin E.; Welkie, David G.; ...

2016-12-20

The model cyanobacterium, Synechococcus elongatus PCC 7942, is a genetically tractable obligate phototroph that is being developed for the bioproduction of high-value chemicals. Genome-scale models (GEMs) have been successfully used to assess and engineer cellular metabolism; however, GEMs of phototrophic metabolism have been limited by the lack of experimental datasets for model validation and the challenges of incorporating photon uptake. In this paper, we develop a GEM of metabolism in S. elongatus using random barcode transposon site sequencing (RB-TnSeq) essential gene and physiological data specific to photoautotrophic metabolism. The model explicitly describes photon absorption and accounts for shading, resulting inmore » the characteristic linear growth curve of photoautotrophs. GEM predictions of gene essentiality were compared with data obtained from recent dense-transposon mutagenesis experiments. This dataset allowed major improvements to the accuracy of the model. Furthermore, discrepancies between GEM predictions and the in vivo dataset revealed biological characteristics, such as the importance of a truncated, linear TCA pathway, low flux toward amino acid synthesis from photorespiration, and knowledge gaps within nucleotide metabolism. Finally, coupling of strong experimental support and photoautotrophic modeling methods thus resulted in a highly accurate model of S. elongatus metabolism that highlights previously unknown areas of S. elongatus biology.« less

Unique attributes of cyanobacterial metabolism revealed by improved genome-scale metabolic modeling and essential gene analysis

PubMed Central

Broddrick, Jared T.; Rubin, Benjamin E.; Welkie, David G.; Du, Niu; Mih, Nathan; Diamond, Spencer; Lee, Jenny J.; Golden, Susan S.; Palsson, Bernhard O.

2016-01-01

The model cyanobacterium, Synechococcus elongatus PCC 7942, is a genetically tractable obligate phototroph that is being developed for the bioproduction of high-value chemicals. Genome-scale models (GEMs) have been successfully used to assess and engineer cellular metabolism; however, GEMs of phototrophic metabolism have been limited by the lack of experimental datasets for model validation and the challenges of incorporating photon uptake. Here, we develop a GEM of metabolism in S. elongatus using random barcode transposon site sequencing (RB-TnSeq) essential gene and physiological data specific to photoautotrophic metabolism. The model explicitly describes photon absorption and accounts for shading, resulting in the characteristic linear growth curve of photoautotrophs. GEM predictions of gene essentiality were compared with data obtained from recent dense-transposon mutagenesis experiments. This dataset allowed major improvements to the accuracy of the model. Furthermore, discrepancies between GEM predictions and the in vivo dataset revealed biological characteristics, such as the importance of a truncated, linear TCA pathway, low flux toward amino acid synthesis from photorespiration, and knowledge gaps within nucleotide metabolism. Coupling of strong experimental support and photoautotrophic modeling methods thus resulted in a highly accurate model of S. elongatus metabolism that highlights previously unknown areas of S. elongatus biology. PMID:27911809

Unique attributes of cyanobacterial metabolism revealed by improved genome-scale metabolic modeling and essential gene analysis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Broddrick, Jared T.; Rubin, Benjamin E.; Welkie, David G.

The model cyanobacterium, Synechococcus elongatus PCC 7942, is a genetically tractable obligate phototroph that is being developed for the bioproduction of high-value chemicals. Genome-scale models (GEMs) have been successfully used to assess and engineer cellular metabolism; however, GEMs of phototrophic metabolism have been limited by the lack of experimental datasets for model validation and the challenges of incorporating photon uptake. In this paper, we develop a GEM of metabolism in S. elongatus using random barcode transposon site sequencing (RB-TnSeq) essential gene and physiological data specific to photoautotrophic metabolism. The model explicitly describes photon absorption and accounts for shading, resulting inmore » the characteristic linear growth curve of photoautotrophs. GEM predictions of gene essentiality were compared with data obtained from recent dense-transposon mutagenesis experiments. This dataset allowed major improvements to the accuracy of the model. Furthermore, discrepancies between GEM predictions and the in vivo dataset revealed biological characteristics, such as the importance of a truncated, linear TCA pathway, low flux toward amino acid synthesis from photorespiration, and knowledge gaps within nucleotide metabolism. Finally, coupling of strong experimental support and photoautotrophic modeling methods thus resulted in a highly accurate model of S. elongatus metabolism that highlights previously unknown areas of S. elongatus biology.« less

Greenhouse Gas Emissions Model (GEM) for Medium- and Heavy-Duty Vehicle Compliance

EPA Pesticide Factsheets

EPA’s Greenhouse Gas Emissions Model (GEM) is a free, desktop computer application that estimates the greenhouse gas (GHG) emissions and fuel efficiency performance of specific aspects of heavy-duty vehicles.

C4GEM, a Genome-Scale Metabolic Model to Study C4 Plant Metabolism1[W][OA

PubMed Central

de Oliveira Dal’Molin, Cristiana Gomes; Quek, Lake-Ee; Palfreyman, Robin William; Brumbley, Stevens Michael; Nielsen, Lars Keld

2010-01-01

Leaves of C4 grasses (such as maize [Zea mays], sugarcane [Saccharum officinarum], and sorghum [Sorghum bicolor]) form a classical Kranz leaf anatomy. Unlike C3 plants, where photosynthetic CO2 fixation proceeds in the mesophyll (M), the fixation process in C4 plants is distributed between two cell types, the M cell and the bundle sheath (BS) cell. Here, we develop a C4 genome-scale model (C4GEM) for the investigation of flux distribution in M and BS cells during C4 photosynthesis. C4GEM, to our knowledge, is the first large-scale metabolic model that encapsulates metabolic interactions between two different cell types. C4GEM is based on the Arabidopsis (Arabidopsis thaliana) model (AraGEM) but has been extended by adding reactions and transporters responsible to represent three different C4 subtypes (NADP-ME [for malic enzyme], NAD-ME, and phosphoenolpyruvate carboxykinase). C4GEM has been validated for its ability to synthesize 47 biomass components and consists of 1,588 unique reactions, 1,755 metabolites, 83 interorganelle transporters, and 29 external transporters (including transport through plasmodesmata). Reactions in the common C4 model have been associated with well-annotated C4 species (NADP-ME subtypes): 3,557 genes in sorghum, 11,623 genes in maize, and 3,881 genes in sugarcane. The number of essential reactions not assigned to genes is 131, 135, and 156 in sorghum, maize, and sugarcane, respectively. Flux balance analysis was used to assess the metabolic activity in M and BS cells during C4 photosynthesis. Our simulations were consistent with chloroplast proteomic studies, and C4GEM predicted the classical C4 photosynthesis pathway and its major effect in organelle function in M and BS. The model also highlights differences in metabolic activities around photosystem I and photosystem II for three different C4 subtypes. Effects of CO2 leakage were also explored. C4GEM is a viable framework for in silico analysis of cell cooperation between M and BS cells during photosynthesis and can be used to explore C4 plant metabolism. PMID:20974891

Acute and delayed toxicity of gemcitabine administered during isolated lung perfusion: a preclinical dose-escalation study in pigs.

PubMed

Pagès, Pierre-Benoit; Derangere, Valentin; Bouchot, Olivier; Magnin, Guy; Charon-Barra, Céline; Lokiec, François; Ghiringhelli, François; Bernard, Alain

2015-08-01

Colorectal cancer is the third most commonly diagnosed cancer worldwide, with up to 25% of patients presenting with metastases at the time of diagnosis. Despite pulmonary metastasectomy many patients go on to develop pulmonary recurrence, which might be linked to the presence of lung micrometastases. In this setting, the adjuvant administration of high-dose chemotherapy by isolated lung perfusion (ILP) has shown encouraging results. However, the tolerance to and efficacy of modern gemcitabine (GEM)-based chemotherapy regimens during adjuvant ILP remain unknown. We conducted a dose-escalating preclinical study to evaluate the immediate and delayed toxicity of GEM in a pig model to define dose-limiting toxicity (DLT) and maximum tolerated concentration. Twenty-three pigs were given increasing concentrations of GEM during ILP, and were awakened at the end of the procedure. The concentrations of GEM were 40, 80, 160, 320, 640 and 1280 µg/ml. Serum and lung samples were taken to measure GEM concentrations. Pulmonary damage was evaluated by histological examination and cleaved caspase-3 detection. Immediate and delayed (1 month) toxicity were recorded. All of the animals underwent successful ILP with GEM. No systemic leak was observed. The three pigs that received a concentration of GEM of 1280 µg/ml died of hypoxia after lung recirculation at the end of the procedure. Eleven pigs survived for 1 month. Major lung toxicity was observed for the concentration of GEM of 640 µg/ml, both at the end of the procedure and after 1 month. DLT was defined at the concentration of 640 µg/ml and the maximum tolerated dose (MTD) was defined at the concentration of 320 µg/ml. ILP with GEM is a safe and reproducible technique in this large-animal model, which includes 1 month of survival. The MTD in this pig model was a concentration of GEM of 320 µg/ml. © The Author 2014. Published by Oxford University Press on behalf of the European Association for Cardio-Thoracic Surgery. All rights reserved.

A geopotential model from satellite tracking, altimeter, and surface gravity data: GEM-T3

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Nerem, R. S.; Putney, B. H.; Felsentreger, T. L.; Sanchez, B. V.; Marshall, J. A.; Klosko, S. M.; Patel, G. B.; Williamson, R. G.; Chinn, D. S.

1994-01-01

An improved model of Earth's gravitational field, Goddard Earth Model T-3 (GEM-T3), has been developed from a combination of satellite tracking, satellite altimeter, and surface gravimetric data. GEM-T3 provides a significant improvement in the modeling of the gravity field at half wavelengths of 400 km and longer. This model, complete to degree and order 50, yields more accurate satellite orbits and an improved geoid representation than previous Goddard Earth Models. GEM-T3 uses altimeter data from GEOS 3 (1975-1976), Seasat (1978) and Geosat (1986-1987). Tracking information used in the solution includes more than 1300 arcs of data encompassing 31 different satellites. The recovery of the long-wavelength components of the solution relies mostly on highly precise satellite laser ranging (SLR) data, but also includes Tracking Network (TRANET) Doppler, optical, and satellite-to-satellite tracking acquired between the ATS 6 and GEOS 3 satellites. The main advances over GEM-T2 (beyond the inclusion of altimeter and surface gravity information which is essential for the resolution of the shorter wavelength geoid) are some improved tracking data analysis approaches and additional SLR data. Although the use of altimeter data has greatly enhanced the modeling of the ocean geoid between 65 deg N and 60 deg S latitudes in GEM-T3, the lack of accurate detailed surface gravimetry leaves poor geoid resolution over many continental regions of great tectonic interest (e.g., Himalayas, Andes). Estimates of polar motion, tracking station coordinates, and long-wavelength ocean tidal terms were also made (accounting for 6330 parameters). GEM-T3 has undergone error calibration using a technique based on subset solutions to produce reliable error estimates. The calibration is based on the condition that the expected mean square deviation of a subset gravity solution from the full set values is predicted by the solutions' error covariances. Data weights are iteratively adjusted until this condition for the error calibration is satisfied. In addition, gravity field tests were performed on strong satellite data sets withheld from the solution (thereby ensuring their independence). In these tests, the performance of the subset models on the withheld observations is compared to error projections based on their calibrated error covariances. These results demonstrate that orbit accuracy projections are reliable for new satellites which were not included in GEM-T3.

Public release of the ISC-GEM Global Instrumental Earthquake Catalogue (1900-2009)

USGS Publications Warehouse

Storchak, Dmitry A.; Di Giacomo, Domenico; Bondára, István; Engdahl, E. Robert; Harris, James; Lee, William H.K.; Villaseñor, Antonio; Bormann, Peter

2013-01-01

The International Seismological Centre–Global Earthquake Model (ISC–GEM) Global Instrumental Earthquake Catalogue (1900–2009) is the result of a special effort to substantially extend and improve currently existing global catalogs to serve the requirements of specific user groups who assess and model seismic hazard and risk. The data from the ISC–GEM Catalogue would be used worldwide yet will prove absolutely essential in those regions where a high seismicity level strongly correlates with a high population density.

An improved error assessment for the GEM-T1 gravitational model

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Marsh, J. G.; Klosko, S. M.; Pavlis, E. C.; Patel, G. B.; Chinn, D. S.; Wagner, C. A.

1988-01-01

Several tests were designed to determine the correct error variances for the Goddard Earth Model (GEM)-T1 gravitational solution which was derived exclusively from satellite tracking data. The basic method employs both wholly independent and dependent subset data solutions and produces a full field coefficient estimate of the model uncertainties. The GEM-T1 errors were further analyzed using a method based upon eigenvalue-eigenvector analysis which calibrates the entire covariance matrix. Dependent satellite and independent altimetric and surface gravity data sets, as well as independent satellite deep resonance information, confirm essentially the same error assessment. These calibrations (utilizing each of the major data subsets within the solution) yield very stable calibration factors which vary by approximately 10 percent over the range of tests employed. Measurements of gravity anomalies obtained from altimetry were also used directly as observations to show that GEM-T1 is calibrated. The mathematical representation of the covariance error in the presence of unmodeled systematic error effects in the data is analyzed and an optimum weighting technique is developed for these conditions. This technique yields an internal self-calibration of the error model, a process which GEM-T1 is shown to approximate.

The histone methyltransferase G9a as a therapeutic target to override gemcitabine resistance in pancreatic cancer

PubMed Central

Pan, Mei-Ren; Hsu, Ming-Chuan; Luo, Chi-Wen; Chen, Li-Tzong; Shan, Yan-Shen; Hung, Wen-Chun

2016-01-01

Gemcitabine (GEM) resistance is a critical issue for pancreatic cancer treatment. The involvement of epigenetic modification in GEM resistance is still unclear. We established a GEM-resistant subline PANC-1-R from the parental PANC-1 pancreatic cancer cells and found the elevation of various chromatin-modifying enzymes including G9a in GEM-resistant cells. Ectopic expression of G9a in PANC-1 cells increased GEM resistance while inactivation of G9a in PANC-1-R cells reduced it. Challenge of PANC-1 cells with GEM increased the expression of stemness markers including CD133, nestin and Lgr5 and promoted sphere forming activity suggesting chemotherapy enriched cancer cells with stem-like properties. Inhibition of G9a in PANC-1-R cells reduced stemness and invasiveness and sensitized the cells to GEM. We revealed interleukin-8 (IL-8) is a downstream effector of G9a to increase GEM resistance. G9a-overexpressing PANC-1-R cells exhibited autocrine IL-8/CXCR1/2 stimulation to increase GEM resistance which could be decreased by anti-IL-8 antibody and G9a inhibitor. IL-8 released by cancer cells also activated pancreatic stellate cell (PSC) to increase GEM resistance. In orthotopic animal model, GEM could not suppress tumor growth of PANC-1-R cells and eventually promoted tumor metastasis. Combination with G9a inhibitor and GEM reduced tumor growth, metastasis, IL-8 expression and PSC activation in animals. Finally, we showed that overexpression of G9a correlated with poor survival and early recurrence in pancreatic cancer patients. Collectively, our results suggest G9a is a therapeutic target to override GEM resistance in the treatment of pancreatic cancer. PMID:27531902

Toward improved guideline quality: using the COGS statement with GEM.

PubMed

Shiffman, Richard N; Michel, Georges

2004-01-01

The Conference on Guideline Standardization (COGS) was convened to create a standardized documentation checklist for clinical practice guidelines in an effort to promote guideline quality and facilitate implementation. The statement was created by a multidisciplinary panel using a rigorous consensus development methodology. The Guideline Elements Model (GEM) provides a standardized approach to representing guideline documents using XML. In this work, we demonstrate the sufficiency of GEM for describing COGS components. Using the mapping between COGS and GEM elements we built an XSLT application to examine a guideline's adherence (or non-adherence) to the COGS checklist. Once a guideline has been marked up according to the GEM hierarchy, its knowledge content can be reused in multiple ways.

Sensitivity analysis of the GEMS soil organic carbon model to land cover land use classification uncertainties under different climate scenarios in Senegal

USGS Publications Warehouse

Dieye, A.M.; Roy, David P.; Hanan, N.P.; Liu, S.; Hansen, M.; Toure, A.

2012-01-01

Spatially explicit land cover land use (LCLU) change information is needed to drive biogeochemical models that simulate soil organic carbon (SOC) dynamics. Such information is increasingly being mapped using remotely sensed satellite data with classification schemes and uncertainties constrained by the sensing system, classification algorithms and land cover schemes. In this study, automated LCLU classification of multi-temporal Landsat satellite data were used to assess the sensitivity of SOC modeled by the Global Ensemble Biogeochemical Modeling System (GEMS). The GEMS was run for an area of 1560 km2 in Senegal under three climate change scenarios with LCLU maps generated using different Landsat classification approaches. This research provides a method to estimate the variability of SOC, specifically the SOC uncertainty due to satellite classification errors, which we show is dependent not only on the LCLU classification errors but also on where the LCLU classes occur relative to the other GEMS model inputs.

Genetic consultation embedded in a gynecologic oncology clinic improves compliance with guideline-based care.

PubMed

Senter, Leigha; O'Malley, David M; Backes, Floor J; Copeland, Larry J; Fowler, Jeffery M; Salani, Ritu; Cohn, David E

2017-10-01

Analyze the impact of embedding genetic counseling services in gynecologic oncology on clinician referral and patient uptake of cancer genetics services. Data were reviewed for a total of 737 newly diagnosed epithelial ovarian cancer patients seen in gynecologic oncology at a large academic medical center including 401 from 11/2011-7/2014 (a time when cancer genetics services were provided as an off-site consultation). These data were compared to data from 8/2014-9/2016 (n=336), when the model changed to the genetics embedded model (GEM), incorporating a cancer genetic counselor on-site in the gynecologic oncology clinic. A statistically significant difference in proportion of patients referred pre- and post-GEM was observed (21% vs. 44%, p<0.0001). Pre-GEM, only 38% of referred patients were actually scheduled for genetics consultation and post-GEM 82% were scheduled (p<0.00001). The difference in the time from referral to scheduling in genetics was also statistically significant (3.92months pre-GEM vs. 0.79months post-GEM, p<0.00001) as was the time from referral to completion of genetics consultation (2.52months pre-GEM vs. 1.67months post-GEM, p<0.01). Twenty-five percent of patients referred post GEM were seen by the genetic counselor on the same day as the referral. Providing cancer genetics services on-site in gynecologic oncology and modifying the process by which patients are referred and scheduled significantly increases referral to cancer genetics and timely completion of genetics consultation, improving compliance with guideline-based care. Practice changes are critical given the impact of genetic test results on treatment and familial cancer risks. Copyright © 2017 Elsevier Inc. All rights reserved.

Comments on Lambeck and Coleman - 'The earth's shape and gravity field: A report of progress from 1958 to 1982'

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Klosko, S. M.; Wagner, C. A.

1986-01-01

The accuracy and validation of global gravity models based on satellite data are discussed, responding to the statistical analysis of Lambeck and Coleman (1983) (LC). Included are an evaluation of the LC error spectra, a summary of independent-observation calibrations of the error estimates of the Goddard Earth Models (GEM) 9 and L2 (Lerch et al., 1977, 1979, 1982, 1983, and 1985), a comparison of GEM-L2 with GRIM-3B (Reigber et al., 1983), a comparison of recent models with LAGEOS laser ranging, and a summary of resonant-orbit model tests. It is concluded that the accuracy of GEMs 9, 10, and L2 is much higher than claimed by LC, that the GEMs are in good agreement with independent observations and with GRIM-3B, and that the GEM calibrations were adequate. In a reply by LC, a number of specific questions regarding the error estimates are addressed, and it is pointed out that the intermodel discrepancies of the greatest geophysical interest are those in the higher-order coefficients, not discussed in the present comment. It is argued that the differences among the geoid heights of even the most recent models are large enough to call for considerable improvements.

GAS eleven node thermal model (GEM)

NASA Technical Reports Server (NTRS)

Butler, Dan

1988-01-01

The Eleven Node Thermal Model (GEM) of the Get Away Special (GAS) container was originally developed based on the results of thermal tests of the GAS container. The model was then used in the thermal analysis and design of several NASA/GSFC GAS experiments, including the Flight Verification Payload, the Ultraviolet Experiment, and the Capillary Pumped Loop. The model description details the five cu ft container both with and without an insulated end cap. Mass specific heat values are also given so that transient analyses can be performed. A sample problem for each configuration is included as well so that GEM users can verify their computations. The model can be run on most personal computers with a thermal analyzer solution routine.

Idealized climate change simulations with a high-resolution physical model: HadGEM3-GC2

NASA Astrophysics Data System (ADS)

Senior, Catherine A.; Andrews, Timothy; Burton, Chantelle; Chadwick, Robin; Copsey, Dan; Graham, Tim; Hyder, Pat; Jackson, Laura; McDonald, Ruth; Ridley, Jeff; Ringer, Mark; Tsushima, Yoko

2016-06-01

Idealized climate change simulations with a new physical climate model, HadGEM3-GC2 from The Met Office Hadley Centre are presented and contrasted with the earlier MOHC model, HadGEM2-ES. The role of atmospheric resolution is also investigated. The Transient Climate Response (TCR) is 1.9 K/2.1 K at N216/N96 and Effective Climate Sensitivity (ECS) is 3.1 K/3.2 K at N216/N96. These are substantially lower than HadGEM2-ES (TCR: 2.5 K; ECS: 4.6 K) arising from a combination of changes in the size of climate feedbacks. While the change in the net cloud feedback between HadGEM3 and HadGEM2 is relatively small, there is a change in sign of its longwave and a strengthening of its shortwave components. At a global scale, there is little impact of the increase in atmospheric resolution on the future climate change signal and even at a broad regional scale, many features are robust including tropical rainfall changes, however, there are some significant exceptions. For the North Atlantic and western Europe, the tripolar pattern of winter storm changes found in most CMIP5 models is little impacted by resolution but for the most intense storms, there is a larger percentage increase in number at higher resolution than at lower resolution. Arctic sea-ice sensitivity shows a larger dependence on resolution than on atmospheric physics.

GEM - The Global Earthquake Model

NASA Astrophysics Data System (ADS)

Smolka, A.

2009-04-01

Over 500,000 people died in the last decade due to earthquakes and tsunamis, mostly in the developing world, where the risk is increasing due to rapid population growth. In many seismic regions, no hazard and risk models exist, and even where models do exist, they are intelligible only by experts, or available only for commercial purposes. The Global Earthquake Model (GEM) answers the need for an openly accessible risk management tool. GEM is an internationally sanctioned public private partnership initiated by the Organisation for Economic Cooperation and Development (OECD) which will establish an authoritative standard for calculating and communicating earthquake hazard and risk, and will be designed to serve as the critical instrument to support decisions and actions that reduce earthquake losses worldwide. GEM will integrate developments on the forefront of scientific and engineering knowledge of earthquakes, at global, regional and local scale. The work is organized in three modules: hazard, risk, and socio-economic impact. The hazard module calculates probabilities of earthquake occurrence and resulting shaking at any given location. The risk module calculates fatalities, injuries, and damage based on expected shaking, building vulnerability, and the distribution of population and of exposed values and facilities. The socio-economic impact module delivers tools for making educated decisions to mitigate and manage risk. GEM will be a versatile online tool, with open source code and a map-based graphical interface. The underlying data will be open wherever possible, and its modular input and output will be adapted to multiple user groups: scientists and engineers, risk managers and decision makers in the public and private sectors, and the public-at- large. GEM will be the first global model for seismic risk assessment at a national and regional scale, and aims to achieve broad scientific participation and independence. Its development will occur in a coordinated global network of regional centers, with a high degree of interaction among the centers and the central secretariat. Broad acceptance of the models will be ensured by including local knowledge in all aspects of hazard and risk assessment and securing participation of local experts throughout development. All GEM efforts will be carried out using a common global software infrastructure and consensus standards. In accordance with principles of open-source development, and to ensure comprehensive global representation, contributions are welcomed and encouraged from a broad group of participants. To ensure uniformity and conformance with the highest scientific standards, all contributions, including models, tools, and data, will be rigorously vetted and independently tested. Recently the EUCENTRE in Pavia/Italy has been selected as the host institution of the GEM secretariat. The project will formally launch in early 2009 by creating the non-profit GEM foundation. While GEM serves a humanitarian imperative it is considered as offering a key to long-term economic development. GEM will enhance risk awareness at global, national and local scales. Greater risk awareness is a precondition for motivating public and private parties to investing into risk reduction and loss prevention, and to promote a greater use of financial risk transfer instruments.

Cost-effectiveness analysis of treatments for metastatic pancreatic cancer based on PRODIGE and MPACT trials.

PubMed

Zhou, Jing; Zhao, Rongce; Wen, Feng; Zhang, Pengfei; Wu, Yifan; Tang, Ruilei; Chen, Hongdou; Zhang, Jian; Li, Qiu

2016-06-02

Fluorouracil, leucovorin, irinotecan, oxaliplatin (FOLFIRINOX) and gemcitabine plus nab-paclitaxel (GEM-N) have shown a significant survival benefit for the treatment of metastatic pancreatic cancer. The objective of this study was to assess the cost-effectiveness of FOLFIRINOX versus GEM-N for treating metastatic pancreatic cancer based on the PRODIGE and MPACT trials. A decision model was performed to compare FOLFIRINOX with GEM-N. Primary base case data were identified from PRODIGE and MPACT trials. Costs were estimated and incremental cost-effectiveness ratio (ICER) was calculated at West China Hospital, Sichuan University, China. Survival benefits were reported in quality-adjusted life-years (QALY). Finally, sensitive analysis was performed by varying potentially modifiable parameters in the model. The base-case analysis showed that FOLFIRINOX cost $37,203.75 and yielded a survival of 0.67 QALY, and GEM-N cost $32,080.59 and yielded a survival of 0.51 QALY in the entire treatment. Thus, the ICER of FOLFIRINOX versus GEM-N was $32,019.75 per QALY gained. The GEM-N regimen was more cost-effective compared with the FOLFIRINOX regimen for the treatment of metastatic pancreatic cancer from a Chinese perspective.

Validation of PHITS Spallation Models from the Perspective of the Shielding Design of Transmutation Experimental Facility

NASA Astrophysics Data System (ADS)

Iwamoto, Hiroki; Meigo, Shin-ichiro

2017-09-01

The impact of different spallation models implemented in the particle transport code PHITS on the shielding design of Transmutation Experimental Facility is investigated. For 400-MeV proton incident on a lead-bismuth eutectic target, an effective dose rate at the end of a thick radiation shield (3-m-thick iron and 3-m-thick concrete) calculated by the Liège intranuclear cascade (INC) model version 4.6 (INCL4.6) coupled with the GEMcode (INCL4.6/GEM) yields about twice as high as the Bertini INC model (Bertini/GEM). A comparison with experimental data for 500-MeV proton incident on a thick lead target suggest that the prediction accuracy of INCL4.6/GEM would be better than that of Bertini/GEM. In contrast, it is found that the dose rates in beam ducts in front of targets calculated by the INCL4.6/GEMare lower than those by the Bertini/GEM. Since both models underestimate the experimental results for neutron-production doubledifferential cross sections at 180° for 140-MeV proton incident on carbon, iron, and gold targets, it is concluded that it is necessary to allow a margin for uncertainty caused by the spallation models, which is a factor of two, in estimating the dose rate induced by neutron streaming through a beam duct.

The Global Earthquake Model - Past, Present, Future

NASA Astrophysics Data System (ADS)

Smolka, Anselm; Schneider, John; Stein, Ross

2014-05-01

The Global Earthquake Model (GEM) is a unique collaborative effort that aims to provide organizations and individuals with tools and resources for transparent assessment of earthquake risk anywhere in the world. By pooling data, knowledge and people, GEM acts as an international forum for collaboration and exchange. Sharing of data and risk information, best practices, and approaches across the globe are key to assessing risk more effectively. Through consortium driven global projects, open-source IT development and collaborations with more than 10 regions, leading experts are developing unique global datasets, best practice, open tools and models for seismic hazard and risk assessment. The year 2013 has seen the completion of ten global data sets or components addressing various aspects of earthquake hazard and risk, as well as two GEM-related, but independently managed regional projects SHARE and EMME. Notably, the International Seismological Centre (ISC) led the development of a new ISC-GEM global instrumental earthquake catalogue, which was made publicly available in early 2013. It has set a new standard for global earthquake catalogues and has found widespread acceptance and application in the global earthquake community. By the end of 2014, GEM's OpenQuake computational platform will provide the OpenQuake hazard/risk assessment software and integrate all GEM data and information products. The public release of OpenQuake is planned for the end of this 2014, and will comprise the following datasets and models: • ISC-GEM Instrumental Earthquake Catalogue (released January 2013) • Global Earthquake History Catalogue [1000-1903] • Global Geodetic Strain Rate Database and Model • Global Active Fault Database • Tectonic Regionalisation Model • Global Exposure Database • Buildings and Population Database • Earthquake Consequences Database • Physical Vulnerabilities Database • Socio-Economic Vulnerability and Resilience Indicators • Seismic Source Models • Ground Motion (Attenuation) Models • Physical Exposure Models • Physical Vulnerability Models • Composite Index Models (social vulnerability, resilience, indirect loss) • Repository of national hazard models • Uniform global hazard model Armed with these tools and databases, stakeholders worldwide will then be able to calculate, visualise and investigate earthquake risk, capture new data and to share their findings for joint learning. Earthquake hazard information will be able to be combined with data on exposure (buildings, population) and data on their vulnerability, for risk assessment around the globe. Furthermore, for a truly integrated view of seismic risk, users will be able to add social vulnerability and resilience indices and estimate the costs and benefits of different risk management measures. Having finished its first five-year Work Program at the end of 2013, GEM has entered into its second five-year Work Program 2014-2018. Beyond maintaining and enhancing the products developed in Work Program 1, the second phase will have a stronger focus on regional hazard and risk activities, and on seeing GEM products used for risk assessment and risk management practice at regional, national and local scales. Furthermore GEM intends to partner with similar initiatives underway for other natural perils, which together are needed to meet the need for advanced risk assessment methods, tools and data to underpin global disaster risk reduction efforts under the Hyogo Framework for Action #2 to be launched in Sendai/Japan in spring 2015

3D Observation of GEMS by Electron Tomography

NASA Technical Reports Server (NTRS)

Matsuno, Junya; Miyake, Akira; Tsuchiyama, Akira; Nakamura-Messenger, Keiko; Messenger, Scott

2014-01-01

Amorphous silicates in chondritic porous interplanetary dust particles (CP-IDPs) coming from comets are dominated by glass with embedded metal and sulfides (GEMS). GEMS grains are submicron-sized rounded objects (typically 100-500) nm in diameter) with anaometer-sized (10-50 nm) Fe-Ni metal and sulfide grains embedded in an amorphous silicate matrix. Several formation processes for GEMS grains have been proposed so far, but these models are still being debated [2-5]. Bradley et al. proposed that GEMS grains are interstellar silicate dust that survived various metamorphism or alteration processes in the protoplanetary disk and that they are amorphiation products of crystalline silicates in the interstellar medium by sputter-deposition of cosmic ray irradiation, similar to space weathering [2,4]. This consideration is based on the observation of nano-sized crystals (approximately 10 nm) called relict grains in GEMS grains and their shapes are pseudomorphs to the host GEMS grains. On the other hand, Keller and Messenger proposed that most GEMS formed in the protoplanetary disk as condensates from high temperature gas [3,5]. This model is based on the fact that most GEMS grains have solar isotopic compositions and have extremely heterogeneous and non-solar elemental compositions. Keller and Messenger (2011) also reported that amorphous silicates in GEMS grains are surrounded by sulfide grains, which formed as sulfidization of metallic iron grains located on the GEMS surface. The previous studies were performed with 2D observation by using transmission electron microscopy (TEM) or scanning TEM (STEM). In order to understand the structure of GEMS grains described above more clearly, we observed 3D structure of GEMS grains by electron tomography using a TEM/STEM (JEM-2100F, JEOL) at Kyoto University. Electron tomography gives not only 3D structures but also gives higher spatial resolution (approximately a few nm) than that in conventional 2D image, which is restricted by sample thickness ) approx. or greater than 50 nm). Three cluster IDPs (L2036AA5 cluster4, L2009L8 cluster 13 and W726A2) were used for the observations. ID W726A2 was collected without silicon oil, which is ordinary used to collect IDPs, so this sample has no possibility of contaminations caused by silicon oil or solvent to rinse it [6]. The samples were embedded in epoxy risin and sliced into ultrathin sections (50-300 nm) using an ultramicotome. The sections were observed by BF-TEM and HAADF-STEM (high angle annular dark field-scanning TEM) modes. Images were obtained by rotating the sample tilt angle over a range of +/- 65 deg in 1 deg steps. The obtained images were reconstructed to slice images. Mineral phases in the slice images were estimated by comparing with a 2D elemental map obtained by an EDS (energy dispersive X-ray spectroscopy) system equipped in the TEM/STEM. Careful examination of the slice images confirmed that iron grains are embedded in the amorphous silicate matrix of the GEMS grains, but sulfide grains were mainly present on the surface of the amorphous silicate. These results are consistent with the model that GEMS grains formed as condensates [3,5], although more data are needed to conclude the origin of GEMS grains. The present study is the first successful example adapting the electron tomography to the IDPs. This type of analysis will be important for planetary material sciences in the future.

[Effects of Cultivation Soil Properties on the Transport of Genetically Engineered Microorganism in Huabei Plain].

PubMed

Zhang, Jing; Liu, Ping; Liu, Chun; Chen, Xiao-xuan; Zhang, Lei

2015-12-01

The transport of genetically engineered microorganism (GEM) in the soil is considered to be the important factor influencing the enhanced bioremediation of polluted soil. The transport of an atrazine-degrading GEM and its influencing factors were investigated in the saturated cultivation soil of Huabei Plain. The results showed that horizontal infiltration was the main mechanism of GEM transport in the saturated cultivation soil. The transport process could be simulated using the filtration model. Soil properties showed significant effects on pore water flow and GEM transport in saturated soil. When particle size, porosity and sand component of the soil increased, the hydraulic conductivity constant increased and filtration coefficient of GEM decreased in saturated soil, indicating the reduced retention of GEM in the soil. An increase in infiltration flow also increased hydraulic conductivity constant in saturated soil and consequently decreased filtration coefficient of GEM. When hydraulic conductivity constants ranged from 5.02 m · d⁻¹ to 6.70 m · d⁻¹ in the saturated soil, the filtration coefficients of GEM varied from 0.105 to 0.274. There was a significantly negative correlation between them.

A refined gravity model from Lageos /GEM-L2/

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Klosko, S. M.; Patel, G. B.

1982-01-01

Lageos satellite laser ranging (SLR) data taken over a 2.5 yr period were employed to develop the Goddard Earth Model GEM-L2, a refined gravity field model. Additional data was gathered with 30 other satellites, resulting in spherical harmonics through degree and order 20, based on over 600,000 measurements. The Lageos data was accurate down to 10 cm, after which the GEM 9 data were used to make adjustments past order 7. The resolution of long wavelength activity, through degree and order 4, was made possible by the Lageos data. The GEM-L2 model features a 20 x 20 geopotential, tracking station coordinates (20), 5-day polar motion and A1-UT1 values, and a GM value of 398,600.607 cu km/sq sec. The accuracy of station positioning has been raised to within 6 cm total position globally and within 1.8 cm in baselines. It is concluded that SLR is useful for measuring tectonic plate motions and inter-plate deformations.

Teamwork tools and activities within the hazard component of the Global Earthquake Model

NASA Astrophysics Data System (ADS)

Pagani, M.; Weatherill, G.; Monelli, D.; Danciu, L.

2013-05-01

The Global Earthquake Model (GEM) is a public-private partnership aimed at supporting and fostering a global community of scientists and engineers working in the fields of seismic hazard and risk assessment. In the hazard sector, in particular, GEM recognizes the importance of local ownership and leadership in the creation of seismic hazard models. For this reason, over the last few years, GEM has been promoting different activities in the context of seismic hazard analysis ranging, for example, from regional projects targeted at the creation of updated seismic hazard studies to the development of a new open-source seismic hazard and risk calculation software called OpenQuake-engine (http://globalquakemodel.org). In this communication we'll provide a tour of the various activities completed, such as the new ISC-GEM Global Instrumental Catalogue, and of currently on-going initiatives like the creation of a suite of tools for the creation of PSHA input models. Discussion, comments and criticism by the colleagues in the audience will be highly appreciated.

Code and Solution Verification of 3D Numerical Modeling of Flow in the Gust Erosion Chamber

NASA Astrophysics Data System (ADS)

Yuen, A.; Bombardelli, F. A.

2014-12-01

Erosion microcosms are devices commonly used to investigate the erosion and transport characteristics of sediments at the bed of rivers, lakes, or estuaries. In order to understand the results these devices provide, the bed shear stress and flow field need to be accurately described. In this research, the UMCES Gust Erosion Microcosm System (U-GEMS) is numerically modeled using Finite Volume Method. The primary aims are to simulate the bed shear stress distribution at the surface of the sediment core/bottom of the microcosm, and to validate the U-GEMS produces uniform bed shear stress at the bottom of the microcosm. The mathematical model equations are solved by on a Cartesian non-uniform grid. Multiple numerical runs were developed with different input conditions and configurations. Prior to developing the U-GEMS model, the General Moving Objects (GMO) model and different momentum algorithms in the code were verified. Code verification of these solvers was done via simulating the flow inside the top wall driven square cavity on different mesh sizes to obtain order of convergence. The GMO model was used to simulate the top wall in the top wall driven square cavity as well as the rotating disk in the U-GEMS. Components simulated with the GMO model were rigid bodies that could have any type of motion. In addition cross-verification was conducted as results were compared with numerical results by Ghia et al. (1982), and good agreement was found. Next, CFD results were validated by simulating the flow within the conventional microcosm system without suction and injection. Good agreement was found when the experimental results by Khalili et al. (2008) were compared. After the ability of the CFD solver was proved through the above code verification steps. The model was utilized to simulate the U-GEMS. The solution was verified via classic mesh convergence study on four consecutive mesh sizes, in addition to that Grid Convergence Index (GCI) was calculated and based on that the computation uncertainty was quantified. The numerical results reveal that the bed shear stress distribution for the U-GEMS model was not uniform. The mean and standard deviation of the bed shear stress for the U-GEMS model was 0.04 and 0.019 Pa respectively.

Properties of the Flight Model Gas Electron Multiplier for the GEMS Mission

NASA Technical Reports Server (NTRS)

Takeuchi, Yoko; Kitaguchi, Takao; Hayato, Asami; Tamagawa, Toru; Iwakiri, Wataru; Asami, Fumi; Yoshikawa, Akifumi; Kaneko, Kenta; Enoto, Teruaki; Black, Kevin;

GEMS Revealed: Spectrum Imaging of Aggregate Grains in Interplanetary Dust

NASA Technical Reports Server (NTRS)

Keller, L. P.; Messenger, S.; Christoffersen, R.

2005-01-01

Anhydrous interplanetary dust particles (IDPs) of cometary origin contain abundant materials that formed in the early solar nebula. These materials were transported outward and subsequently mixed with molecular cloud materials and presolar grains in the region where comets accreted [1]. GEMS (glass with embedded metal and sulfides) grains are a major component of these primitive anhydrous IDPs, along with crystalline Mg-rich silicates, Fe-Ni sulfides, carbonaceous material, and other trace phases. Some GEMS grains (5%) are demonstrably presolar based on their oxygen isotopic compositions [2]. However, most GEMS grains are isotopically solar and have bulk chemical compositions that are incompatible with inferred compositions of interstellar dust, suggesting a solar system origin [3]. An alternative hypothesis is that GEMS grains represent highly irradiated interstellar grains whose oxygen isotopic compositions were homogenized through processing in the interstellar medium (ISM) [4]. We have obtained the first quantitative X-ray maps (spectrum images) showing the distribution of major and minor elements in individual GEMS grains. Nanometer-scale chemical maps provide critical data required to evaluate the differing models regarding the origin of GEMS grains.

Validation and comparison of four models to calculate pretest probability of obstructive coronary artery disease in a Chinese population: A coronary computed tomographic angiography study.

PubMed

Zhou, Jia; Liu, Yujie; Huang, Lingyu; Tan, Yahang; Li, Xingchen; Zhang, Hong; Ma, Yanhe; Zhang, Ying

We sought to compare the performance of the updated Diamond-Forrester method (UDFM), Duke clinical score (DCS), Genders clinical model (GCM) and Genders extended model (GEM) in a Chinese population referred to coronary computed tomography angiography (coronary CTA). The reliability of existing models to calculate the pretest proability (PTP) of obstructive coronary artery disease (CAD) have not been fully investigated, especially in a Chinese population. We identified 5743 consecutive patients with suspected stable CAD who underwent coronary calcium scoring (CCS) and coronary CCTA. Obstructive CAD was defined as with the presence of ≥50% diameter stenosis in coronary CTA or unassessable segments due to severe calcification. Area under the receiver operating characteristic curve (AUC), integrated discrimination improvement (IDI), net reclassification improvement (NRI) and Hosmer-Lemeshow goodness-of-fit statistic (H-L χ 2 ) were assessed to validate and compare these models. Overall, 1872 (32%) patients had obstructive CAD and 2467 (43%) had a CCS of 0. GEM demonstrated improved discrimination over the other models through the largest AUC (0.816 for GEM, 0.774 for GCM, 0.772 for DCS and 0.765 for UDFM). UDFM (-0.3255, p < 0.0001), DCS (-0.3149, p < 0.0001) and GCM (-0.2264, p < 0.0001) showed negative IDI compared to GEM. The NRI was significantly higher for GEM than the other models (0.7152, p < 0.0001, 0.5595, p < 0.0001 and 0.3195, p < 0.0001, respectively). All of the four models overestimated the prevalence of obstructive CAD, with unsatisfactory (p < 0.01 for all) calibration for UDFM (H-L χ 2  = 137.82), DCS (H-L χ 2  = 156.70), GCM (H-L χ 2  = 51.17) and GEM (H-L χ 2  = 29.67), respectively. Although GEM was superior for calculating PTP in a Chinese population referred for coronary CTA, developing new models allowing for more accurate and operational estimation are warranted. Copyright © 2017 Society of Cardiovascular Computed Tomography. Published by Elsevier Inc. All rights reserved.

Metadata for selecting or submitting generic seismic vulnerability functions via GEM's vulnerability database

USGS Publications Warehouse

Jaiswal, Kishor

2013-01-01

This memo lays out a procedure for the GEM software to offer an available vulnerability function for any acceptable set of attributes that the user specifies for a particular building category. The memo also provides general guidelines on how to submit the vulnerability or fragility functions to the GEM vulnerability repository, stipulating which attributes modelers must provide so that their vulnerability or fragility functions can be queried appropriately by the vulnerability database. An important objective is to provide users guidance on limitations and applicability by providing the associated modeling assumptions and applicability of each vulnerability or fragility function.

The Mitochondrial GTPase Gem1 Contributes to the Cell Wall Stress Response and Invasive Growth of Candida albicans.

PubMed

Koch, Barbara; Tucey, Timothy M; Lo, Tricia L; Novakovic, Stevan; Boag, Peter; Traven, Ana

2017-01-01

The interactions of mitochondria with the endoplasmic reticulum (ER) are crucial for maintaining proper mitochondrial morphology, function and dynamics. This enables cells to utilize their mitochondria optimally for energy production and anabolism, and it further provides for metabolic control over developmental decisions. In fungi, a key mechanism by which ER and mitochondria interact is via a membrane tether, the protein complex ERMES (ER-Mitochondria Encounter Structure). In the model yeast Saccharomyces cerevisiae , the mitochondrial GTPase Gem1 interacts with ERMES, and it has been proposed to regulate its activity. Here we report on the first characterization of Gem1 in a human fungal pathogen. We show that in Candida albicans Gem1 has a dominant role in ensuring proper mitochondrial morphology, and our data is consistent with Gem1 working with ERMES in this role. Mitochondrial respiration and steady state cellular phospholipid homeostasis are not impacted by inactivation of GEM1 in C. albicans . There are two major virulence-related consequences of disrupting mitochondrial morphology by GEM1 inactivation: C. albicans becomes hypersusceptible to cell wall stress, and is unable to grow invasively. In the gem1 Δ / Δ mutant, it is specifically the invasive capacity of hyphae that is compromised, not the ability to transition from yeast to hyphal morphology, and this phenotype is shared with ERMES mutants. As a consequence of the hyphal invasion defect, the gem1 Δ / Δ mutant is drastically hypovirulent in the worm infection model. Activation of the mitogen activated protein (MAP) kinase Cek1 is reduced in the gem1 Δ / Δ mutant, and this function could explain both the susceptibility to cell wall stress and lack of invasive growth. This result establishes a new, respiration-independent mechanism of mitochondrial control over stress signaling and hyphal functions in C. albicans . We propose that ER-mitochondria interactions and the ER-Mitochondria Organizing Network (ERMIONE) play important roles in adaptive responses in fungi, in particular cell surface-related mechanisms that drive invasive growth and stress responsive behaviors that support fungal pathogenicity.

The Mitochondrial GTPase Gem1 Contributes to the Cell Wall Stress Response and Invasive Growth of Candida albicans

PubMed Central

Koch, Barbara; Tucey, Timothy M.; Lo, Tricia L.; Novakovic, Stevan; Boag, Peter; Traven, Ana

2017-01-01

The interactions of mitochondria with the endoplasmic reticulum (ER) are crucial for maintaining proper mitochondrial morphology, function and dynamics. This enables cells to utilize their mitochondria optimally for energy production and anabolism, and it further provides for metabolic control over developmental decisions. In fungi, a key mechanism by which ER and mitochondria interact is via a membrane tether, the protein complex ERMES (ER-Mitochondria Encounter Structure). In the model yeast Saccharomyces cerevisiae, the mitochondrial GTPase Gem1 interacts with ERMES, and it has been proposed to regulate its activity. Here we report on the first characterization of Gem1 in a human fungal pathogen. We show that in Candida albicans Gem1 has a dominant role in ensuring proper mitochondrial morphology, and our data is consistent with Gem1 working with ERMES in this role. Mitochondrial respiration and steady state cellular phospholipid homeostasis are not impacted by inactivation of GEM1 in C. albicans. There are two major virulence-related consequences of disrupting mitochondrial morphology by GEM1 inactivation: C. albicans becomes hypersusceptible to cell wall stress, and is unable to grow invasively. In the gem1Δ/Δ mutant, it is specifically the invasive capacity of hyphae that is compromised, not the ability to transition from yeast to hyphal morphology, and this phenotype is shared with ERMES mutants. As a consequence of the hyphal invasion defect, the gem1Δ/Δ mutant is drastically hypovirulent in the worm infection model. Activation of the mitogen activated protein (MAP) kinase Cek1 is reduced in the gem1Δ/Δ mutant, and this function could explain both the susceptibility to cell wall stress and lack of invasive growth. This result establishes a new, respiration-independent mechanism of mitochondrial control over stress signaling and hyphal functions in C. albicans. We propose that ER-mitochondria interactions and the ER-Mitochondria Organizing Network (ERMIONE) play important roles in adaptive responses in fungi, in particular cell surface-related mechanisms that drive invasive growth and stress responsive behaviors that support fungal pathogenicity. PMID:29326680

Computational modelling of genome-scale metabolic networks and its application to CHO cell cultures.

PubMed

Rejc, Živa; Magdevska, Lidija; Tršelič, Tilen; Osolin, Timotej; Vodopivec, Rok; Mraz, Jakob; Pavliha, Eva; Zimic, Nikolaj; Cvitanović, Tanja; Rozman, Damjana; Moškon, Miha; Mraz, Miha

2017-09-01

Genome-scale metabolic models (GEMs) have become increasingly important in recent years. Currently, GEMs are the most accurate in silico representation of the genotype-phenotype link. They allow us to study complex networks from the systems perspective. Their application may drastically reduce the amount of experimental and clinical work, improve diagnostic tools and increase our understanding of complex biological phenomena. GEMs have also demonstrated high potential for the optimisation of bio-based production of recombinant proteins. Herein, we review the basic concepts, methods, resources and software tools used for the reconstruction and application of GEMs. We overview the evolution of the modelling efforts devoted to the metabolism of Chinese Hamster Ovary (CHO) cells. We present a case study on CHO cell metabolism under different amino acid depletions. This leads us to the identification of the most influential as well as essential amino acids in selected CHO cell lines. Copyright © 2017 Elsevier Ltd. All rights reserved.

Depletion of atmospheric gaseous elemental mercury by plant uptake at Mt. Changbai, Northeast China

NASA Astrophysics Data System (ADS)

Fu, Xuewu; Zhu, Wei; Zhang, Hui; Sommar, Jonas; Yu, Ben; Yang, Xu; Wang, Xun; Lin, Che-Jen; Feng, Xinbin

2016-10-01

There exists observational evidence that gaseous elemental mercury (GEM) can be readily removed from the atmosphere via chemical oxidation followed by deposition in the polar and sub-polar regions, free troposphere, lower stratosphere, and marine boundary layer under specific environmental conditions. Here we report GEM depletions in a temperate mixed forest at Mt. Changbai, Northeast China. The strong depletions occurred predominantly at night during the leaf-growing season and in the absence of gaseous oxidized mercury (GOM) enrichment (GOM < 3 pg m-3). Vertical gradients of decreasing GEM concentrations from layers above to under forest canopy suggest in situ loss of GEM to forest canopy at Mt. Changbai. Foliar GEM flux measurements showed that the foliage of two predominant tree species is a net sink of GEM at night, with a mean flux of -1.8 ± 0.3 ng m2 h-1 over Fraxinus mandshurica (deciduous tree species) and -0.1 ± 0.2 ng m2 h-1 over Pinus Koraiensis (evergreen tree species). Daily integrated GEM δ202Hg, Δ199Hg, and Δ200Hg at Mt. Changbai during 8-18 July 2013 ranged from -0.34 to 0.91 ‰, from -0.11 to -0.04 ‰ and from -0.06 to 0.01 ‰, respectively. A large positive shift in GEM δ202Hg occurred during the strong GEM depletion events, whereas Δ199Hg and Δ200Hg remained essentially unchanged. The observational findings and box model results show that uptake of GEM by forest canopy plays a predominant role in the GEM depletion at Mt. Changbai forest. Such depletion events of GEM are likely to be a widespread phenomenon, suggesting that the forest ecosystem represents one of the largest sinks ( ˜ 1930 Mg) of atmospheric Hg on a global scale.

Defeating Earthquakes

NASA Astrophysics Data System (ADS)

Stein, R. S.

2012-12-01

The 2004 M=9.2 Sumatra earthquake claimed what seemed an unfathomable 228,000 lives, although because of its size, we could at least assure ourselves that it was an extremely rare event. But in the short space of 8 years, the Sumatra quake no longer looks like an anomaly, and it is no longer even the worst disaster of the Century: 80,000 deaths in the 2005 M=7.6 Pakistan quake; 88,000 deaths in the 2008 M=7.9 Wenchuan, China quake; 316,000 deaths in the M=7.0 Haiti, quake. In each case, poor design and construction were unable to withstand the ferocity of the shaken earth. And this was compounded by inadequate rescue, medical care, and shelter. How could the toll continue to mount despite the advances in our understanding of quake risk? The world's population is flowing into megacities, and many of these migration magnets lie astride the plate boundaries. Caught between these opposing demographic and seismic forces are 50 cities of at least 3 million people threatened by large earthquakes, the targets of chance. What we know for certain is that no one will take protective measures unless they are convinced they are at risk. Furnishing that knowledge is the animating principle of the Global Earthquake Model, launched in 2009. At the very least, everyone should be able to learn what his or her risk is. At the very least, our community owes the world an estimate of that risk. So, first and foremost, GEM seeks to raise quake risk awareness. We have no illusions that maps or models raise awareness; instead, earthquakes do. But when a quake strikes, people need a credible place to go to answer the question, how vulnerable am I, and what can I do about it? The Global Earthquake Model is being built with GEM's new open source engine, OpenQuake. GEM is also assembling the global data sets without which we will never improve our understanding of where, how large, and how frequently earthquakes will strike, what impacts they will have, and how those impacts can be lessened by our actions. Using these global datasets will help to make the model as uniform as possible. The model must be built by scientists in the affected countries with GEM's support, augmented by their insights and data. The model will launch in 2014; to succeed it must be open, international, independent, and continuously tested. But the mission of GEM is not just the likelihood of ground shaking, but also gaging the economic and social consequences of earthquakes, which greatly amplify the losses. For example, should the municipality of Istanbul retrofit schools, or increase its insurance reserves and recovery capacity? Should a homeowner in a high-risk area move or strengthen her building? This is why GEM is a public-private partnership. GEM's fourteen public sponsors and eight non-governmental organization members are standing for the developing world. To extend GEM into the financial world, we draw upon the expertise of companies. GEM's ten private sponsors have endorsed the acquisition of public knowledge over private gain. In a competitive world, this is a courageous act. GEM is but one link in a chain of preparedness: from earth science and engineering research, through groups like GEM, to mitigation, retrofit or relocate decisions, building codes and insurance, and finally to prepared hospitals, schools, and homes. But it is a link that our community can make strong.

Scaling properties of observed and simulated satellite visible radiances

NASA Astrophysics Data System (ADS)

Barker, Howard W.; Qu, Zhipeng; Bélair, Stéphane; Leroyer, Sylvie; Milbrandt, Jason A.; Vaillancourt, Paul A.

2017-09-01

Structure functions Sq, which are related to power spectra and used to study turbulence, were computed for GOES-13 visible radiances measured on 16 May 2015 over French Guiana and adjacent Atlantic Ocean. The nested Global Environmental Multiscale (GEM) numerical weather prediction (NWP) model was run for the same time and area. Cloud data generated by GEM over (300 km)2 domains, with one-way nesting ending at horizontal grid-spacing of 0.25 km, were operated on by a 3-D solar radiative transfer model with resulting radiances degraded to GOES-13 resolution ( 1 km) and Sq computed for them, too. For GOES-13 radiances, scaling exponents ζ(2) associated with S2, for separation distances between 5 km and 25 km, were typically >0.6 for deep convective and marine boundary layer clouds and <0.4 for shallow cumuli over land. ζ(2) for GEM agreed well with GOES-13 for deep convective clouds. This suggests that the self-organizing properties of deep convection in GEM exhibit realistic geometric features, a potentially important point given the link between cloud structure and precipitation, with the latter being much more difficult to measure and assess than visible radiances. Regarding radiances for GEM's marine boundary layer clouds, their Sq differed markedly from GOES-13's; better resembling fair-weather cumulus. Likewise, GEM's shallow cumuli over land appear to have bypassed the "scattered" fair-weather stage and went straight into more organized convection. Thus, it appears that comparing time series of Sq for geostationary satellite data and corresponding modeled radiances has the potential to benefit assessment of cloud system-resolving models.

Transparent Global Seismic Hazard and Risk Assessment

NASA Astrophysics Data System (ADS)

Smolka, Anselm; Schneider, John; Pinho, Rui; Crowley, Helen

2013-04-01

Vulnerability to earthquakes is increasing, yet advanced reliable risk assessment tools and data are inaccessible to most, despite being a critical basis for managing risk. Also, there are few, if any, global standards that allow us to compare risk between various locations. The Global Earthquake Model (GEM) is a unique collaborative effort that aims to provide organizations and individuals with tools and resources for transparent assessment of earthquake risk anywhere in the world. By pooling data, knowledge and people, GEM acts as an international forum for collaboration and exchange, and leverages the knowledge of leading experts for the benefit of society. Sharing of data and risk information, best practices, and approaches across the globe is key to assessing risk more effectively. Through global projects, open-source IT development and collaborations with more than 10 regions, leading experts are collaboratively developing unique global datasets, best practice, open tools and models for seismic hazard and risk assessment. Guided by the needs and experiences of governments, companies and citizens at large, they work in continuous interaction with the wider community. A continuously expanding public-private partnership constitutes the GEM Foundation, which drives the collaborative GEM effort. An integrated and holistic approach to risk is key to GEM's risk assessment platform, OpenQuake, that integrates all above-mentioned contributions and will become available towards the end of 2014. Stakeholders worldwide will be able to calculate, visualise and investigate earthquake risk, capture new data and to share their findings for joint learning. Homogenized information on hazard can be combined with data on exposure (buildings, population) and data on their vulnerability, for loss assessment around the globe. Furthermore, for a true integrated view of seismic risk, users can add social vulnerability and resilience indices to maps and estimate the costs and benefits of different risk management measures. The following global data, models and methodologies will be available in the platform. Some of these will be released to the public already before, such as the ISC-GEM global instrumental catalogue (released January 2013). Datasets: • Global Earthquake History Catalogue [1000-1903] • Global Instrumental Catalogue [1900-2009] • Global Geodetic Strain Rate Model • Global Active Fault Database • Tectonic Regionalisation • Buildings and Population Database • Earthquake Consequences Database • Physical Vulnerability Database • Socio-Economic Vulnerability and Resilience Indicators Models: • Seismic Source Models • Ground Motion (Attenuation) Models • Physical Exposure Models • Physical Vulnerability Models • Composite Index Models (social vulnerability, resilience, indirect loss) The aforementioned models developed under the GEM framework will be combined to produce estimates of hazard and risk at a global scale. Furthermore, building on many ongoing efforts and knowledge of scientists worldwide, GEM will integrate state-of-the-art data, models, results and open-source tools into a single platform that is to serve as a "clearinghouse" on seismic risk. The platform will continue to increase in value, in particular for use in local contexts, through contributions and collaborations with scientists and organisations worldwide.

Climate Projections over Mediterranean Basin under RCP8.5 and RCP4.5 emission scenarios

NASA Astrophysics Data System (ADS)

Ilhan, Asli; Ünal, Yurdanur S.

2017-04-01

Climate Projections over Mediterranean Basin under RCP8.5 and RCP4.5 emission scenarios A. ILHAN ve Y. S. UNAL Istanbul Technical University, Department of Meteorology In the study, 50 km resolution downscaled results of two different Earth System Models (ESM) HadGEM2-ES and MPI-ESM with regional climate model of RegCM are used to estimate present and future climate conditions over Mediterranean Basin. The purpose of this study is to compare the projections of two ESMs under Representative Concentration Pathways 4.5 (RCP4.5) and 8.5 (RCP8.5) over the region of interest seasonally and annually with 50 km resolution. Temperature and precipitation parameters for reference period (1971-2000) and future (2015-2100) are analyzed. The average temperature and total precipitation distributions of each downscaled ESM simulations were compared with observation data (Climate Research Unit-CRU data) to explore the capability of each model for the representation of the current climate. According to reference period values of CRU, HadGEM2-ES and MPI-ESM, it is seen that both models are warmer and wetter than observations and have positive temperature biases only around Caspian Sea and positive precipitation biases over Eastern and Central Europe. The future projections (from 2015 to 2100) of HadGEM2-ES and MPI-ESM-MR simulations under RCP4.5 and RCP8.5 emission scenarios are compared with reference period (from 1971 to 2000) and analyzed for temperature and precipitation parameters. The downscaled HadGEM2-ES forced by RCP8.5 scenario produces higher temperatures than the MPI-ESM-MR. The reasons of this warming can be sensitivity of HadGEM2-ES to greenhouse gases and high radiative forcing (+8.5 W/m2). On the other hand, MPI-ESM produce more precipitation than HadGEM2-ES. In order to analyze regional responses of the climate model chains, five main regions are selected which are Turkey, Central Europe, Western Europe, Eastern Europe and North Africa. The average biases of the HadGEM2-ES+RegCM and MPI-ESM-MR+RegCM model chains are also calculated for temperature and precipitation variables, and future expectations in each region are discussed under RCP4.5 and RCP8.5 scenarios. According to the regional analysis, North Africa is the warmest region for HadGEM2-ES and MPI-ESM-MR, and Central Europe warms up similar to North Africa in MPI-ESM-MR coupled simulations under both RCPs. In addition, Eastern Europe is expected to be the wettest region in both models and in both emission scenarios. On the other hand, the driest conditions are expected over Western Europe for MPI-ESM-MR and over Turkey for HadGEM2-ES under RCPs.

Small-animal research imaging devices.

PubMed

Fine, Eugene J; Herbst, Lawrence; Jelicks, Linda A; Koba, Wade; Theele, Daniel

2014-01-01

The scientific study of living animals may be dated to Aristotle's original dissections, but modern animal studies are perhaps a century in the making, and advanced animal imaging has emerged only during the past few decades. In vivo imaging now occupies a growing role in the scientific research paradigm. Imaging of small animals has been particularly useful to help understand human molecular biology and pathophysiology using rodents, especially using genetically engineered mice (GEM) with spontaneous diseases that closely mimic human diseases. Specific examples of GEM models of veterinary diseases exist, but in general, GEM for veterinary research has lagged behind human research applications. However, the development of spontaneous disease models from GEM may also hold potential for veterinary research. The imaging techniques most widely used in small-animal research are CT, PET, single-photon emission CT, MRI, and optical fluorescent and luminescent imaging. Copyright © 2014 Elsevier Inc. All rights reserved.

Student involvement in the Geospace Environment Modeling (GEM) workshop

NASA Astrophysics Data System (ADS)

Allen, R. C.; Cohen, I. J.

2014-12-01

The Geospace Environment Modeling (GEM) workshop is a unique venue for students to begin to integrate into the magnetospheric community. GEM, an annual workshop funded by the NSF, allows students to present their research in a collaborative atmosphere and to engage with senior scientists as peers. This builds confidence in the students, while also allowing them to share ideas and strengthen their research. Each GEM workshop starts with a student-run and organized "student day", in which older students volunteer to present tutorials on different magnetospheric systems and processes. These tutorials strive to put the upcoming week of talks and posters in context while providing an overarching base understanding of the magnetospheric system. By starting the week with student taught tutorials, as well as icebreaker activities, the students become comfortable with asking questions and set the tone for the less formal student and discussion-oriented workshop.

Reactive transport simulation via combination of a multiphase-capable transport code for unstructured meshes with a Gibbs energy minimization solver of geochemical equilibria

NASA Astrophysics Data System (ADS)

Fowler, S. J.; Driesner, T.; Hingerl, F. F.; Kulik, D. A.; Wagner, T.

2011-12-01

We apply a new, C++-based computational model for hydrothermal fluid-rock interaction and scale formation in geothermal reservoirs. The model couples the Complex System Modelling Platform (CSMP++) code for fluid flow in porous and fractured media (Matthai et al., 2007) with the Gibbs energy minimization numerical kernel GEMS3K of the GEM-Selektor (GEMS3) geochemical modelling package (Kulik et al., 2010) in a modular fashion. CSMP++ includes interfaces to commercial file formats, accommodating complex geometry construction using CAD (Rhinoceros) and meshing (ANSYS) software. The CSMP++ approach employs finite element-finite volume spatial discretization, implicit or explicit time discretization, and operator splitting. GEMS3K can calculate complex fluid-mineral equilibria based on a variety of equation of state and activity models. A selection of multi-electrolyte aqueous solution models, such as extended Debye-Huckel, Pitzer (Harvie et al., 1984), EUNIQUAC (Thomsen et al., 1996), and the new ELVIS model (Hingerl et al., this conference), makes it well-suited for application to a wide range of geothermal conditions. An advantage of the GEMS3K solver is simultaneous consideration of complex solid solutions (e.g., clay minerals), gases, fluids, and aqueous solutions. Each coupled simulation results in a thermodynamically-based description of the geochemical and physical state of a hydrothermal system evolving along a complex P-T-X path. The code design allows efficient, flexible incorporation of numerical and thermodynamic database improvements. We demonstrate the coupled code workflow and applicability to compositionally and physically complex natural systems relevant to enhanced geothermal systems, where temporally and spatially varying chemical interactions may take place within diverse lithologies of varying geometry. Engesgaard, P. & Kipp, K. L. (1992). Water Res. Res. 28: 2829-2843. Harvie, C. E.; Møller, N. & Weare, J. H. (1984). Geochim. Cosmochim. Acta 48: 723-751. Kulik, D. A., Wagner, T., Dmytrieva S. V, et al. (2010). GEM-Selektor home page, Paul Scherrer Institut. Available at http://gems.web.psi.ch. Matthäi, S. K., Geiger, S., Roberts, S. G., Paluszny, A., Belayneh, M., Burri, A., Mezentsev, A., Lu, H., Coumou, D., Driesner, T. & Heinrich C. A. (2007). Geol. Soc. London, Spec. Publ. 292: 405-429. Thomsen, K. Rasmussen, P. & Gani, R. (1996). Chem. Eng. Sci. 51: 3675-3683.

Cost-effectiveness analysis of gemcitabine, S-1 and gemcitabine plus S-1 for treatment of advanced pancreatic cancer based on GEST study.

PubMed

Zhou, Jing; Zhao, Rongce; Wen, Feng; Zhang, Pengfei; Tang, Ruilei; Du, Zedong; He, Xiaofeng; Zhang, Jian; Li, Qiu

2015-04-01

Gemcitabine (GEM) alone, S-1 alone and gemcitabine plus S-1 (GS) have shown a marginal clinical benefit for the treatment of advanced pancreatic cancer. However, there is no clearly defined optimal cost-effectiveness treatment. The objective of this study was to assess the cost-effectiveness of GEM alone, S-1 alone and GS for the treatment of advanced pancreatic cancer based on GEST study for public payers. A decision model compared GEM alone, S-1 alone and GS. Primary base case data were identified using the GEST study and the literatures. Costs were estimated from West China Hospital, Sichuan University, China, and incremental cost-effectiveness ratios (ICERs) were calculated. Survival benefits were reported in quality-adjusted life-months (QALMs). Sensitive analyses were performed by varying potentially modifiable parameters of the model. The base case analysis showed that the GEM cost $21,912 and yielded survival of 6.93 QALMs, S-1 cost $19,371 and yielded survival of 7.90 QALMs and GS cost $22,943 and yielded survival of 7.46 QALMs in the entire treatment. The one-way sensitivity analyses showed that the ICER of S-1 was driven mostly by the S-1 group utility score of stable state compared with GEM, and the GEM group utility score of progressed state played a key role on the ICER of GS compared with GEM. S-1 represents an attractive cost-effective treatment for advanced pancreatic cancer, given the favorable cost per QALM and improvement in clinical efficacy, especially the limited available treatment options.

The catalytic mechanism of mouse renin studied with QM/MM calculations.

PubMed

Brás, Natércia F; Ramos, Maria J; Fernandes, Pedro A

2012-09-28

Hypertension is a chronic condition that affects nearly 25% of adults worldwide. As the Renin-Angiotensin-Aldosterone System is implicated in the control of blood pressure and body fluid homeostasis, its combined blockage is an attractive therapeutic strategy currently in use for the treatment of several cardiovascular conditions. We have performed QM/MM calculations to study the mouse renin catalytic mechanism in atomistic detail, using the N-terminal His6-Asn14 segment of angiotensinogen as substrate. The enzymatic reaction (hydrolysis of the peptidic bond between residues in the 10th and 11th positions) occurs through a general acid/base mechanism and, surprisingly, it is characterized by three mechanistic steps: it begins with the creation of a first very stable tetrahedral gem-diol intermediate, followed by protonation of the peptidic bond nitrogen, giving rise to a second intermediate. In a final step the peptidic bond is completely cleaved and both gem-diol hydroxyl protons are transferred to the catalytic dyad (Asp32 and Asp215). The final reaction products are two separate peptides with carboxylic acid and amine extremities. The activation energy for the formation of the gem-diol intermediate was calculated as 23.68 kcal mol(-1), whereas for the other steps the values were 15.51 kcal mol(-1) and 14.40 kcal mol(-1), respectively. The rate limiting states were the reactants and the first transition state. The associated barrier (23.68 kcal mol(-1)) is close to the experimental values for the angiotensinogen substrate (19.6 kcal mol(-1)). We have also tested the influence of the density functional on the activation and reaction energies. All eight density functionals tested (B3LYP, B3LYP-D3, X3LYP, M06, B1B95, BMK, mPWB1K and B2PLYP) gave very similar results.

AlgaGEM – a genome-scale metabolic reconstruction of algae based on the Chlamydomonas reinhardtii genome

PubMed Central

2011-01-01

Background Microalgae have the potential to deliver biofuels without the associated competition for land resources. In order to realise the rates and titres necessary for commercial production, however, system-level metabolic engineering will be required. Genome scale metabolic reconstructions have revolutionized microbial metabolic engineering and are used routinely for in silico analysis and design. While genome scale metabolic reconstructions have been developed for many prokaryotes and model eukaryotes, the application to less well characterized eukaryotes such as algae is challenging not at least due to a lack of compartmentalization data. Results We have developed a genome-scale metabolic network model (named AlgaGEM) covering the metabolism for a compartmentalized algae cell based on the Chlamydomonas reinhardtii genome. AlgaGEM is a comprehensive literature-based genome scale metabolic reconstruction that accounts for the functions of 866 unique ORFs, 1862 metabolites, 2249 gene-enzyme-reaction-association entries, and 1725 unique reactions. The reconstruction was compartmentalized into the cytoplasm, mitochondrion, plastid and microbody using available data for algae complemented with compartmentalisation data for Arabidopsis thaliana. AlgaGEM describes a functional primary metabolism of Chlamydomonas and significantly predicts distinct algal behaviours such as the catabolism or secretion rather than recycling of phosphoglycolate in photorespiration. AlgaGEM was validated through the simulation of growth and algae metabolic functions inferred from literature. Using efficient resource utilisation as the optimality criterion, AlgaGEM predicted observed metabolic effects under autotrophic, heterotrophic and mixotrophic conditions. AlgaGEM predicts increased hydrogen production when cyclic electron flow is disrupted as seen in a high producing mutant derived from mutational studies. The model also predicted the physiological pathway for H2 production and identified new targets to further improve H2 yield. Conclusions AlgaGEM is a viable and comprehensive framework for in silico functional analysis and can be used to derive new, non-trivial hypotheses for exploring this metabolically versatile organism. Flux balance analysis can be used to identify bottlenecks and new targets to metabolically engineer microalgae for production of biofuels. PMID:22369158

Estimation of Item Parameters and the GEM Algorithm.

ERIC Educational Resources Information Center

Tsutakawa, Robert K.

The models and procedures discussed in this paper are related to those presented in Bock and Aitkin (1981), where they considered the 2-parameter probit model and approximated a normally distributed prior distribution of abilities by a finite and discrete distribution. One purpose of this paper is to clarify the nature of the general EM (GEM)…

Development of the GEM-MACH-FireWork System: An Air Quality Model with On-line Wildfire Emissions within the Canadian Operational Air Quality Forecast System

NASA Astrophysics Data System (ADS)

Pavlovic, Radenko; Chen, Jack; Beaulieu, Paul-Andre; Anselmp, David; Gravel, Sylvie; Moran, Mike; Menard, Sylvain; Davignon, Didier

2014-05-01

A wildfire emissions processing system has been developed to incorporate near-real-time emissions from wildfires and large prescribed burns into Environment Canada's real-time GEM-MACH air quality (AQ) forecast system. Since the GEM-MACH forecast domain covers Canada and most of the U.S.A., including Alaska, fire location information is needed for both of these large countries. During AQ model runs, emissions from individual fire sources are injected into elevated model layers based on plume-rise calculations and then transport and chemistry calculations are performed. This "on the fly" approach to the insertion of the fire emissions provides flexibility and efficiency since on-line meteorology is used and computational overhead in emissions pre-processing is reduced. GEM-MACH-FireWork, an experimental wildfire version of GEM-MACH, was run in real-time mode for the summers of 2012 and 2013 in parallel with the normal operational version. 48-hour forecasts were generated every 12 hours (at 00 and 12 UTC). Noticeable improvements in the AQ forecasts for PM2.5 were seen in numerous regions where fire activity was high. Case studies evaluating model performance for specific regions and computed objective scores will be included in this presentation. Using the lessons learned from the last two summers, Environment Canada will continue to work towards the goal of incorporating near-real-time intermittent wildfire emissions into the operational air quality forecast system.

Reconstruction of 24 Penicillium genome-scale metabolic models shows diversity based on their secondary metabolism.

PubMed

Prigent, Sylvain; Nielsen, Jens Christian; Frisvad, Jens Christian; Nielsen, Jens

2018-06-05

Modelling of metabolism at the genome-scale have proved to be an efficient method for explaining observed phenotypic traits in living organisms. Further, it can be used as a means of predicting the effect of genetic modifications e.g. for development of microbial cell factories. With the increasing amount of genome sequencing data available, a need exists to accurately and efficiently generate such genome-scale metabolic models (GEMs) of non-model organisms, for which data is sparse. In this study, we present an automatic reconstruction approach applied to 24 Penicillium species, which have potential for production of pharmaceutical secondary metabolites or used in the manufacturing of food products such as cheeses. The models were based on the MetaCyc database and a previously published Penicillium GEM, and gave rise to comprehensive genome-scale metabolic descriptions. The models proved that while central carbon metabolism is highly conserved, secondary metabolic pathways represent the main diversity among the species. The automatic reconstruction approach presented in this study can be applied to generate GEMs of other understudied organisms, and the developed GEMs are a useful resource for the study of Penicillium metabolism, for example with the scope of developing novel cell factories. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

Using genome-scale metabolic models to compare serovars of the foodborne pathogen Listeria monocytogenes.

PubMed

Metz, Zachary P; Ding, Tong; Baumler, David J

2018-01-01

Listeria monocytogenes is a microorganism of great concern for the food industry and the cause of human foodborne disease. Therefore, novel methods of control are needed, and systems biology is one such approach to identify them. Using a combination of computational techniques and laboratory methods, genome-scale metabolic models (GEMs) can be created, validated, and used to simulate growth environments and discern metabolic capabilities of microbes of interest, including L. monocytogenes. The objective of the work presented here was to generate GEMs for six different strains of L. monocytogenes, and to both qualitatively and quantitatively validate these GEMs with experimental data to examine the diversity of metabolic capabilities of numerous strains from the three different serovar groups most associated with foodborne outbreaks and human disease. Following qualitative validation, 57 of the 95 carbon sources tested experimentally were present in the GEMs, and; therefore, these were the compounds from which comparisons could be drawn. Of these 57 compounds, agreement between in silico predictions and in vitro results for carbon source utilization ranged from 80.7% to 91.2% between strains. Nutrient utilization agreement between in silico predictions and in vitro results were also conducted for numerous nitrogen, phosphorous, and sulfur sources. Additionally, quantitative validation showed that the L. monocytogenes GEMs were able to generate in silico predictions for growth rate and growth yield that were strongly and significantly (p < 0.0013 and p < 0.0015, respectively) correlated with experimental results. These findings are significant because they show that these GEMs for L. monocytogenes are comparable to published GEMs of other organisms for agreement between in silico predictions and in vitro results. Therefore, as with the other GEMs, namely those for Escherichia coli, Staphylococcus aureus, Vibrio vulnificus, and Salmonella spp., they can be used to determine new methods of growth control and disease treatment.

The physiological basis of Glottal electromagnetic micropower sensors (GEMS) and their use in defining an excitation function for the human vocal tract

NASA Astrophysics Data System (ADS)

Burnett, Gregory Clell

1999-10-01

The definition, use, and physiological basis of Glottal Electromagnetic Micropower Sensors (GEMS) is presented. These sensors are a new type of low power (<20 milliwatts radiated) microwave regime (900 MHz to 2.5 GHz) multi-purpose motion sensor developed at the Lawrence Livermore National Laboratory. The GEMS are sensitive to movement in an adjustable field of view (FOV) surrounding the antennae. In this thesis, the GEMS has been utilized for speech research, targeted to receive motion signals from the subglottal region of the trachea. The GEMS signal is analyzed to determine the physiological source of the signal, and this information is used to calculate the subglottal pressure, effectively an excitation function for the human vocal tract. For the first time, an excitation function may be calculated in near real time using a noninvasive procedure. Several experiments and models are presented to demonstrate that the GEMS signal is representative of the motion of the subglottal posterior wall of the trachea as it vibrates in response to the pressure changes caused by the folds as they modulate the airflow supplied by the lungs. The vibrational properties of the tracheal wall are modeled using a lumped-element circuit model. Taking the output of the vocal tract to be the audio pressure captured by a microphone and the input to be the subglottal pressure, the transfer function of the vocal tract (including the nasal cavities) can be approximated every 10-30 milliseconds using an autoregressive moving-average model. Unlike the currently utilized method of transfer function approximation, this new method only involves noninvasive GEMS measurements and digital signal processing and does not demand the difficult task of obtaining precise physical measurements of the tract and subsequent estimation of the transfer function using its cross-sectional area. The ability to measure the physical motion of the trachea enables a significant number of potential applications, ranging from very accurate pitch detection to speech synthesis, speaker verification, and speech recognition.

ENED-GEM: A Conceptual Framework Model for Psychological Enjoyment Factors and Learning Mechanisms in Educational Games about the Environment.

PubMed

Fjællingsdal, Kristoffer S; Klöckner, Christian A

2017-01-01

Based on a thorough review of psychological literature, this article seeks to develop a model of game enjoyment and environmental learning (ENvironmental EDucational Game Enjoyment Model, ENED-GEM) and delineate psychological processes that might facilitate learning and inspire behavioral change from educational games about the environment. A critically acclaimed digital educational game about environmental issues (Fate of the World by Red Redemption/Soothsayer Games) was used as a case study. Two hundred forty-nine reviews of the game from the popular gaming and reviewing platform known as Steam were analyzed by means of a thematic content analysis in order to identify key player enjoyment factors believed to be relevant to the process of learning from games, as well as to gain an understanding of positive and negative impressions about the game's general content. The end results of the thematic analysis were measured up to the suggested ENED-GEM framework. Initial results generally support the main elements of the ENED-GEM, and future research into the importance of these individual core factors is outlined.

ENED-GEM: A Conceptual Framework Model for Psychological Enjoyment Factors and Learning Mechanisms in Educational Games about the Environment

PubMed Central

Fjællingsdal, Kristoffer S.; Klöckner, Christian A.

2017-01-01

Based on a thorough review of psychological literature, this article seeks to develop a model of game enjoyment and environmental learning (ENvironmental EDucational Game Enjoyment Model, ENED-GEM) and delineate psychological processes that might facilitate learning and inspire behavioral change from educational games about the environment. A critically acclaimed digital educational game about environmental issues (Fate of the World by Red Redemption/Soothsayer Games) was used as a case study. Two hundred forty-nine reviews of the game from the popular gaming and reviewing platform known as Steam were analyzed by means of a thematic content analysis in order to identify key player enjoyment factors believed to be relevant to the process of learning from games, as well as to gain an understanding of positive and negative impressions about the game’s general content. The end results of the thematic analysis were measured up to the suggested ENED-GEM framework. Initial results generally support the main elements of the ENED-GEM, and future research into the importance of these individual core factors is outlined. PMID:28701988

The Global Earthquake Model and Disaster Risk Reduction

NASA Astrophysics Data System (ADS)

Smolka, A. J.

2015-12-01

Advanced, reliable and transparent tools and data to assess earthquake risk are inaccessible to most, especially in less developed regions of the world while few, if any, globally accepted standards currently allow a meaningful comparison of risk between places. The Global Earthquake Model (GEM) is a collaborative effort that aims to provide models, datasets and state-of-the-art tools for transparent assessment of earthquake hazard and risk. As part of this goal, GEM and its global network of collaborators have developed the OpenQuake engine (an open-source software for hazard and risk calculations), the OpenQuake platform (a web-based portal making GEM's resources and datasets freely available to all potential users), and a suite of tools to support modelers and other experts in the development of hazard, exposure and vulnerability models. These resources are being used extensively across the world in hazard and risk assessment, from individual practitioners to local and national institutions, and in regional projects to inform disaster risk reduction. Practical examples for how GEM is bridging the gap between science and disaster risk reduction are: - Several countries including Switzerland, Turkey, Italy, Ecuador, Papua-New Guinea and Taiwan (with more to follow) are computing national seismic hazard using the OpenQuake-engine. In some cases these results are used for the definition of actions in building codes. - Technical support, tools and data for the development of hazard, exposure, vulnerability and risk models for regional projects in South America and Sub-Saharan Africa. - Going beyond physical risk, GEM's scorecard approach evaluates local resilience by bringing together neighborhood/community leaders and the risk reduction community as a basis for designing risk reduction programs at various levels of geography. Actual case studies are Lalitpur in the Kathmandu Valley in Nepal and Quito/Ecuador. In agreement with GEM's collaborative approach, all projects are undertaken with strong involvement of local scientific and risk reduction communities. Open-source software and careful documentation of the methodologies create full transparency of the modelling process, so that results can be reproduced any time by third parties.

Integration and Validation of the Genome-Scale Metabolic Models of Pichia pastoris: A Comprehensive Update of Protein Glycosylation Pathways, Lipid and Energy Metabolism

PubMed Central

Tomàs-Gamisans, Màrius; Ferrer, Pau; Albiol, Joan

2016-01-01

Motivation Genome-scale metabolic models (GEMs) are tools that allow predicting a phenotype from a genotype under certain environmental conditions. GEMs have been developed in the last ten years for a broad range of organisms, and are used for multiple purposes such as discovering new properties of metabolic networks, predicting new targets for metabolic engineering, as well as optimizing the cultivation conditions for biochemicals or recombinant protein production. Pichia pastoris is one of the most widely used organisms for heterologous protein expression. There are different GEMs for this methylotrophic yeast of which the most relevant and complete in the published literature are iPP668, PpaMBEL1254 and iLC915. However, these three models differ regarding certain pathways, terminology for metabolites and reactions and annotations. Moreover, GEMs for some species are typically built based on the reconstructed models of related model organisms. In these cases, some organism-specific pathways could be missing or misrepresented. Results In order to provide an updated and more comprehensive GEM for P. pastoris, we have reconstructed and validated a consensus model integrating and merging all three existing models. In this step a comprehensive review and integration of the metabolic pathways included in each one of these three versions was performed. In addition, the resulting iMT1026 model includes a new description of some metabolic processes. Particularly new information described in recently published literature is included, mainly related to fatty acid and sphingolipid metabolism, glycosylation and cell energetics. Finally the reconstructed model was tested and validated, by comparing the results of the simulations with available empirical physiological datasets results obtained from a wide range of experimental conditions, such as different carbon sources, distinct oxygen availability conditions, as well as producing of two different recombinant proteins. In these simulations, the iMT1026 model has shown a better performance than the previous existing models. PMID:26812499

Integration and Validation of the Genome-Scale Metabolic Models of Pichia pastoris: A Comprehensive Update of Protein Glycosylation Pathways, Lipid and Energy Metabolism.

PubMed

Tomàs-Gamisans, Màrius; Ferrer, Pau; Albiol, Joan

2016-01-01

Genome-scale metabolic models (GEMs) are tools that allow predicting a phenotype from a genotype under certain environmental conditions. GEMs have been developed in the last ten years for a broad range of organisms, and are used for multiple purposes such as discovering new properties of metabolic networks, predicting new targets for metabolic engineering, as well as optimizing the cultivation conditions for biochemicals or recombinant protein production. Pichia pastoris is one of the most widely used organisms for heterologous protein expression. There are different GEMs for this methylotrophic yeast of which the most relevant and complete in the published literature are iPP668, PpaMBEL1254 and iLC915. However, these three models differ regarding certain pathways, terminology for metabolites and reactions and annotations. Moreover, GEMs for some species are typically built based on the reconstructed models of related model organisms. In these cases, some organism-specific pathways could be missing or misrepresented. In order to provide an updated and more comprehensive GEM for P. pastoris, we have reconstructed and validated a consensus model integrating and merging all three existing models. In this step a comprehensive review and integration of the metabolic pathways included in each one of these three versions was performed. In addition, the resulting iMT1026 model includes a new description of some metabolic processes. Particularly new information described in recently published literature is included, mainly related to fatty acid and sphingolipid metabolism, glycosylation and cell energetics. Finally the reconstructed model was tested and validated, by comparing the results of the simulations with available empirical physiological datasets results obtained from a wide range of experimental conditions, such as different carbon sources, distinct oxygen availability conditions, as well as producing of two different recombinant proteins. In these simulations, the iMT1026 model has shown a better performance than the previous existing models.

Geoengineering by stratospheric SO2 injection: results from the Met Office HadGEM2 climate model and comparison with the Goddard Institute for Space Studies ModelE

NASA Astrophysics Data System (ADS)

Jones, A.; Haywood, J.; Boucher, O.; Kravitz, B.; Robock, A.

2010-03-01

We examine the response of the Met Office Hadley Centre's HadGEM2-AO climate model to simulated geoengineering by continuous injection of SO2 into the lower stratosphere, and compare the results with those from the Goddard Institute for Space Studies ModelE. The HadGEM2 simulations suggest that the SO2 injection rate considered here (5 Tg[SO2] yr-1) could defer the amount of global warming predicted under the Intergovernmental Panel on Climate Change's A1B scenario by approximately 30-35 years, although both models indicate rapid warming if geoengineering is not sustained. We find a broadly similar geographic distribution of the response to geoengineering in both models in terms of near-surface air temperature and mean June-August precipitation. The simulations also suggest that significant changes in regional climate would be experienced even if geoengineering was successful in maintaining global-mean temperature near current values.

Nebraska NativeGEM (Geospatial Extension Model)

NASA Technical Reports Server (NTRS)

Bowen, Brent

2004-01-01

This proposal, Nebraska NativeGEM (Geospatial Extension Model) features a unique diversity component stemming from the exceptional reputation NNSGC has built by delivering geospatial science experiences to Nebraska s Native Americans. For 7 years, NNSGC has partner4 with the 2 tribal colleges and 4 reservation school districts in Nebraska to form the Nebraska Native American Outreach Program (NNAOP), a partnership among tribal community leaders, academia, tribal schools, and industry reaching close to 1,OOO Native American youth, over 1,200 community members (Lehrer & Zendajas, 2001).NativeGEM addresses all three key components of Cooperative State Research, Education, and Extension Service (CSREES) goals for advancing decision support, education, and workforce development through the GES. The existing long term commitments that the NNSGC and the GES have in these areas allow for the pursuit of a broad range of activities. NativeGEM builds upon these existing successful programs and collaborations. Outcomes and metrics for each proposed project are detailed in the Approach section of this document.

Investigation of processes controlling summertime gaseous elemental mercury oxidation at midlatitudinal marine, coastal, and inland sites

NASA Astrophysics Data System (ADS)

Ye, Zhuyun; Mao, Huiting; Lin, Che-Jen; Kim, Su Youn

2016-07-01

A box model incorporating a state-of-the-art chemical mechanism for atmospheric mercury (Hg) cycling was developed to investigate the oxidation of gaseous elemental mercury (GEM) at three locations in the northeastern United States: Appledore Island (AI; marine), Thompson Farm (TF; coastal, rural), and Pack Monadnock (PM; inland, rural, elevated). The chemical mechanism in this box model included the most up-to-date Hg and halogen chemistry. As a result, the box model was able to simulate reasonably the observed diurnal cycles of gaseous oxidized mercury (GOM) and chemical speciation bearing distinct differences between the three sites. In agreement with observations, simulated GOM diurnal cycles at AI and TF showed significant daytime peaks in the afternoon and nighttime minimums compared to flat GOM diurnal cycles at PM. Moreover, significant differences in the magnitude of GOM diurnal amplitude (AI > TF > PM) were captured in modeled results. At the coastal and inland sites, GEM oxidation was predominated by O3 and OH, contributing 80-99 % of total GOM production during daytime. H2O2-initiated GEM oxidation was significant (˜ 33 % of the total GOM) at the inland site during nighttime. In the marine boundary layer (MBL) atmosphere, Br and BrO became dominant GEM oxidants, with mixing ratios reaching 0.1 and 1 pptv, respectively, and contributing ˜ 70 % of the total GOM production during midday, while O3 dominated GEM oxidation (50-90 % of GOM production) over the remaining day when Br and BrO mixing ratios were diminished. The majority of HgBr produced from GEM+Br was oxidized by NO2 and HO2 to form brominated GOM species. Relative humidity and products of the CH3O2+BrO reaction possibly significantly affected the mixing ratios of Br or BrO radicals and subsequently GOM formation. Gas-particle partitioning could potentially be important in the production of GOM as well as Br and BrO at the marine site.

Natural and anthropogenic atmospheric mercury in the European Arctic: a speciation study

NASA Astrophysics Data System (ADS)

Steen, A. O.; Berg, T.; Dastoor, A. P.; Durnford, D. A.; Hole, L. R.; Pfaffhuber, K. A.

2010-11-01

It is agreed that gaseous elemental mercury (GEM) is converted to reactive gaseous mercury (RGM) during springtime Atmospheric Mercury Depletion Event (AMDE). RGM is associated with aerosols (PHg) provided that there are sufficient aerosols available for the conversion from RGM to PHg to occur. This study reports the longest time series of GEM, RGM and PHg concentrations from a European Arctic site. From 27 April 2007 until 31 December 2008 composite GEM, RGM and PHg measurements were conducted in Ny-Ålesund (78°54' N, 11°53' E). The average concentrations of the complete dataset were 1.62±0.3 ng m-3, 8±13 pgm-3 and 8±25 pgm-3 for GEM, RGM and PHg, respectively. The study revealed a clear seasonal distribution of GEM, RGM and PHg previously undiscovered. For the complete dataset the atmospheric mercury distribution was 99% GEM, whereas RGM and PHg constituted <1%. Increased PHg concentration occurred exclusively from March through April, and constituted on average 75% of the reactive mercury species in the respective period. RGM was suggested as the precursor for the PHg existence, but long range transportation of PHg has to be taken into consideration. Surprisingly, RGM was not solely formed during the spring AMDE season. Environment Canada's Global/Regional Atmospheric Heavy Metal model (GRAHM) suggested that in situ oxidation of GEM by ozone may be producing the increased RGM concentrations from March through August. Most likely, in situ oxidation of GEM by BrO produced the observed RGM from March through August. The AMDEs occurred from late March until mid June and were thought to be of non-local origin, with GEM being transported to the study site by a wide variety of air masses. With some exceptions, no clear meteorological regime was associated with the GEM, RGM and PHg concentrations.

Complete Tem-Tomography: 3D Structure of Gems Cluster

NASA Technical Reports Server (NTRS)

Matsuno, J.; Miyake, A.; Tsuchiyama, A.; Messenger, S.; Nakamura-Messenger, K.

2015-01-01

GEMS (glass with embedded metal and sulfide) grains in interplanetary dust particles (IDPs) are considered to be one of the ubiquitous and fundamental building blocks of solids in the Solar System. They have been considered to be interstellar silicate dust that survived various metamorphism or alteration processes in the protoplanetary disk but the elemental and isotopic composition measurements suggest that most of them have been formed in the protoplanetary disk as condensates from high temperature gas. This formation model is also supported by the formation of GEMS-like grains with respect to the size, mineral assemblage, texture and infrared spectrum by condensation experiments from mean GEMS composition materials. Previous GEMS studies were performed only with 2D observation by transmission electron microscopy (TEM) or scanning TEM (STEM). However, the 3D shape and structure of GEMS grains and the spatial distribution of Fe/FeS's has critical information about their formation and origin. Recently, the 3D structure of GEMS grains in ultrathin sections of cluster IDPs was revealed by electron tomography using a TEM/STEM (JEM-2100F, JEOL). However, CT images of thin sections mounted on Cu grids acquired by conventional TEM-tomography are limited to low tilt angles (e. g., less than absolute value of 75 deg. In fact, previous 3D TEM observations of GEMS were affected by some artifacts related to the limited tilt range in the TEM used. Complete tomographic images should be acquired by rotating the sample tilt angle over a range of more than absolute value of 80 deg otherwise the CT images lose their correct structures. In order to constrain the origin and formation process of GEMS grains more clearly, we performed complete electron tomography for GEMS grains. Here we report the sample preparation method we have developed for this study, and the preliminary results.

Modeling of serial data acquisition structure for GEM detector system in Matlab

NASA Astrophysics Data System (ADS)

Kolasinski, Piotr; Pozniak, Krzysztof T.; Czarski, Tomasz; Chernyshova, Maryna; Kasprowicz, Grzegorz; Krawczyk, Rafal D.; Wojenski, Andrzej; Zabolotny, Wojciech; Byszuk, Adrian

2016-09-01

This article presents method of modeling in Matlab hardware architecture dedicated for FPGA created by languages like VHDL or Verilog. Purposes of creating such type of model with its advantages and disadvantages are described. Rules presented in this article were exploited to create model of Serial Data Acquisition algorithm used in X-ray GEM detector system. Result were compared to real working model implemented in VHDL. After testing of basic structure, other two structures were modeled to see influence parameters of the structure on its behavior.

Simulation of the GEM detector for BM@N experiment

NASA Astrophysics Data System (ADS)

Baranov, Dmitriy; Rogachevsky, Oleg

2017-03-01

The Gas Electron Multiplier (GEM) detector is one of the basic parts of the BM@N experiment included in the NICA project. The simulation model that takes into account features of signal generation process in an ionization GEM chamber is presented in this article. Proper parameters for the simulation were extracted from data retrieved with the help of Garfield++ (a toolkit for the detailed simulation of particle detectors). Due to this, we are able to generate clusters in layers of the micro-strip readout that correspond to clusters retrieved from a real physics experiment.

The Value of Survival Gains in Pancreatic Cancer from Novel Treatment Regimens.

PubMed

MacEwan, Joanna P; Yin, Wes; Kaura, Satyin; Khan, Zeba M

2017-02-01

Metastatic pancreatic cancer (mPC) is associated with low survival, with less than 10% of patients surviving 5 years. Recent therapies improve survival outcomes where few alternative therapies exist, but few economic analyses measure the value of survival gains attributable to new therapies. To estimate the value of survival gains in advanced or mPC attributable to the introduction of novel treatment regimens. Multivariate Cox proportional hazards models were used to estimate real-world survival gains associated with the introduction of gemcitabine (GEM) for patients diagnosed with stage IV or unstaged mPC in the Surveillance, Epidemiology, and End Results Program cancer registries. Then, evidence from clinical trials was used to evaluate the survival gains associated with nab-paclitaxel + gemcitabine (nP +GEM) and FOLFIRINOX (FFX) relative to GEM. The survival estimates and clinical trial evidence were used to calibrate an economic model and assess the cumulative value of survival gains in mPC to patients. Costs of treatment were calculated based on published cost-effectiveness studies. We estimated that the introduction of GEM in 1996 was associated with a hazard ratio of 0.920 (P < 0.05) and an increase in median survival from 3.1 to 4.5 months. Results suggested that the value of survival gains attributable to GEM equaled about $71,000 per patient, while the value attributable to nP + GEM was an additional $56,700. Estimates for the value of survival gains per patient, net of total incremental lifetime treatment costs (drugs, adverse events, and other costs), were $50,294 for GEM and an additional $31,900 for nP + GEM. Clinical trials and cost-effectiveness studies reported an overall survival gain from FFX that was larger than, but statistically similar to, nP + GEM and had greater risk of adverse events and total incremental costs. We estimated that the total value of survival gains to mPC patients, net of total costs, associated with GEM was up to $47.6 billion, and the additional values attributable to nP+GEM and FFX were up to $39.0 billion and $26.3 billion, respectively. Historically, mPC patients have faced high disease burden and had few treatment options. Treatments introduced since 1996 have led to improved survival, with varying costs associated with treatment and adverse events. Accounting for total incremental costs, the majority of the value of survival gains from GEM and nP+GEM was retained by mPC patients, highlighting the value of innovation in settings where survival is low and few alternative therapies exist. Support for this research was provided by Celgene. Precision Health Economics was compensated by Celgene for work on this study. MacEwan is an employee of, and Yin is a consultant to, Precision Health Economics. Kaura and Khan are employees of Celgene. Study concept and design were contributed primarily by Yin and MacEwan, along with Kaura and Khan. MacEwan collected the data, and data interpretation was performed primarily by MacEwan and Yin, along with Kaura and Khan. The manuscript was written and revised by MacEwan, Yin, Kaura, and Khan.

The GED4GEM project: development of a Global Exposure Database for the Global Earthquake Model initiative

USGS Publications Warehouse

Gamba, P.; Cavalca, D.; Jaiswal, K.S.; Huyck, C.; Crowley, H.

2012-01-01

In order to quantify earthquake risk of any selected region or a country of the world within the Global Earthquake Model (GEM) framework (www.globalquakemodel.org/), a systematic compilation of building inventory and population exposure is indispensable. Through the consortium of leading institutions and by engaging the domain-experts from multiple countries, the GED4GEM project has been working towards the development of a first comprehensive publicly available Global Exposure Database (GED). This geospatial exposure database will eventually facilitate global earthquake risk and loss estimation through GEM’s OpenQuake platform. This paper provides an overview of the GED concepts, aims, datasets, and inference methodology, as well as the current implementation scheme, status and way forward.

Aqueous-core PEG-coated PLA nanocapsules for an efficient entrapment of water soluble anticancer drugs and a smart therapeutic response.

PubMed

Cosco, Donato; Paolino, Donatella; De Angelis, Francesco; Cilurzo, Felisa; Celia, Christian; Di Marzio, Luisa; Russo, Diego; Tsapis, Nicolas; Fattal, Elias; Fresta, Massimo

2015-01-01

Novel PEGylated PLA nanocapsules (PEG-AcPLA nanocapsules), loading high percentage of water soluble drugs have been formulated by using multiple emulsion technique without using conventional stabilizers. In particular, sodium deoxycholate hydrate has been used to obtain nanocapsules having a mean diameter of about 200 nm and a polydispersity index of ∼ 0.1. Gemcitabine hydrochloride (GEM) was used as a model of hydrophilic drug. GEM-loaded PEG-AcPLA nanocapsules demonstrated a high encapsulation efficacy and the drug-release followed a zero-order kinetic. MTT-assay evidenced an increased antitumor effect of GEM-loaded PEG-AcPLA nanocapsules compared to the free drug on different cancer cell lines and confocal laser scanning microscopy showed a significant improvement of cell interaction at 6h of incubation. In vivo anticancer activity of GEM-loaded PEG-AcPLA nanocapsules using two xenograft murine models of human solid tumors further supported the efficacy of this nano-drug, thus providing preliminary results about the potential clinical application of this innovative nanotherapeutic. Copyright © 2014 Elsevier B.V. All rights reserved.

Lorentz violation, gravitoelectromagnetic field and Bhabha scattering

NASA Astrophysics Data System (ADS)

Santos, A. F.; Khanna, Faqir C.

2018-01-01

Lorentz symmetry is a fundamental symmetry in the Standard Model (SM) and in General Relativity (GR). This symmetry holds true for all models at low energies. However, at energies near the Planck scale, it is conjectured that there may be a very small violation of Lorentz symmetry. The Standard Model Extension (SME) is a quantum field theory that includes a systematic description of Lorentz symmetry violations in all sectors of particle physics and gravity. In this paper, SME is considered to study the physical process of Bhabha Scattering in the Gravitoelectromagnetism (GEM) theory. GEM is an important formalism that is valid in a suitable approximation of general relativity. A new nonminimal coupling term that violates Lorentz symmetry is used in this paper. Differential cross-section for gravitational Bhabha scattering is calculated. The Lorentz violation contributions to this GEM scattering cross-section are small and are similar in magnitude to the case of the electromagnetic field.

Nongenetically modified Lactococcus lactis-adjuvanted vaccination enhanced innate immunity against Helicobacter pylori.

PubMed

Liu, Wei; Tan, Zhoulin; Liu, Hai; Zeng, Zhiqin; Luo, Shuanghui; Yang, Huimin; Zheng, Lufeng; Xi, Tao; Xing, Yingying

2017-10-01

Gram-positive enhancer matrix particles (GEM) produced by Lactococcus lactis can enhance vaccine-induced immune response. However, the mechanism under which this adjuvant mounts the efficacy of orally administered vaccines remains unexplored. We used a prophylactic mice model to investigate the mechanism of GEM-adjuvanted vaccination. Helicobacter pylori urease-specific antibody response was monitored and detected in murine serum by ELISA. Urease-specific splenic cytokine profile was examined. Gastric inflammatory responses were measured on day 43 or 71 by quantitative real-time PCR, flow cytometry and histology. We found that GEM enhanced the efficiency of oral H. pylori vaccine by promoting innate immunity. The vaccine CUE-GEM composed of GEM particles and recombinant antigen CTB-UE provided protection of immunized mice against H. pylori insult. The protective response was associated with induction of postimmunization gastritis and local Th1/Th17 cell-medicated immune response. We showed that innate inflammatory responses including neutrophil chemokines CXCL1-2, neutrophils, and antimicrobial proteins S100A8 and MUC1 were significantly elevated. Within all infected mice, S100A8 and MUC1 levels were negatively correlated with H. pylori burden. Strikingly, mice receiving GEM also show reduction of colonization, possibly through natural host response pathways to recruit CD4 + T cells and promote S100A8 expression. These findings suggest that GEM-based vaccine may impact Th1/Th17 immunity to orchestrate innate immune response against H. pylori infection. © 2017 John Wiley & Sons Ltd.

Downregulation of STAT3/NF-κB potentiates gemcitabine activity in pancreatic cancer cells.

PubMed

Gong, Jingjing; Muñoz, Amanda R; Pingali, Subramanya; Payton-Stewart, Florastina; Chan, Daniel E; Freeman, James W; Ghosh, Rita; Kumar, Addanki P

2017-02-01

There is an unmet need to develop new agents or strategies against therapy resistant pancreatic cancer (PanCA). Recent studies from our laboratory showed that STAT3 negatively regulates NF-κB and that inhibition of this crosstalk using Nexrutine® (Nx) reduces transcriptional activity of COX-2. Inhibition of these molecular interactions impedes pancreatic cancer cell growth as well as reduces fibrosis in a preclinical animal model. Nx is an extract derived from the bark of Phellodendron amurense and has been utilized in traditional Chinese medicine as antidiarrheal, astringent, and anti-inflammatory agent for centuries. We hypothesized that "Nx-mediated inhibition of survival molecules like STAT3 and NF-κB in pancreatic cancer cells will improve the efficacy of the conventional chemotherapeutic agent, gemcitabine (GEM)." Therefore, we explored the utility of Nx, one of its active constituents berberine and its derivatives, to enhance the effects of GEM. Using multiple human pancreatic cancer cells we found that combination treatment with Nx and GEM resulted in significant alterations of proteins in the STAT3/NF-κB signaling axis culminating in growth inhibition in a synergistic manner. Furthermore, GEM resistant cells were more sensitive to Nx treatment than their parental GEM-sensitive cells. Interestingly, although berberine, the Nx active component used, and its derivatives were biologically active in GEM sensitive cells they did not potentiate GEM activity when used in combination. Taken together, these results suggest that the natural extract, Nx, but not its active component, berberine, has the potential to improve GEM sensitivity, perhaps by down regulating STAT3/NF-κB signaling. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Atmospheric mercury speciation in Shanghai, China.

PubMed

Duan, Lian; Wang, Xiaohao; Wang, Dongfang; Duan, Yusen; Cheng, Na; Xiu, Guangli

2017-02-01

GEM (Gaseous elemental mercury), fine fraction (<2.5μm) PBM (Particle-bound mercury) and GOM (Gaseous oxidized mercury) were continuously monitored from Jun 1 to Dec 31 2014 at a suburban site in Shanghai. The average concentrations of GEM, PBM and GOM were 4.19±9.13ng·m -3 , 197±877pg·m -3 , 21±100pg·m -3 , respectively, which were all much higher than those at urban sites in Europe and North America and rural areas of China, but lower than those at urban sites of China. The concentrations of the three mercury species were all found with the highest concentration in December than those in summer. Overall, GEM varied little and PBM exhibited higher level during the night, while GOM typically peaked in the noon and afternoon which is consistent with that of ozone, indicating that GOM may depend on the stronger photochemical reactions during the daytime. Despite of the weak correlations of GEM with SO 2 (r=0.14, p<0.0001) and NO X (r=0.17, p<0.0001), GEM, PBM, SO 2 and NO x exhibited similar diurnal trend, suggesting that coal combustion might be the important sources of mercury in Shanghai because there is no mercury mining companies and few mercuric manufacturers in Shanghai. The strong correlation of PBM with GEM and GOM showed that directly anthropogenic emission was an important source of GEM and PBM, but the gas-particle partitioning of GOM and GEM might be also another source of PBM. The lower GEM/CO ratio of 3.9 (ng·m -3 ·ppmv -1 ) in Shanghai than that for mainland China and non-ferrous smelting factories were related to the few non-ferrous smelting factories around Shanghai. The results from the potential source contribution function (PSCF) model furtherly illustrated that in Shanghai the concentration of GEM in summer and autumn might be highly impacted by the local and regional source but wasn't heavily affected by long-range transport. Copyright © 2016 Elsevier B.V. All rights reserved.

Towards an automatic wind speed and direction profiler for Wide Field adaptive optics systems

NASA Astrophysics Data System (ADS)

Sivo, G.; Turchi, A.; Masciadri, E.; Guesalaga, A.; Neichel, B.

2018-05-01

Wide Field Adaptive Optics (WFAO) systems are among the most sophisticated adaptive optics (AO) systems available today on large telescopes. Knowledge of the vertical spatio-temporal distribution of wind speed (WS) and direction (WD) is fundamental to optimize the performance of such systems. Previous studies already proved that the Gemini Multi-Conjugated AO system (GeMS) is able to retrieve measurements of the WS and WD stratification using the SLOpe Detection And Ranging (SLODAR) technique and to store measurements in the telemetry data. In order to assess the reliability of these estimates and of the SLODAR technique applied to such complex AO systems, in this study we compared WS and WD values retrieved from GeMS with those obtained with the atmospheric model Meso-NH on a rich statistical sample of nights. It has previously been proved that the latter technique provided excellent agreement with a large sample of radiosoundings, both in statistical terms and on individual flights. It can be considered, therefore, as an independent reference. The excellent agreement between GeMS measurements and the model that we find in this study proves the robustness of the SLODAR approach. To bypass the complex procedures necessary to achieve automatic measurements of the wind with GeMS, we propose a simple automatic method to monitor nightly WS and WD using Meso-NH model estimates. Such a method can be applied to whatever present or new-generation facilities are supported by WFAO systems. The interest of this study is, therefore, well beyond the optimization of GeMS performance.

Mitochondria-associated ER Membranes (MAMs) and Glycosphingolipid Enriched Microdomains (GEMs): Isolation from Mouse Brain

PubMed Central

d'Azzo, Alessandra

2013-01-01

Intracellular organelles are highly dynamic structures with varying shape and composition, which are subjected to cell-specific intrinsic and extrinsic cues. Their membranes are often juxtaposed at defined contact sites, which become hubs for the exchange of signaling molecules and membrane components1,2,3,4. The inter-organellar membrane microdomains that are formed between the endoplasmic reticulum (ER) and the mitochondria at the opening of the IP3-sensitive Ca2+ channel are known as the mitochondria associated-ER membranes or MAMs4,5,6. The protein/lipid composition and biochemical properties of these membrane contact sites have been extensively studied particularly in relation to their role in regulating intracellular Ca2+ 4,5,6. The ER serves as the primary store of intracellular Ca2+, and in this capacity regulates a myriad of cellular processes downstream of Ca2+ signaling, including post-translational protein folding and protein maturation7. Mitochondria, on the other hand, maintain Ca2+ homeostasis, by buffering cytosolic Ca2+ concentration thereby preventing the initiation of apoptotic pathways downstream of Ca2+ unbalance4,8. The dynamic nature of the MAMs makes them ideal sites to dissect basic cellular mechanisms, including Ca2+ signaling and regulation of mitochondrial Ca2+ concentration, lipid biosynthesis and transport, energy metabolism and cell survival 4,9,10,11,12. Several protocols have been described for the purification of these microdomains from liver tissue and cultured cells13,14. Taking previously published methods into account, we have adapted a protocol for the isolation of mitochondria and MAMs from the adult mouse brain. To this procedure we have added an extra purification step, namely a Triton X100 extraction, which enables the isolation of the glycosphingolipid enriched microdomain (GEM) fraction of the MAMs. These GEM preparations share several protein components with caveolae and lipid rafts, derived from the plasma membrane or other intracellular membranes, and are proposed to function as gathering points for the clustering of receptor proteins and for protein–protein interactions4,15. PMID:23486347

Observations of reactive gaseous mercury in the free troposphere at the Mount Bachelor Observatory

NASA Astrophysics Data System (ADS)

Swartzendruber, P. C.; Jaffe, D. A.; Prestbo, E. M.; Weiss-Penzias, P.; Selin, N. E.; Park, R.; Jacob, D. J.; Strode, S.; Jaeglé, L.

2006-12-01

We measured gaseous elemental mercury (GEM), particulate mercury (PHg), and reactive gaseous mercury (RGM), along with CO, ozone, and aerosol scatter at the Mount Bachelor Observatory (2.7 km above sea level), Oregon, from May to August 2005. The mean mercury concentrations (at standard conditions) were 1.54 ng/m3 (GEM), 5.2 pg/m3 (PHg), and 43 pg/m3 (RGM). RGM enhancements, up to 600 pg/m3, occurred at night and were linked to a diurnal pattern of upslope and downslope flows that mixed in boundary layer air during the day and free tropospheric air at night. During the night, RGM was inversely correlated (P < 0.0001) with CO (r = -0.36), GEM (r = -0.73), and H2O (r = -0.44), was positively correlated with ozone (r = 0.38), and could not be linked to recent anthropogenic emissions from local sources or long-range transport. Principal component analysis and a composite of change in RGM versus change in GEM during RGM enhancements indicate that a nearly quantitative shift in speciation is associated with increases in ozone and decreases in water vapor and CO. This argues that high concentrations of RGM are present in the free troposphere because of in situ oxidation of GEM to RGM. A global chemical transport model reproduces the RGM mean and diurnal pattern but underestimates the magnitude of the largest observed enhancements. Since the only modeled, in situ RGM production mechanisms are oxidation of GEM by ozone and OH, this implies that there are faster reaction rates or additional RGM production mechanisms in the free troposphere.

Empowerment of women and its association with the health of the community.

PubMed

Varkey, Prathibha; Mbbs; Kureshi, Sarah; Lesnick, Timothy

2010-01-01

Empowerment and opportunities to experience power and control in one's life contribute to health and wellness. Although studies have assessed specific factors related to women's empowerment and their influence on health outcomes, there is a dearth of published literature assessing the relationship of the empowerment of women with the overall health of a community. By means of this article, we aim to assess the relationship of women's empowerment with health in 75 countries. We used the gender empowerment measure (GEM), a composite index measuring gender inequality in economic participation and decision making, political participation and decision making, and power over economic resources. All 75 countries with GEM values in the 2006 Human Development Report (HDR) were included in the study. Association between the GEM values and seven health indicators was evaluated using descriptive statistics, scatter plots, and simple and multiple linear regression models. We also controlled for gross domestic product (GDP) as a possible confounding factor and included this variable in the multiple regression models. When GDP was not considered, GEM had a statistically significant association with all health indicator variables except for proportion of 1-year-olds immunized against measles (correlation coefficient 0.063, p = 0.597). After adjusting for GDP, GEM was significantly associated with low birth weight, fertility rate, infant mortality, and age

Isotopic Composition of Gaseous Elemental Mercury in the Free Troposphere of the Pic du Midi Observatory, France.

PubMed

Fu, Xuewu; Marusczak, Nicolas; Wang, Xun; Gheusi, François; Sonke, Jeroen E

2016-06-07

Understanding the sources and transformations of mercury (Hg) in the free troposphere is a critical aspect of global Hg research. Here we present one year of observations of atmospheric Hg speciation and gaseous elemental Hg (GEM) isotopic composition at the high-altitude Pic du Midi Observatory (2860 m above sea level) in France. Biweekly integrated GEM from February 2012 to January 2013 revealed significant variations in δ(202)HgGEM (-0.04‰ to 0.52‰) but not in Δ(199)HgGEM (-0.17‰ to -0.27‰) or Δ(200)HgGEM (-0.10‰ to 0.05‰). δ(202)HgGEM was negatively correlated with CO and reflected air mass origins from Europe (high CO, low δ(202)HgGEM) and from the Atlantic Ocean (low CO, high δ(202)HgGEM). We suggest that the δ(202)HgGEM variations represent mixing of recent low δ(202)HgGEM European anthropogenic emissions with high δ(202)HgGEM northern hemispheric background GEM. In addition, Atlantic Ocean free troposphere air masses showed a positive correlation between δ(202)HgGEM and gaseous oxidized Hg (GOM) concentrations, indicative of mass-dependent Hg isotope fractionation during GEM oxidation. On the basis of atmospheric δ(202)HgGEM and speciated Hg observations, we suggest that the oceanic free troposphere is a reservoir within which GEM is readily oxidized to GOM.

Quantification of Gaseous Elemental Mercury Dry Deposition to Environmental Surfaces using Mercury Stable Isotopes in a Controlled Environment

NASA Astrophysics Data System (ADS)

Rutter, A. P.; Schauer, J. J.; Shafer, M. M.; Olson, M.; Robinson, M.; Vanderveer, P.; Creswell, J. E.; Parman, A.; Mallek, J.; Gorski, P.

2009-12-01

Andrew P. Rutter (1) * *, James J, Schauer (1,2) *, Martin M. Shafer(1,2), Michael R. Olson (1), Michael Robinson (1), Peter Vanderveer (3), Joel Creswell (1), Justin L. Mallek (1), Andrew M. Parman (1) (1) Environmental Chemistry and Technology Program, 660 N. Park St, Madison, WI 53705. (2) Wisconsin State Laboratory of Hygiene, 2601 Agriculture Drive, Madison, WI 53718. (3) Biotron, University of Wisconsin - Madison, 2115 Observatory Drive, Madison, WI 53706 * Correspond author(jjschauer@wisc.edu) * *Presenting author (aprutter@wisc.edu) Abstract Gaseous elemental mercury (GEM) is the predominant component of atmospheric mercury outside of arctic depletion events, and locations where anthropogenic point sources are not influencing atmospheric concentrations. GEM constitutes greater than 99% of the mercury mass in most rural and remote locations. While dry and wet deposition of atmospheric mercury is thought to be dominated by oxidized mercury (a.k.a. reactive mercury), only small GEM uptake to environmental surfaces could impact the input of mercury to terrestrial and aquatic ecosystems. Dry deposition and subsequent re-emission of gaseous elemental mercury is a pathway from the atmosphere that remains only partially understood from a mechanistic perspective. In order to properly model GEM dry deposition and re-emission an understanding of its dependence on irradiance, temperature, and relative humidity must be measured and parameterized for a broad spectrum of environmental surfaces colocated with surrogate deposition surfaces used to make field based dry deposition measurements. Measurements of isotopically enriched GEM dry deposition were made with a variety of environmental surfaces in a controlled environment room at the University of Wisconsin Biotron. The experimental set up allowed dry deposition components which are not easily separated in the field to be decoupled. We were able to isolate surface transfer processes from variabilities caused by atmospheric turbulence and wind speed. GEM enriched in stable isotope 198 (GEM-198) was released into the room from source at elevated but environmentally relevant concentrations of GEM-198 for several days. Uptake of GEM-198 from deciduous and conifer trees, grass turf, 3 types of soil, sand, concrete, asphalt, and adsorbent coated deposition coupons were quantified over several days. Exposures were conducted between 10oC and 30oC, in dark and light conditions. Mercury was recovered from the samples using acidic digestions and surface leaches, and then analyzed for the content of GEM-198 by high resolution ICPMS. Experimental results demonstrated that uptake by White Ash, White Spruce, and Kentucky bluegrass were significantly higher than uptakes measured for two Wisconsin soils, peat, sand, concrete and asphalt at all of the conditions studied. Deposition resistances for surface transfer processes for were calculated for each of the substrates across the conditions studied for use in atmospheric model simulations.

The Place of Global Reality in Interdisciplinary Settings: Using Modern Technology to Link Classrooms for Globalization.

ERIC Educational Resources Information Center

Morton, Chris; Mojkowski, Charles

The Global Education Model (GEM) Project, an undertaking of the Putnam-Northern Westchester Board of Cooperative Educational Services, is part of a larger effort to link students throughout the United States with their counterparts in other countries. GEM's educational technology is augmented by implementing, testing and analyzing nationally…

Assessment of the Suitability of High Resolution Numerical Weather Model Outputs for Hydrological Modelling in Mountainous Cold Regions

NASA Astrophysics Data System (ADS)

Rasouli, K.; Pomeroy, J. W.; Hayashi, M.; Fang, X.; Gutmann, E. D.; Li, Y.

2017-12-01

The hydrology of mountainous cold regions has a large spatial variability that is driven both by climate variability and near-surface process variability associated with complex terrain and patterns of vegetation, soils, and hydrogeology. There is a need to downscale large-scale atmospheric circulations towards the fine scales that cold regions hydrological processes operate at to assess their spatial variability in complex terrain and quantify uncertainties by comparison to field observations. In this research, three high resolution numerical weather prediction models, namely, the Intermediate Complexity Atmosphere Research (ICAR), Weather Research and Forecasting (WRF), and Global Environmental Multiscale (GEM) models are used to represent spatial and temporal patterns of atmospheric conditions appropriate for hydrological modelling. An area covering high mountains and foothills of the Canadian Rockies was selected to assess and compare high resolution ICAR (1 km × 1 km), WRF (4 km × 4 km), and GEM (2.5 km × 2.5 km) model outputs with station-based meteorological measurements. ICAR with very low computational cost was run with different initial and boundary conditions and with finer spatial resolution, which allowed an assessment of modelling uncertainty and scaling that was difficult with WRF. Results show that ICAR, when compared with WRF and GEM, performs very well in precipitation and air temperature modelling in the Canadian Rockies, while all three models show a fair performance in simulating wind and humidity fields. Representation of local-scale atmospheric dynamics leading to realistic fields of temperature and precipitation by ICAR, WRF, and GEM makes these models suitable for high resolution cold regions hydrological predictions in complex terrain, which is a key factor in estimating water security in western Canada.

Evaluation of advanced geopotential models for operational orbit determination

NASA Technical Reports Server (NTRS)

Radomski, M. S.; Davis, B. E.; Samii, M. V.; Engel, C. J.; Doll, C. E.

1988-01-01

To meet future orbit determination accuracy requirements for different NASA projects, analyses are performed using Tracking and Data Relay Satellite System (TDRSS) tracking measurements and orbit determination improvements in areas such as the modeling of the Earth's gravitational field. Current operational requirements are satisfied using the Goddard Earth Model-9 (GEM-9) geopotential model with the harmonic expansion truncated at order and degree 21 (21-by-21). This study evaluates the performance of 36-by-36 geopotential models, such as the GEM-10B and Preliminary Goddard Solution-3117 (PGS-3117) models. The Earth Radiation Budget Satellite (ERBS) and LANDSAT-5 are the spacecraft considered in this study.

Piperlongumine potentiates the effects of gemcitabine in in vitro and in vivo human pancreatic cancer models

PubMed Central

Mohammad, Jiyan; Dhillon, Harsharan; Chikara, Shireen; Mamidi, Sujan; Sreedasyam, Avinash; Chittem, Kishore; Orr, Megan; Wilkinson, John C.; Reindl, Katie M.

2018-01-01

Pancreatic ductal adenocarcinoma (PDAC) is one of the deadliest cancers due to a late diagnosis and poor response to available treatments. There is a need to identify complementary treatment strategies that will enhance the efficacy and reduce the toxicity of currently used therapeutic approaches. We investigated the ability of a known ROS inducer, piperlongumine (PL), to complement the modest anti-cancer effects of the approved chemotherapeutic agent gemcitabine (GEM) in PDAC cells in vitro and in vivo. PDAC cells treated with PL + GEM showed reduced cell viability, clonogenic survival, and growth on Matrigel compared to control and individually-treated cells. Nude mice bearing orthotopically implanted MIA PaCa-2 cells treated with both PL (5 mg/kg) and GEM (25 mg/kg) had significantly lower tumor weight and volume compared to control and single agent-treated mice. RNA sequencing (RNA-Seq) revealed that PL + GEM resulted in significant changes in p53-responsive genes that play a role in cell death, cell cycle, oxidative stress, and DNA repair pathways. Cell culture assays confirmed PL + GEM results in elevated ROS levels, arrests the cell cycle in the G0/G1 phase, and induces PDAC cell death. We propose a mechanism for the complementary anti-tumor effects of PL and GEM in PDAC cells through elevation of ROS and transcription of cell cycle arrest and cell death-associated genes. Collectively, our results suggest that PL has potential to be combined with GEM to more effectively treat PDAC. PMID:29535819

ISC-GEM: Global Instrumental Earthquake Catalogue (1900-2009), III. Re-computed MS and mb, proxy MW, final magnitude composition and completeness assessment

NASA Astrophysics Data System (ADS)

Di Giacomo, Domenico; Bondár, István; Storchak, Dmitry A.; Engdahl, E. Robert; Bormann, Peter; Harris, James

2015-02-01

This paper outlines the re-computation and compilation of the magnitudes now contained in the final ISC-GEM Reference Global Instrumental Earthquake Catalogue (1900-2009). The catalogue is available via the ISC website (http://www.isc.ac.uk/iscgem/). The available re-computed MS and mb provided an ideal basis for deriving new conversion relationships to moment magnitude MW. Therefore, rather than using previously published regression models, we derived new empirical relationships using both generalized orthogonal linear and exponential non-linear models to obtain MW proxies from MS and mb. The new models were tested against true values of MW, and the newly derived exponential models were then preferred to the linear ones in computing MW proxies. For the final magnitude composition of the ISC-GEM catalogue, we preferred directly measured MW values as published by the Global CMT project for the period 1976-2009 (plus intermediate-depth earthquakes between 1962 and 1975). In addition, over 1000 publications have been examined to obtain direct seismic moment M0 and, therefore, also MW estimates for 967 large earthquakes during 1900-1978 (Lee and Engdahl, 2015) by various alternative methods to the current GCMT procedure. In all other instances we computed MW proxy values by converting our re-computed MS and mb values into MW, using the newly derived non-linear regression models. The final magnitude composition is an improvement in terms of magnitude homogeneity compared to previous catalogues. The magnitude completeness is not homogeneous over the 110 years covered by the ISC-GEM catalogue. Therefore, seismicity rate estimates may be strongly affected without a careful time window selection. In particular, the ISC-GEM catalogue appears to be complete down to MW 5.6 starting from 1964, whereas for the early instrumental period the completeness varies from ∼7.5 to 6.2. Further time and resources would be necessary to homogenize the magnitude of completeness over the entire catalogue length.

Optimizing UV Index determination from broadband irradiances

NASA Astrophysics Data System (ADS)

Tereszchuk, Keith A.; Rochon, Yves J.; McLinden, Chris A.; Vaillancourt, Paul A.

2018-03-01

A study was undertaken to improve upon the prognosticative capability of Environment and Climate Change Canada's (ECCC) UV Index forecast model. An aspect of that work, and the topic of this communication, was to investigate the use of the four UV broadband surface irradiance fields generated by ECCC's Global Environmental Multiscale (GEM) numerical prediction model to determine the UV Index. The basis of the investigation involves the creation of a suite of routines which employ high-spectral-resolution radiative transfer code developed to calculate UV Index fields from GEM forecasts. These routines employ a modified version of the Cloud-J v7.4 radiative transfer model, which integrates GEM output to produce high-spectral-resolution surface irradiance fields. The output generated using the high-resolution radiative transfer code served to verify and calibrate GEM broadband surface irradiances under clear-sky conditions and their use in providing the UV Index. A subsequent comparison of irradiances and UV Index under cloudy conditions was also performed. Linear correlation agreement of surface irradiances from the two models for each of the two higher UV bands covering 310.70-330.0 and 330.03-400.00 nm is typically greater than 95 % for clear-sky conditions with associated root-mean-square relative errors of 6.4 and 4.0 %. However, underestimations of clear-sky GEM irradiances were found on the order of ˜ 30-50 % for the 294.12-310.70 nm band and by a factor of ˜ 30 for the 280.11-294.12 nm band. This underestimation can be significant for UV Index determination but would not impact weather forecasting. Corresponding empirical adjustments were applied to the broadband irradiances now giving a correlation coefficient of unity. From these, a least-squares fitting was derived for the calculation of the UV Index. The resultant differences in UV indices from the high-spectral-resolution irradiances and the resultant GEM broadband irradiances are typically within 0.2-0.3 with a root-mean-square relative error in the scatter of ˜ 6.6 % for clear-sky conditions. Similar results are reproduced under cloudy conditions with light to moderate clouds, with a relative error comparable to the clear-sky counterpart; under strong attenuation due to clouds, a substantial increase in the root-mean-square relative error of up to 35 % is observed due to differing cloud radiative transfer models.

S/G-1: an ab initio force-field blending frozen Hermite Gaussian densities and distributed multipoles. Proof of concept and first applications to metal cations.

PubMed

Chaudret, Robin; Gresh, Nohad; Narth, Christophe; Lagardère, Louis; Darden, Thomas A; Cisneros, G Andrés; Piquemal, Jean-Philip

2014-09-04

We demonstrate as a proof of principle the capabilities of a novel hybrid MM'/MM polarizable force field to integrate short-range quantum effects in molecular mechanics (MM) through the use of Gaussian electrostatics. This lead to a further gain in accuracy in the representation of the first coordination shell of metal ions. It uses advanced electrostatics and couples two point dipole polarizable force fields, namely, the Gaussian electrostatic model (GEM), a model based on density fitting, which uses fitted electronic densities to evaluate nonbonded interactions, and SIBFA (sum of interactions between fragments ab initio computed), which resorts to distributed multipoles. To understand the benefits of the use of Gaussian electrostatics, we evaluate first the accuracy of GEM, which is a pure density-based Gaussian electrostatics model on a test Ca(II)-H2O complex. GEM is shown to further improve the agreement of MM polarization with ab initio reference results. Indeed, GEM introduces nonclassical effects by modeling the short-range quantum behavior of electric fields and therefore enables a straightforward (and selective) inclusion of the sole overlap-dependent exchange-polarization repulsive contribution by means of a Gaussian damping function acting on the GEM fields. The S/G-1 scheme is then introduced. Upon limiting the use of Gaussian electrostatics to metal centers only, it is shown to be able to capture the dominant quantum effects at play on the metal coordination sphere. S/G-1 is able to accurately reproduce ab initio total interaction energies within closed-shell metal complexes regarding each individual contribution including the separate contributions of induction, polarization, and charge-transfer. Applications of the method are provided for various systems including the HIV-1 NCp7-Zn(II) metalloprotein. S/G-1 is then extended to heavy metal complexes. Tested on Hg(II) water complexes, S/G-1 is shown to accurately model polarization up to quadrupolar response level. This opens up the possibility of embodying explicit scalar relativistic effects in molecular mechanics thanks to the direct transferability of ab initio pseudopotentials. Therefore, incorporating GEM-like electron density for a metal cation enable the introduction of nonambiguous short-range quantum effects within any point-dipole based polarizable force field without the need of an extensive parametrization.

Computational methods for reactive transport modeling: A Gibbs energy minimization approach for multiphase equilibrium calculations

NASA Astrophysics Data System (ADS)

Leal, Allan M. M.; Kulik, Dmitrii A.; Kosakowski, Georg

2016-02-01

We present a numerical method for multiphase chemical equilibrium calculations based on a Gibbs energy minimization approach. The method can accurately and efficiently determine the stable phase assemblage at equilibrium independently of the type of phases and species that constitute the chemical system. We have successfully applied our chemical equilibrium algorithm in reactive transport simulations to demonstrate its effective use in computationally intensive applications. We used FEniCS to solve the governing partial differential equations of mass transport in porous media using finite element methods in unstructured meshes. Our equilibrium calculations were benchmarked with GEMS3K, the numerical kernel of the geochemical package GEMS. This allowed us to compare our results with a well-established Gibbs energy minimization algorithm, as well as their performance on every mesh node, at every time step of the transport simulation. The benchmark shows that our novel chemical equilibrium algorithm is accurate, robust, and efficient for reactive transport applications, and it is an improvement over the Gibbs energy minimization algorithm used in GEMS3K. The proposed chemical equilibrium method has been implemented in Reaktoro, a unified framework for modeling chemically reactive systems, which is now used as an alternative numerical kernel of GEMS.

The GTP binding proteins Gem and Rad are negative regulators of the Rho–Rho kinase pathway

PubMed Central

Ward, Yvona; Yap, Seow-Fong; Ravichandran, V.; Matsumura, Fumio; Ito, Masaaki; Spinelli, Beth; Kelly, Kathleen

2002-01-01

The cytoskeletal changes that alter cellular morphogenesis and motility depend upon a complex interplay among molecules that regulate actin, myosin, and other cytoskeletal components. The Rho family of GTP binding proteins are important upstream mediators of cytoskeletal organization. Gem and Rad are members of another family of small GTP binding proteins (the Rad, Gem, and Kir family) for which biochemical functions have been mostly unknown. Here we show that Gem and Rad interface with the Rho pathway through association with the Rho effectors, Rho kinase (ROK) α and β. Gem binds ROKβ independently of RhoA in the ROKβ coiled-coil region adjacent to the Rho binding domain. Expression of Gem inhibited ROKβ-mediated phosphorylation of myosin light chain and myosin phosphatase, but not LIM kinase, suggesting that Gem acts by modifying the substrate specificity of ROKβ. Gem or Rad expression led to cell flattening and neurite extension in N1E-115 neuroblastoma cells. In interference assays, Gem opposed ROKβ- and Rad opposed ROKα-mediated cell rounding and neurite retraction. Gem did not oppose cell rounding initiated by ROKβ containing a deletion of the Gem binding region, demonstrating that Gem binding to ROKβ is required for the effects observed. In epithelial or fibroblastic cells, Gem or Rad expression resulted in stress fiber and focal adhesion disassembly. In addition, Gem reverted the anchorage-independent growth and invasiveness of Dbl-transformed fibroblasts. These results identify physiological roles for Gem and Rad in cytoskeletal regulation mediated by ROK. PMID:11956230

GEM-AC, a stratospheric-tropospheric global and regional model for air quality and climate change: evaluation of gas phase properties

NASA Astrophysics Data System (ADS)

Kaminski, J. W.; Semeniuk, K.; McConnell, J. C.; Lupu, A.; Mamun, A.

2012-12-01

The Global Environmental Multiscale model for Air Quality and climate change (GEM-AC) is a global general circulation model based on the GEM model developed by the Meteorological Service of Canada for operational weather forecasting. It can be run with a global uniform (GU) grid or a global variable (GV) grid where the core has uniform grid spacing and the exterior grid expands. With a GV grid high resolution regional runs can be accomplished without a concern for boundary conditions. The work described here uses GEM version 3.3.2. The gas-phase chemistry consists in detailed reactions of Ox, NOx, HOx, CO, CH4, NMVOCs, halocarbons, ClOx and BrO. We have recently added elements of the Global Modal-aerosol eXtension (GMXe) scheme to address aerosol microphysics and gas-aerosol partitioning. The evaluation of the MESSY GMXe aerosol scheme is addressed in another poster. The Canadian aerosol module (CAM) is also available. Tracers are advected using the semi-Lagrangian scheme native to GEM. The vertical transport includes parameterized subgrid scale turbulence and large scale convection. Dry deposition is implemented as a flux boundary condition in the vertical diffusion equation. For climate runs the GHGs CO2, CH4, N2O, CFCs in the radiation scheme are adjusted to the scenario considered. In GV regional mode at high resolutions a lake model, FLAKE is also included. Wet removal comprises both in-cloud and below-cloud scavenging. With the gas phase chemistry the model has been run for a series of ten year time slices on a 3°×3° global grid with 77 hybrid levels from the surface to 0.15 hPa. The tropospheric and stratospheric gas phase results are compared with satellite measurements including, ACE, MIPAS, MOPITT, and OSIRIS. Current evaluations of the ozone field and other stratospheric fields are encouraging and tropospheric lifetimes for CH4 and CH3CCl3 are in reasonable accord with tropospheric models. We will present results for current and future climate conditions forced by SST for 2050.

Gas Electron Multipler (GEM) detectors for parity-violating electron scattering experiments at Jefferson Lab

NASA Astrophysics Data System (ADS)

Matter, John; Gnanvo, Kondo; Liyanage, Nilanga; Solid Collaboration; Moller Collaboration

2017-09-01

The JLab Parity Violation In Deep Inelastic Scattering (PVDIS) experiment will use the upgraded 12 GeV beam and proposed Solenoidal Large Intensity Device (SoLID) to measure the parity-violating electroweak asymmetry in DIS of polarized electrons with high precision in order to search for physics beyond the Standard Model. Unlike many prior Parity-Violating Electron Scattering (PVES) experiments, PVDIS is a single-particle tracking experiment. Furthermore the experiment's high luminosity combined with the SoLID spectrometer's open configuration creates high-background conditions. As such, the PVDIS experiment has the most demanding tracking detector needs of any PVES experiment to date, requiring precision detectors capable of operating at high-rate conditions in PVDIS's full production luminosity. Developments in large-area GEM detector R&D and SoLID simulations have demonstrated that GEMs provide a cost-effective solution for PVDIS's tracking needs. The integrating-detector-based JLab Measurement Of Lepton Lepton Electroweak Reaction (MOLLER) experiment requires high-precision tracking for acceptance calibration. Large-area GEMs will be used as tracking detectors for MOLLER as well. The conceptual designs of GEM detectors for the PVDIS and MOLLER experiments will be presented.

Neonatal mucosal immunization with a non-living, non-genetically modified Lactococcus lactis vaccine carrier induces systemic and local Th1-type immunity and protects against lethal bacterial infection

PubMed Central

Ramirez, Karina; Ditamo, Yanina; Rodriguez, Liliana; Picking, Wendy L.; van Roosmalen, Maarten L.; Leenhouts, Kees; Pasetti, Marcela F.

2010-01-01

Safe and effective immunization of newborns and infants can significantly reduce childhood mortality, yet conventional vaccines have been largely unsuccessful in stimulating the neonatal immune system. We explored the capacity of a novel mucosal antigen delivery system consisting of non-living, non-genetically modified Lactococcus lactis particles, designated Gram-positive Enhancer Matrix (GEM), to induce immune responses in the neonatal setting. Yersinia pestis LcrV, used as model protective antigen, was displayed on the GEM particles. Newborn mice immunized intranasally with GEM-LcrV developed LcrV-specific antibodies, Th1-type cell-mediated immunity, and were protected against lethal Y. pestis (plague) infection. The GEM particles activated and enhanced the maturation of neonatal dendritic cells both in vivo and in vitro. These dendritic cells showed increased capacities for secretion of pro-inflammatory and Th1-cell polarizing cytokines, antigen presentation and stimulation of CD4+ and CD8+ T cells. These data show that mucosal immunization with L. lactis GEM particles carrying vaccine antigens represents a promising approach to prevent infectious diseases early in life. PMID:19924118

Benzylic oxidation of gemfibrozil-1-O-beta-glucuronide by P450 2C8 leads to heme alkylation and irreversible inhibition.

PubMed

Baer, Brian R; DeLisle, Robert Kirk; Allen, Andrew

2009-07-01

Gemfibrozil-1-O-beta-glucuronide (GEM-1-O-gluc), a major metabolite of the antihyperlipidemic drug gemfibrozil, is a mechanism-based inhibitor of P450 2C8 in vitro, and this irreversible inactivation may lead to clinical drug-drug interactions between gemfibrozil and other P450 2C8 substrates. In light of this in vitro finding and the observation that the glucuronide conjugate does not contain any obvious structural alerts, the current study was conducted to determine the potential site of GEM-1-O-gluc bioactivation and the subsequent mechanism of P450 2C8 inhibition (i.e., modification of apoprotein or heme). LC/MS analysis of a reaction mixture containing recombinant P450 2C8 and GEM-1-O-gluc revealed that the substrate was covalently linked to the heme prosthetic heme group during catalysis. A combination of mass spectrometry and deuterium isotope effects revealed that a benzylic carbon on the 2',5'-dimethylphenoxy group of GEM-1-O-gluc was covalently bound to the heme of P450 2C8. The regiospecificity of substrate addition to the heme group was not confirmed experimentally, but computational modeling experiments indicated that the gamma-meso position was the most likely site of modification. The metabolite profile, which consisted of two benzyl alcohol metabolites and a 4'-hydroxy-GEM-1-O-gluc metabolite, indicated that oxidation of GEM-1-O-gluc was limited to the 2',5'-dimethylphenoxy group. These results are consistent with an inactivation mechanism wherein GEM-1-O-gluc is oxidized to a benzyl radical intermediate, which evades oxygen rebound, and adds to the gamma-meso position of heme. Mechanism-based inhibition of P450 2C8 can be rationalized by the formation of the GEM-1-O-gluc-heme adduct and the consequential restriction of additional substrate access to the catalytic iron center.

Recognizing patterns of visual field loss using unsupervised machine learning

NASA Astrophysics Data System (ADS)

Yousefi, Siamak; Goldbaum, Michael H.; Zangwill, Linda M.; Medeiros, Felipe A.; Bowd, Christopher

2014-03-01

Glaucoma is a potentially blinding optic neuropathy that results in a decrease in visual sensitivity. Visual field abnormalities (decreased visual sensitivity on psychophysical tests) are the primary means of glaucoma diagnosis. One form of visual field testing is Frequency Doubling Technology (FDT) that tests sensitivity at 52 points within the visual field. Like other psychophysical tests used in clinical practice, FDT results yield specific patterns of defect indicative of the disease. We used Gaussian Mixture Model with Expectation Maximization (GEM), (EM is used to estimate the model parameters) to automatically separate FDT data into clusters of normal and abnormal eyes. Principal component analysis (PCA) was used to decompose each cluster into different axes (patterns). FDT measurements were obtained from 1,190 eyes with normal FDT results and 786 eyes with abnormal (i.e., glaucomatous) FDT results, recruited from a university-based, longitudinal, multi-center, clinical study on glaucoma. The GEM input was the 52-point FDT threshold sensitivities for all eyes. The optimal GEM model separated the FDT fields into 3 clusters. Cluster 1 contained 94% normal fields (94% specificity) and clusters 2 and 3 combined, contained 77% abnormal fields (77% sensitivity). For clusters 1, 2 and 3 the optimal number of PCA-identified axes were 2, 2 and 5, respectively. GEM with PCA successfully separated FDT fields from healthy and glaucoma eyes and identified familiar glaucomatous patterns of loss.

Multi-model study of mercury dispersion in the atmosphere: atmospheric processes and model evaluation

NASA Astrophysics Data System (ADS)

Travnikov, Oleg; Angot, Hélène; Artaxo, Paulo; Bencardino, Mariantonia; Bieser, Johannes; D'Amore, Francesco; Dastoor, Ashu; De Simone, Francesco; Diéguez, María del Carmen; Dommergue, Aurélien; Ebinghaus, Ralf; Feng, Xin Bin; Gencarelli, Christian N.; Hedgecock, Ian M.; Magand, Olivier; Martin, Lynwill; Matthias, Volker; Mashyanov, Nikolay; Pirrone, Nicola; Ramachandran, Ramesh; Read, Katie Alana; Ryjkov, Andrei; Selin, Noelle E.; Sena, Fabrizio; Song, Shaojie; Sprovieri, Francesca; Wip, Dennis; Wängberg, Ingvar; Yang, Xin

2017-04-01

Current understanding of mercury (Hg) behavior in the atmosphere contains significant gaps. Some key characteristics of Hg processes, including anthropogenic and geogenic emissions, atmospheric chemistry, and air-surface exchange, are still poorly known. This study provides a complex analysis of processes governing Hg fate in the atmosphere involving both measured data from ground-based sites and simulation results from chemical transport models. A variety of long-term measurements of gaseous elemental Hg (GEM) and reactive Hg (RM) concentration as well as Hg wet deposition flux have been compiled from different global and regional monitoring networks. Four contemporary global-scale transport models for Hg were used, both in their state-of-the-art configurations and for a number of numerical experiments to evaluate particular processes. Results of the model simulations were evaluated against measurements. As follows from the analysis, the interhemispheric GEM gradient is largely formed by the prevailing spatial distribution of anthropogenic emissions in the Northern Hemisphere. The contributions of natural and secondary emissions enhance the south-to-north gradient, but their effect is less significant. Atmospheric chemistry has a limited effect on the spatial distribution and temporal variation of GEM concentration in surface air. In contrast, RM air concentration and wet deposition are largely defined by oxidation chemistry. The Br oxidation mechanism can reproduce successfully the observed seasonal variation of the RM / GEM ratio in the near-surface layer, but it predicts a wet deposition maximum in spring instead of in summer as observed at monitoring sites in North America and Europe. Model runs with OH chemistry correctly simulate both the periods of maximum and minimum values and the amplitude of observed seasonal variation but shift the maximum RM / GEM ratios from spring to summer. O3 chemistry does not predict significant seasonal variation of Hg oxidation. Hence, the performance of the Hg oxidation mechanisms under study differs in the extent to which they can reproduce the various observed parameters. This variation implies possibility of more complex chemistry and multiple Hg oxidation pathways occurring concurrently in various parts of the atmosphere.

The Ohio State 1991 geopotential and sea surface topography harmonic coefficient models

NASA Technical Reports Server (NTRS)

Rapp, Richard H.; Wang, Yan Ming; Pavlis, Nikolaos K.

1991-01-01

The computation is described of a geopotential model to deg 360, a sea surface topography model to deg 10/15, and adjusted Geosat orbits for the first year of the exact repeat mission (ERM). This study started from the GEM-T2 potential coefficient model and it's error covariance matrix and Geosat orbits (for 22 ERMs) computed by Haines et al. using the GEM-T2 model. The first step followed the general procedures which use a radial orbit error theory originally developed by English. The Geosat data was processed to find corrections to the a priori geopotential model, corrections to a radial orbit error model for 76 Geosat arcs, and coefficients of a harmonic representation of the sea surface topography. The second stage of the analysis took place by doing a combination of the GEM-T2 coefficients with 30 deg gravity data derived from surface gravity data and anomalies obtained from altimeter data. The analysis has shown how a high degree spherical harmonic model can be determined combining the best aspects of two different analysis techniques. The error analysis was described that has led to the accuracy estimates for all the coefficients to deg 360. Significant work is needed to improve the modeling effort.

Impact of a Genetically Engineered Bacterium with Enhanced Alkaline Phosphatase Activity on Marine Phytoplankton Communities

PubMed Central

Sobecky, P. A.; Schell, M. A.; Moran, M. A.; Hodson, R. E.

1996-01-01

An indigenous marine Achromobacter sp. was isolated from coastal Georgia seawater and modified in the laboratory by introduction of a plasmid with a phoA hybrid gene that directed constitutive overproduction of alkaline phosphatase. The effects of this "indigenous" genetically engineered microorganism (GEM) on phosphorus cycling were determined in seawater microcosms following the addition of a model dissolved organic phosphorus compound, glycerol 3-phosphate, at a concentration of 1 or 10 (mu)M. Within 48 h, a 2- to 10-fold increase in the concentration of inorganic phosphate occurred in microcosms containing the GEM (added at an initial density equivalent to 8% of the total bacterial population) relative to controls containing only natural microbial populations, natural populations with the unmodified Achromobacter sp., or natural populations with the Achromobacter sp. containing the plasmid but not the phoA gene. Secondary effects of the GEM on the phytoplankton community were observed after several days, evident as sustained increases in phytoplankton biomass (up to 14-fold) over that in controls. Even in the absence of added glycerol 3-phosphate, a numerically stable GEM population (averaging 3 to 5% of culturable bacteria) was established within 2 to 3 weeks of introduction into seawater. Moreover, alkaline phosphatase activity in microcosms with the GEM was substantially higher than that in controls for up to 25 days, and microcosms containing the GEM maintained the potential for net phosphate accumulation above control levels for longer than 1 month. PMID:16535222

Gaseous elemental mercury in the marine boundary layer and air-sea flux in the Southern Ocean in austral summer.

PubMed

Wang, Jiancheng; Xie, Zhouqing; Wang, Feiyue; Kang, Hui

2017-12-15

Gaseous elemental mercury (GEM) in the marine boundary layer (MBL), and dissolved gaseous mercury (DGM) in surface seawater of the Southern Ocean were measured in the austral summer from December 13, 2014 to February 1, 2015. GEM concentrations in the MBL ranged from 0.4 to 1.9ngm -3 (mean±standard deviation: 0.9±0.2ngm -3 ), whereas DGM concentrations in surface seawater ranged from 7.0 to 75.9pgL -1 (mean±standard deviation: 23.7±13.2pgL -1 ). The occasionally observed low GEM in the MBL suggested either the occurrence of atmospheric mercury depletion in summer, or the transport of GEM-depleted air from the Antarctic Plateau. Elevated GEM concentrations in the MBL and DGM concentrations in surface seawater were consistently observed in the ice-covered region of the Ross Sea implying the influence of the sea ice environment. Diminishing sea ice could cause more mercury evasion from the ocean to the air. Using the thin film gas exchange model, the air-sea fluxes of gaseous mercury in non-ice-covered area during the study period were estimated to range from 0.0 to 6.5ngm -2 h -1 with a mean value of 1.5±1.8ngm -2 h -1 , revealing GEM (re-)emission from the East Southern Ocean in summer. Copyright © 2017 Elsevier B.V. All rights reserved.

The GAAIN Entity Mapper: An Active-Learning System for Medical Data Mapping.

PubMed

Ashish, Naveen; Dewan, Peehoo; Toga, Arthur W

2015-01-01

This work is focused on mapping biomedical datasets to a common representation, as an integral part of data harmonization for integrated biomedical data access and sharing. We present GEM, an intelligent software assistant for automated data mapping across different datasets or from a dataset to a common data model. The GEM system automates data mapping by providing precise suggestions for data element mappings. It leverages the detailed metadata about elements in associated dataset documentation such as data dictionaries that are typically available with biomedical datasets. It employs unsupervised text mining techniques to determine similarity between data elements and also employs machine-learning classifiers to identify element matches. It further provides an active-learning capability where the process of training the GEM system is optimized. Our experimental evaluations show that the GEM system provides highly accurate data mappings (over 90% accuracy) for real datasets of thousands of data elements each, in the Alzheimer's disease research domain. Further, the effort in training the system for new datasets is also optimized. We are currently employing the GEM system to map Alzheimer's disease datasets from around the globe into a common representation, as part of a global Alzheimer's disease integrated data sharing and analysis network called GAAIN. GEM achieves significantly higher data mapping accuracy for biomedical datasets compared to other state-of-the-art tools for database schema matching that have similar functionality. With the use of active-learning capabilities, the user effort in training the system is minimal.

The GAAIN Entity Mapper: An Active-Learning System for Medical Data Mapping

PubMed Central

Ashish, Naveen; Dewan, Peehoo; Toga, Arthur W.

2016-01-01

This work is focused on mapping biomedical datasets to a common representation, as an integral part of data harmonization for integrated biomedical data access and sharing. We present GEM, an intelligent software assistant for automated data mapping across different datasets or from a dataset to a common data model. The GEM system automates data mapping by providing precise suggestions for data element mappings. It leverages the detailed metadata about elements in associated dataset documentation such as data dictionaries that are typically available with biomedical datasets. It employs unsupervised text mining techniques to determine similarity between data elements and also employs machine-learning classifiers to identify element matches. It further provides an active-learning capability where the process of training the GEM system is optimized. Our experimental evaluations show that the GEM system provides highly accurate data mappings (over 90% accuracy) for real datasets of thousands of data elements each, in the Alzheimer's disease research domain. Further, the effort in training the system for new datasets is also optimized. We are currently employing the GEM system to map Alzheimer's disease datasets from around the globe into a common representation, as part of a global Alzheimer's disease integrated data sharing and analysis network called GAAIN1. GEM achieves significantly higher data mapping accuracy for biomedical datasets compared to other state-of-the-art tools for database schema matching that have similar functionality. With the use of active-learning capabilities, the user effort in training the system is minimal. PMID:26793094

The role of evaporites in the formation of gems during metamorphism of carbonate platforms: a review

NASA Astrophysics Data System (ADS)

Giuliani, Gaston; Dubessy, Jean; Ohnenstetter, Daniel; Banks, David; Branquet, Yannick; Feneyrol, Julien; Fallick, Anthony E.; Martelat, Jean-Emmanuel

2018-01-01

The mineral and fluid inclusions trapped by gemstones during the metamorphism of carbonate platform successions are precious markers for the understanding of gem genesis. The nature and chemical composition of inclusions highlight the major contribution of evaporites through dissolution or fusion, depending on the temperature of formation from greenschist to granulite facies. The fluids are highly saline NaCl-brines circulating either in an open system in the greenschist facies (Colombian and Afghan emeralds) and with huge fluid-rock metasomatic interactions, or sulphurous fluids (ruby, garnet tsavorite, zoisite tanzanite and lapis-lazuli) or molten salts formed in a closed system with a low fluid mobility (ruby in marble) in the conditions of the amphibolite to granulite facies. These chloride-fluoride-sulphate ± carbonate-rich fluids scavenged the metals essential for gem formation. At high temperature, the anions SO4 2-, NO3 -, BO3 - and F- are powerful fluxes which lower the temperature of chloride- and fluoride-rich ionic liquids. They provided transport over a very short distance of aluminium and/or silica and transition metals which are necessary for gem growth. In summary, the genetic models proposed for these high-value and ornamental gems underline the importance of the metamorphism of evaporites formed on continental carbonate shelves and emphasise the chemical power accompanying metamorphism at moderate to high temperatures of evaporite-rich and organic matter-rich protoliths to form gem minerals.

Projection of Carbon Dynamics in the Marine West Coast Forests under Climate and Land Cover changes Using General Ensemble Biogeochemical Modeling System (GEMS)

NASA Astrophysics Data System (ADS)

WU, Y.; Liu, S.; Li, Z.; Young, C.; Werner, J.; Dahal, D.; Liu, J.; Schmidt, G.

2012-12-01

Climate and land cover changes may influence the capacity of the terrestrial ecosystems to be carbon sinks or sources. The objective of this study was to investigate the potential change of the carbon sequestration in the Marine West Coast Forests ecoregion in the Pacific Northwest United States using the General Ensemble Biogeochemical Modeling System (GEMS). In GEMS, the underlying biogeochemical model, Erosion and Deposition Carbon Model (EDCM), was used and calibrated using MODIS net primary production (NPP) and grain yield data during the baseline period from 2002 to 2005, and then validated with another four-year period from 2006 to 2009. GEMS-EDCM was driven using projected climate from three General Circulation Models (GCMs) under three IPCC scenarios (A2, A1B, and B1) and derived land cover data from the FORecasting SCEnarios (FORE-SCE) model under the same three IPCC scenarios for the period from 2006 to 2050. This ecoregion, two-thirds of which is covered by forest, was projected to continue to gain carbon from 2005 to 2050, with an annual carbon sequestration of about -3 Tg C. It was also predicted that live biomass and soil organic carbon (SOC) would contain about 48% and 33% of the total carbon storage by 2050, respectively. In addition, forest carbon sequestration (-2 Tg C yr-1) demonstrated to be the largest sink among all ecosystems, accounting for 73% of the total, followed by grass/shrub and agriculture. Overall, results about predicted dynamics of carbon storage and sequestration can be informative to policy makers for seeking mitigation plans to reduce greenhouse gases emissions.

Not Your Ordinary GEM

NASA Technical Reports Server (NTRS)

2001-01-01

Through Small Business Innovation Research (SBIR) funding from NASA's Stennis Space Center, Geophex devised a new design for broadband electromagnetic sensors. Geophex developed a patented sensing technology, capable not only of coastal monitoring, but also a variety of other functions, including environmental pollution characterization, groundwater contamination detection, archaeological study, and mineral detection. The new technology is offered in several of the company's products the GEM-2, GEM-2A, and the GEM-3. The Geophex products consist of two primary electromagnetic coils, which are stimulated by alternating currents that generate a magnetic field in the object targeted for investigation. GEM-2 is a handheld, lightweight, programmable, digital device. GEM-2A is an airborne version of the sensor. Suspended from a helicopter, the GEM-2A is used to search for mineral deposits and to survey large tracts of land. The GEM-3 is capable of detecting buried landmines and other active munitions. GEM-3 identifies landmines by their brand names. Because each landmine has its own unique electromagnetic response to the broad frequency band emitted by the GEM-3, bomb identification and disposal strategies are made easier.

Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints

DOE PAGES

Sánchez, Benjamín J.; Zhang, Cheng; Nilsson, Avlant; ...

2017-03-08

Genome-scale metabolic models (GEMs) are widely used to calculate metabolic phenotypes. They rely on defining a set of constraints, the most common of which is that the production of metabolites and/or growth are limited by the carbon source uptake rate. However, enzyme abundances and kinetics, which act as limitations on metabolic fluxes, are not taken into account. Here, we present GECKO, a method that enhances a GEM to account for enzymes as part of reactions, thereby ensuring that each metabolic flux does not exceed its maximum capacity, equal to the product of the enzyme's abundance and turnover number. We appliedmore » GECKO to a Saccharomyces cerevisiae GEM and demonstrated that the new model could correctly describe phenotypes that the previous model could not, particularly under high enzymatic pressure conditions, such as yeast growing on different carbon sources in excess, coping with stress, or overexpressing a specific pathway. GECKO also allows to directly integrate quantitative proteomics data; by doing so, we significantly reduced flux variability of the model, in over 60% of metabolic reactions. Additionally, the model gives insight into the distribution of enzyme usage between and within metabolic pathways. The developed method and model are expected to increase the use of model-based design in metabolic engineering.« less

Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sánchez, Benjamín J.; Zhang, Cheng; Nilsson, Avlant

Genome-scale metabolic models (GEMs) are widely used to calculate metabolic phenotypes. They rely on defining a set of constraints, the most common of which is that the production of metabolites and/or growth are limited by the carbon source uptake rate. However, enzyme abundances and kinetics, which act as limitations on metabolic fluxes, are not taken into account. Here, we present GECKO, a method that enhances a GEM to account for enzymes as part of reactions, thereby ensuring that each metabolic flux does not exceed its maximum capacity, equal to the product of the enzyme's abundance and turnover number. We appliedmore » GECKO to a Saccharomyces cerevisiae GEM and demonstrated that the new model could correctly describe phenotypes that the previous model could not, particularly under high enzymatic pressure conditions, such as yeast growing on different carbon sources in excess, coping with stress, or overexpressing a specific pathway. GECKO also allows to directly integrate quantitative proteomics data; by doing so, we significantly reduced flux variability of the model, in over 60% of metabolic reactions. Additionally, the model gives insight into the distribution of enzyme usage between and within metabolic pathways. The developed method and model are expected to increase the use of model-based design in metabolic engineering.« less

Origins of GEMS Grains

NASA Technical Reports Server (NTRS)

Messenger, S.; Walker, R. M.

2012-01-01

Interplanetary dust particles (IDPs) collected in the Earth s stratosphere contain high abundances of submicrometer amorphous silicates known as GEMS grains. From their birth as condensates in the outflows of oxygen-rich evolved stars, processing in interstellar space, and incorporation into disks around new stars, amorphous silicates predominate in most astrophysical environments. Amorphous silicates were a major building block of our Solar System and are prominent in infrared spectra of comets. Anhydrous interplanetary dust particles (IDPs) thought to derive from comets contain abundant amorphous silicates known as GEMS (glass with embedded metal and sulfides) grains. GEMS grains have been proposed to be isotopically and chemically homogenized interstellar amorphous silicate dust. We evaluated this hypothesis through coordinated chemical and isotopic analyses of GEMS grains in a suite of IDPs to constrain their origins. GEMS grains show order of magnitude variations in Mg, Fe, Ca, and S abundances. GEMS grains do not match the average element abundances inferred for ISM dust containing on average, too little Mg, Fe, and Ca, and too much S. GEMS grains have complementary compositions to the crystalline components in IDPs suggesting that they formed from the same reservoir. We did not observe any unequivocal microstructural or chemical evidence that GEMS grains experienced prolonged exposure to radiation. We identified four GEMS grains having O isotopic compositions that point to origins in red giant branch or asymptotic giant branch stars and supernovae. Based on their O isotopic compositions, we estimate that 1-6% of GEMS grains are surviving circumstellar grains. The remaining 94-99% of GEMS grains have O isotopic compositions that are indistinguishable from terrestrial materials and carbonaceous chondrites. These isotopically solar GEMS grains either formed in the Solar System or were completely homogenized in the interstellar medium (ISM). However, the chemical compositions of GEMS grains are extremely heterogeneous and seem to rule out this possibility. Based on their solar isotopic compositions and their non-solar elemental compositions we propose that most GEMS grains formed in the nebula as late-stage non-equilibrium condensates.

Building a better methane generation model: Validating models with methane recovery rates from 35 Canadian landfills.

PubMed

Thompson, Shirley; Sawyer, Jennifer; Bonam, Rathan; Valdivia, J E

2009-07-01

The German EPER, TNO, Belgium, LandGEM, and Scholl Canyon models for estimating methane production were compared to methane recovery rates for 35 Canadian landfills, assuming that 20% of emissions were not recovered. Two different fractions of degradable organic carbon (DOC(f)) were applied in all models. Most models performed better when the DOC(f) was 0.5 compared to 0.77. The Belgium, Scholl Canyon, and LandGEM version 2.01 models produced the best results of the existing models with respective mean absolute errors compared to methane generation rates (recovery rates + 20%) of 91%, 71%, and 89% at 0.50 DOC(f) and 171%, 115%, and 81% at 0.77 DOC(f). The Scholl Canyon model typically overestimated methane recovery rates and the LandGEM version 2.01 model, which modifies the Scholl Canyon model by dividing waste by 10, consistently underestimated methane recovery rates; this comparison suggested that modifying the divisor for waste in the Scholl Canyon model between one and ten could improve its accuracy. At 0.50 DOC(f) and 0.77 DOC(f) the modified model had the lowest absolute mean error when divided by 1.5 yielding 63 +/- 45% and 2.3 yielding 57 +/- 47%, respectively. These modified models reduced error and variability substantially and both have a strong correlation of r = 0.92.

YIP: Generic Environment Models (GEMs) for Agile Marine Autonomy

DTIC Science & Technology

2013-09-30

2012, and spring 2013, SC for a related NSF project: “Mechanisms of nutrient input at the shelf margin supporting persistent winter phytoplankton blooms...the Shelf Margin Supporting Persistent Winter Phytoplankton Blooms Downstream of the Charleston Bump. We will deploy underwater gliders in Long Bay...SC to study mechanisms of nutrient input at the shelf margin supporting persistent winter phytoplankton blooms downstream of the Charleston Bump. GEM

Hepatic Disposition of Gemfibrozil and Its Major Metabolite Gemfibrozil 1-O-β-Glucuronide.

PubMed

Kimoto, Emi; Li, Rui; Scialis, Renato J; Lai, Yurong; Varma, Manthena V S

2015-11-02

Gemfibrozil (GEM), which decreases serum triglycerides and low density lipoprotein, perpetrates drug-drug interactions (DDIs) with several drugs. These DDIs are primarily attributed to the inhibition of drug transporters and metabolic enzymes, particularly cytochrome P450 (CYP) 2C8 by the major circulating metabolite gemfibrozil 1-O-β-glucuronide (GG). Here, we characterized the transporter-mediated hepatic disposition of GEM and GG using sandwich-cultured human hepatocytes (SCHH) and transporter-transfect systems. Significant active uptake was noted in SCHH for the metabolite. GG, but not GEM, showed substrate affinity to organic anion transporting polypeptide (OATP) 1B1, 1B3, and 2B1. In SCHH, glucuronidation was characterized affinity constants (Km) of 7.9 and 61.4 μM, and biliary excretion of GG was observed. Furthermore, GG showed active basolateral efflux from preloaded SCHH and ATP-dependent uptake into membrane vesicles overexpressing multidrug resistance-associated protein (MRP) 2, MRP3, and MRP4. A mathematical model was developed to estimate hepatic uptake and efflux kinetics of GEM and GG based on SCHH studies. Collectively, the hepatic transporters play a key role in the disposition and thus determine the local concentrations of GEM and more so for GG, which is the predominant inhibitory species against CYP2C8 and OATP1B1.

Automated analysis of flow cytometric data for measuring neutrophil CD64 expression using a multi-instrument compatible probability state model.

PubMed

Wong, Linda; Hill, Beth L; Hunsberger, Benjamin C; Bagwell, C Bruce; Curtis, Adam D; Davis, Bruce H

2015-01-01

Leuko64™ (Trillium Diagnostics) is a flow cytometric assay that measures neutrophil CD64 expression and serves as an in vitro indicator of infection/sepsis or the presence of a systemic acute inflammatory response. Leuko64 assay currently utilizes QuantiCALC, a semiautomated software that employs cluster algorithms to define cell populations. The software reduces subjective gating decisions, resulting in interanalyst variability of <5%. We evaluated a completely automated approach to measuring neutrophil CD64 expression using GemStone™ (Verity Software House) and probability state modeling (PSM). Four hundred and fifty-seven human blood samples were processed using the Leuko64 assay. Samples were analyzed on four different flow cytometer models: BD FACSCanto II, BD FACScan, BC Gallios/Navios, and BC FC500. A probability state model was designed to identify calibration beads and three leukocyte subpopulations based on differences in intensity levels of several parameters. PSM automatically calculates CD64 index values for each cell population using equations programmed into the model. GemStone software uses PSM that requires no operator intervention, thus totally automating data analysis and internal quality control flagging. Expert analysis with the predicate method (QuantiCALC) was performed. Interanalyst precision was evaluated for both methods of data analysis. PSM with GemStone correlates well with the expert manual analysis, r(2) = 0.99675 for the neutrophil CD64 index values with no intermethod bias detected. The average interanalyst imprecision for the QuantiCALC method was 1.06% (range 0.00-7.94%), which was reduced to 0.00% with the GemStone PSM. The operator-to-operator agreement in GemStone was a perfect correlation, r(2) = 1.000. Automated quantification of CD64 index values produced results that strongly correlate with expert analysis using a standard gate-based data analysis method. PSM successfully evaluated flow cytometric data generated by multiple instruments across multiple lots of the Leuko64 kit in all 457 cases. The probability-based method provides greater objectivity, higher data analysis speed, and allows for greater precision for in vitro diagnostic flow cytometric assays. © 2015 International Clinical Cytometry Society.

Validation of a weather forecast model at radiance level against satellite observations allowing quantification of temperature, humidity, and cloud-related biases

NASA Astrophysics Data System (ADS)

Bani Shahabadi, Maziar; Huang, Yi; Garand, Louis; Heilliette, Sylvain; Yang, Ping

2016-09-01

An established radiative transfer model (RTM) is adapted for simulating all-sky infrared radiance spectra from the Canadian Global Environmental Multiscale (GEM) model in order to validate its forecasts at the radiance level against Atmospheric InfraRed Sounder (AIRS) observations. Synthetic spectra are generated for 2 months from short-term (3-9 h) GEM forecasts. The RTM uses a monthly climatological land surface emissivity/reflectivity atlas. An updated ice particle optical property library was introduced for cloudy radiance calculations. Forward model brightness temperature (BT) biases are assessed to be of the order of ˜1 K for both clear-sky and overcast conditions. To quantify GEM forecast meteorological variables biases, spectral sensitivity kernels are generated and used to attribute radiance biases to surface and atmospheric temperatures, atmospheric humidity, and clouds biases. The kernel method, supplemented with retrieved profiles based on AIRS observations in collocation with a microwave sounder, achieves good closure in explaining clear-sky radiance biases, which are attributed mostly to surface temperature and upper tropospheric water vapor biases. Cloudy-sky radiance biases are dominated by cloud-induced radiance biases. Prominent GEM biases are identified as: (1) too low surface temperature over land, causing about -5 K bias in the atmospheric window region; (2) too high upper tropospheric water vapor, inducing about -3 K bias in the water vapor absorption band; (3) too few high clouds in the convective regions, generating about +10 K bias in window band and about +6 K bias in the water vapor band.

Sharing behavioral data through a grid infrastructure using data standards

PubMed Central

Min, Hua; Ohira, Riki; Collins, Michael A; Bondy, Jessica; Avis, Nancy E; Tchuvatkina, Olga; Courtney, Paul K; Moser, Richard P; Shaikh, Abdul R; Hesse, Bradford W; Cooper, Mary; Reeves, Dianne; Lanese, Bob; Helba, Cindy; Miller, Suzanne M; Ross, Eric A

2014-01-01

Objective In an effort to standardize behavioral measures and their data representation, the present study develops a methodology for incorporating measures found in the National Cancer Institute's (NCI) grid-enabled measures (GEM) portal, a repository for behavioral and social measures, into the cancer data standards registry and repository (caDSR). Methods The methodology consists of four parts for curating GEM measures into the caDSR: (1) develop unified modeling language (UML) models for behavioral measures; (2) create common data elements (CDE) for UML components; (3) bind CDE with concepts from the NCI thesaurus; and (4) register CDE in the caDSR. Results UML models have been developed for four GEM measures, which have been registered in the caDSR as CDE. New behavioral concepts related to these measures have been created and incorporated into the NCI thesaurus. Best practices for representing measures using UML models have been utilized in the practice (eg, caDSR). One dataset based on a GEM-curated measure is available for use by other systems and users connected to the grid. Conclusions Behavioral and population science data can be standardized by using and extending current standards. A new branch of CDE for behavioral science was developed for the caDSR. It expands the caDSR domain coverage beyond the clinical and biological areas. In addition, missing terms and concepts specific to the behavioral measures addressed in this paper were added to the NCI thesaurus. A methodology was developed and refined for curation of behavioral and population science data. PMID:24076749

Gas electron multiplier (GEM) foil test, repair and effective gain calculation

NASA Astrophysics Data System (ADS)

Tahir, Muhammad; Zubair, Muhammad; Khan, Tufail A.; Khan, Ashfaq; Malook, Asad

2018-06-01

The focus of my research is based on the gas electron multiplier (GEM) foil test, repairing and effective gain calculation of GEM detector. During my research work define procedure of GEM foil testing short-circuit, detection short-circuits in the foil. Study different ways to remove the short circuits in the foils. Set and define the GEM foil testing procedures in the open air, and with nitrogen gas. Measure the leakage current of the foil and applying different voltages with specified step size. Define the Quality Control (QC) tests and different components of GEM detectors before assembly. Calculate the effective gain of GEM detectors using 109Cd and 55Fe radioactive source.

[Construction of Lactobacillus rhamnosus GG particles surface display system].

PubMed

Su, Runyu; Nie, Boyao; Yuan, Shengling; Tao, Haoxia; Liu, Chunjie; Yang, Bailiang; Wang, Yanchun

2017-01-25

To describe a novel particles surface display system which is consisted of gram-positive enhancer matrix (GEM) particles and anchor proteins for bacteria-like particles vaccines, we treated Lactobacillus rhamnosus GG bacteria with 10% heated-TCA for preparing GEM particles, and then identified the harvested GEM particles by electron microscopy, RT-PCR and SDS-PAGE. Meanwhile, Escherichia coli was induced to express hybrid proteins PA3-EGFP and P60-EGFP, and GEM particles were incubated with them. Then binding of anchor proteins were determined by Western blotting, transmission electron microscopy, fluorescence microscopy and spectrofluorometry. GEM particles preserved original size and shape, and proteins and DNA contents of GEM particles were released substantially. The two anchor proteins both had efficiently immobilized on the surface of GEM. GEM particles that were bounded by anchor proteins were brushy. The fluorescence of GEM particles anchoring PA3 was slightly brighter than P60, but the difference was not significant (P>0.05). GEM particles prepared from L. rhamnosus GG have a good binding efficiency with anchor proteins PA3-EGFP and P60-EGFP. Therefore, this novel foreign protein surface display system could be used for bacteria-like particle vaccines.

Derivation of the Schwartzchild Metric From the ``Self Censorship'' of the ZPF (Zero Point Energy) in the GEM Theory

NASA Astrophysics Data System (ADS)

Brandenburg, John

2012-10-01

The GEM theory (1) links the EM stress tensor directly to the metric tensor by the principle of ``self censorship'' of the ZPF (2) where the definition of guv = FuwF^wv/ 4 for Planck scale fields makes the stress tensor vanish even when fields are present. The first order form of the metric is recovered as Lorentzian due to alternating regions of strong electric and magnetic fields similar to that seen in models of spacetime in ``Loop Gravity,'' where the model admits perturbations. The GEM ExB drift models of gravity is used The first order perturbations on the fields are considered to be of the order of the fine structure constant alpha. Radiation fields due to a single charged particle of mass M fall off as 1/r and give the values (G=c=1) gtt = 1-2M/r and grr = (1-2M/r). (1) Brandenburg, J.E. (2012)., (2) STAIF II Conference Albuquerque NM 2.Brandenburg, J.E. (2007). IEEE Transactions On Plasma Science, Vol. 35, No. 4., p845.

Isolated Lung Perfusion as an Adjuvant Treatment of Colorectal Cancer Lung Metastases: A Preclinical Study in a Pig Model

PubMed Central

Pagès, Pierre-Benoit; Facy, Olivier; Mordant, Pierre; Ladoire, Sylvain; Magnin, Guy; Lokiec, Francois; Ghiringhelli, Francois; Bernard, Alain

2013-01-01

Background The lung is a frequent site of colorectal cancer (CRC) metastases. After surgical resection, lung metastases recurrences have been related to the presence of micrometastases, potentially accessible to a high dose chemotherapy administered via adjuvant isolated lung perfusion (ILP). We sought to determine in vitro the most efficient drug when administered to CRC cell lines during a short exposure and in vivo its immediate and delayed tolerance when administered via ILP. Methods First, efficacy of various cytotoxic molecules against a panel of human CRC cell lines was tested in vitro using cytotoxic assay after a 30-minute exposure. Then, early (operative) and delayed (1 month) tolerance of two concentrations of the molecule administered via ILP was tested on 19 adult pigs using hemodynamic, biological and histological criteria. Results In vitro, gemcitabine (GEM) was the most efficient drug against selected CRC cell lines. In vivo, GEM was administered via ILP at regular (20 µg/ml) or high (100 µg/ml) concentrations. GEM administration was associated with transient and dose-dependant pulmonary vasoconstriction, leading to a voluntary decrease in pump inflow in order to maintain a stable pulmonary artery pressure. After this modulation, ILP using GEM was not associated with any systemic leak, systemic damage, and acute or delayed histological pulmonary toxicity. Pharmacokinetics studies revealed dose-dependant uptake associated with heterogenous distribution of the molecule into the lung parenchyma, and persistent cytotoxicity of venous effluent. Conclusions GEM is effective against CRC cells even after a short exposure. ILP with GEM is a safe and reproducible technique. PMID:23527205

Impacts of Wildfires on Mercury Contamination in Canada

NASA Astrophysics Data System (ADS)

Dastoor, A.; Fraser, A.; Ryjkov, A.

2017-12-01

Wildfires frequency has increased in past four decades in Canada, and is expected to increase in future as a result of climate change. Biomass Burning Mercury Emissions (BBMEs) are known to be significant; however, the impact of biomass burning on Mercury (Hg) burden in Canada has not been previously quantified. We investigated the spatio-temporal variability of BBME in Canada, and used Environment and Climate Change Canada's air quality and mercury model, GEM-MACH-Hg, to quantify the impacts of BBME on spatio-temporal variability of air concentrations and deposition fluxes of Hg in Canada. We optimized the biomass burning Emission Factors (EFs) for gaseous elemental mercury (GEM) using observations, GEM-MACH-Hg and an inversion technique for five vegetation types represented in North American fires to constrain the BBME impacts of Hg. We used three BBME scenarios (i.e., two scenarios where mercury is emitted only as GEM using literature or optimized EFs, and a third scenario where mercury is emitted as GEM using literature EFs and particle bound mercury (PBM) emitted using a GEM/PBM ratio from lab measurements) in Canada to conduct three sets of model simulations for 2010-2015. The three BBME scenarios represent the range of possible values for the impacts of BBME in Canada on mercury concentration and deposition. We found total BBME and its spatial distribution to be highly variable from year to year, and total atmospheric BBME averaged for 2010-2015 in Canada to be between 6 - 14 tonnes, which is 3 - 7 times the mercury emission from anthropogenic sources in Canada during the biomass burning season (i.e., from May to September). We found that while BBME have a small impact on surface air concentrations of GEM and total Hg deposition averaged over individual provinces/territories, these impacts for individual ecosystems can be as high as 95% during the burning season. We found that northern Alberta and Saskatchewan, central British Columbia, and the area around Great Slave Lake in the Northwest Territories are at greater risk of mercury contamination from biomass burning. We analysed the uncertainties in BBME, and found that reducing uncertainty in the speciation of Hg in BBME would provide the largest benefit to constraining the mercury contamination from biomass burning source to Canadian ecosystems.

GEM: a dynamic tracking model for mesoscale eddies in the ocean

NASA Astrophysics Data System (ADS)

Li, Qiu-Yang; Sun, Liang; Lin, Sheng-Fu

2016-12-01

The Genealogical Evolution Model (GEM) presented here is an efficient logical model used to track dynamic evolution of mesoscale eddies in the ocean. It can distinguish between different dynamic processes (e.g., merging and splitting) within a dynamic evolution pattern, which is difficult to accomplish using other tracking methods. To this end, the GEM first uses a two-dimensional (2-D) similarity vector (i.e., a pair of ratios of overlap area between two eddies to the area of each eddy) rather than a scalar to measure the similarity between eddies, which effectively solves the "missing eddy" problem (temporarily lost eddy in tracking). Second, for tracking when an eddy splits, the GEM uses both "parent" (the original eddy) and "child" (eddy split from parent) and the dynamic processes are described as the birth and death of different generations. Additionally, a new look-ahead approach with selection rules effectively simplifies computation and recording. All of the computational steps are linear and do not include iteration. Given the pixel number of the target region L, the maximum number of eddies M, the number N of look-ahead time steps, and the total number of time steps T, the total computer time is O(LM(N + 1)T). The tracking of each eddy is very smooth because we require that the snapshots of each eddy on adjacent days overlap one another. Although eddy splitting or merging is ubiquitous in the ocean, they have different geographic distributions in the North Pacific Ocean. Both the merging and splitting rates of the eddies are high, especially at the western boundary, in currents and in "eddy deserts". The GEM is useful not only for satellite-based observational data, but also for numerical simulation outputs. It is potentially useful for studying dynamic processes in other related fields, e.g., the dynamics of cyclones in meteorology.

Estimation of speciated and total mercury dry deposition at monitoring locations in eastern and central North America

USGS Publications Warehouse

Zhang, L.; Blanchard, P.; Gay, D.A.; Prestbo, E.M.; Risch, M.R.; Johnson, D.; Narayan, J.; Zsolway, R.; Holsen, T.M.; Miller, E.K.; Castro, M.S.; Graydon, J.A.; St. Louis, V.L.; Dalziel, J.

2012-01-01

Dry deposition of speciated mercury, i.e., gaseous oxidized mercury (GOM), particulate-bound mercury (PBM), and gaseous elemental mercury (GEM), was estimated for the year 2008–2009 at 19 monitoring locations in eastern and central North America. Dry deposition estimates were obtained by combining monitored two- to four-hourly speciated ambient concentrations with modeled hourly dry deposition velocities (Vd) calculated using forecasted meteorology. Annual dry deposition of GOM+PBM was estimated to be in the range of 0.4 to 8.1 μg m−2 at these locations with GOM deposition being mostly five to ten times higher than PBM deposition, due to their different modeled Vd values. Net annual GEM dry deposition was estimated to be in the range of 5 to 26 μg m−2 at 18 sites and 33 μg m−2 at one site. The estimated dry deposition agrees very well with limited surrogate-surface dry deposition measurements of GOM and PBM, and also agrees with litterfall mercury measurements conducted at multiple locations in eastern and central North America. This study suggests that GEM contributes much more than GOM+PBM to the total dry deposition at the majority of the sites considered here; the only exception is at locations close to significant point sources where GEM and GOM+PBM contribute equally to the total dry deposition. The relative magnitude of the speciated dry deposition and their good comparisons with litterfall deposition suggest that mercury in litterfall originates primarily from GEM, which is consistent with the limited number of previous field studies. The study also supports previous analyses suggesting that total dry deposition of mercury is equal to, if not more important than, wet deposition of mercury on a regional scale in eastern North America.

GEMS (Gravity Electro-Magnetism Strong) SU(5) Theory and The Prediction of Exchange Boson Masses

NASA Astrophysics Data System (ADS)

Brandenburg, John

2012-10-01

The GEMS SU(5) [1] theory includes short range Nuclear Forces in the GEM unification theory [2], where the importance of the square root of the proton-electron mass ratio: σ = 42.8503 was found. The creation of mass by a Higgs field coupling must, by the Equivalence Principle, be viewed in the context of General Relativity. This is done here using Kaluza-Klein theory in a Feynman-Hawkings path integral formalism. GEM theory, quantum concepts of virtual particles, and ZPF (Zero Point Fluctuation) allow understanding of the Strong Force and Weak forces as the extension of electrodynamics in the quantum limit. The Strong and Weak forces are found to be associated with EM models of the electron and proton as finite sized structures respectively. Higher order Mie resonances off the EM ``mass at a distance'' structures associated with the electron, proton and fifth dimension generate the quanta with masses of the pion mπ = 2 me /α 140.0 MeV and Z boson: mZ = 2σ mp = 80.4 GeV. The ηc meson mη = 2980 GeV is identified with the 5^th dimension compactification force mediated by the Radion field. Another particle associated with this mass inducing field is the ``Radion'' or Higgs scattering quanta off the fifth dimension with a mass σmη 128.6 GeV which is the Higgs Boson. A GEMS SU(5) Georgi-Glashow model, is proposed, where the unification energy is now the Planck energy.[0pt] [1] Brandenburg, J.E. (2012)., STAIF II Conference Albuquerque NM[0pt] [2] Brandenburg, J.E. (2007). IEEE Transactions On Plasma Science, Vol. 35, No. 4., p845.

Optimum data weighting and error calibration for estimation of gravitational parameters

NASA Technical Reports Server (NTRS)

Lerch, Francis J.

1989-01-01

A new technique was developed for the weighting of data from satellite tracking systems in order to obtain an optimum least-squares solution and an error calibration for the solution parameters. Data sets from optical, electronic, and laser systems on 17 satellites in GEM-T1 Goddard Earth Model-T1 (GEM-T1) were employed toward application of this technique for gravity field parameters. Also GEM-T2 (31 satellites) was recently computed as a direct application of the method and is summarized. The method employs subset solutions of the data associated with the complete solution to agree with their error estimates. With the adjusted weights the process provides for an automatic calibration of the error estimates for the solution parameters. The data weights derived are generally much smaller than corresponding weights obtained from nominal values of observation accuracy or residuals. Independent tests show significant improvement for solutions with optimal weighting. The technique is general and may be applied to orbit parameters, station coordinates, or other parameters than the gravity model.

The delineation and interpretation of the Earth's gravity field

NASA Technical Reports Server (NTRS)

Marsh, B. D.

1983-01-01

The observed changes in velocity with time are reduced relative to the well-determined low degree and order GEM field model and accelerations are found by analytical differentiation of the range rates. This new map is essentially identical to the first map and we have produced a composite map by combining all 90 passes of SST data. The resolution of the map is at worst about 5 deg and much better in most places. A comparison of this map with conventional GEM models shows very good agreement. A reduction of the SEASAT altimeter data has also been carried out for an additional comparison. Although the SEASAT geoid contains much more high frequency information, it agrees very well with both the SST and GEM fields. The maps are dominated (especially in the east) by a pattern of roughly east-west anomalies with a transverse wavelength of about 2000 km. A further comparison with regional bathymetric data shows a remarkably close correlation with plate age.

Formation kinetics of gemfibrozil chlorination reaction products: analysis and application.

PubMed

Krkosek, Wendy H; Peldszus, Sigrid; Huck, Peter M; Gagnon, Graham A

2014-07-01

Aqueous chlorination kinetics of the lipid regulator gemfibrozil and the formation of reaction products were investigated in deionized water over the pH range 3 to 9, and in two wastewater matrices. Chlorine oxidation of gemfibrozil was found to be highly dependent on pH. No statistically significant degradation of gemfibrozil was observed at pH values greater than 7. Gemfibrozil oxidation between pH 4 and 7 was best represented by first order kinetics. At pH 3, formation of three reaction products was observed. 4'-C1Gem was the only reaction product formed from pH 4-7 and was modeled with zero order kinetics. Chlorine oxidation of gemfibrozil in two wastewater matrices followed second order kinetics. 4'-C1Gem was only formed in wastewater with pH below 7. Deionized water rate kinetic models were applied to two wastewater effluents with gemfibrozil concentrations reported in literature in order to calculate potential mass loading rates of 4'C1Gem to the receiving water.

GEMS and New Pre-Accretionally Irradiated RELICT Grains in Interplanetary Dust - The Plot Thickens

NASA Astrophysics Data System (ADS)

Bradley, J.

1995-09-01

The hypothesis that GEMS (glass with embedded metal and sulfides) in interplanetary dust particles (IDPs) might be the long-sought interstellar silicate grains is undergoing close scrutiny [1-3]. GEMS are proposed to be interstellar because: (a) they are abundant in cometary IDPs; (b) they were irradiated prior to incorporation into IDPs; (c) both their size distribution and Oamorphous silicate" microstructures are consistent with those of interstellar silicates; (d) they contain nanometer-sized (superparamagnetic) alpha-iron inclusions, which provides a simple explanation for the observed interstellar grain alignment and polarization [4,5]. Challenges to the GEMS hypothesis include the following: (a) GEMS may have formed and been irradiated in the solar nebula rather than a presolar interstellar environment; (b) non-solar isotope abundances have yet to be measured in GEMS; (c) the irradiation regime required to produce the observed effects in GEMS might be incompatible with the interstellar medium; (b) relationships between GEMS and carbon (e.g. core/mantle) need clarification; (c) major element abundances in GEMS should be consistent with observed interstellar gas phase depletions [2,3]. GEMS may indeed have formed in the solar nebula, in which case they would be the oldest known solar nebula solids [2]. An interstellar origin for GEMS does not require detection of non-solar isotope abundances [6]. Irradiation experiments are in progress to simulate the properties of GEMS. The petrographic relationship between GEMS and carbon in IDPs is being investigated (by examining IDPs embedded and thin-sectioned in carbon-free media). Major element abundances in GEMS are being evaluated in terms on interstellar gas phase abundances. For example, sulfur is not highly depleted in the interstellar gas, implying that it must be significantly depleted in interstellar grains [3]. GEMS are significantly depleted in sulfur relative to solar abundances. Analytical electron microscopic studies of the local petrographic environment of GEMS in IDPs are continuing. There is evidence of a population of relict grains associated with GEMS. Some of these relict grains have distinctive compositions and they appear to have functioned as (pre-existing) depositional substrates while GEMS were being formed. Thus, it may be possible to begin to assign a chronology to the seemingly complex admixture of grains that make up the ultrafine-grained matrices of anhydrous chondritic IDPs. References: [1] Bradley J. P. (1994) Science, 265, 925-929. [2] Flynn G. J. (1994) Nature, 371, 287-288. [3] Martin P. G. (1995) Astrophys. J., 445, L63-L66. [4] Mathis J. S. (1986) Astrophys. J., 308, 281-287. [5] Mathis J. S. (1993) Rept. Prog. Phys., 56, 605-652. [6] Walker R. M. (1994) in Analysis of Interplanetary Dust (M. E. Zolensky et al., eds.), pp. 203-209, AIP Conf. Proc. 310.

Expected trace gas and aerosol retrieval accuracy of the Geostationary Environment Monitoring Spectrometer

NASA Astrophysics Data System (ADS)

Jeong, U.; Kim, J.; Liu, X.; Lee, K. H.; Chance, K.; Song, C. H.

2015-12-01

The predicted accuracy of the trace gases and aerosol retrievals from the geostationary environment monitoring spectrometer (GEMS) was investigated. The GEMS is one of the first sensors to monitor NO2, SO2, HCHO, O3, and aerosols onboard geostationary earth orbit (GEO) over Asia. Since the GEMS is not launched yet, the simulated measurements and its precision were used in this study. The random and systematic component of the measurement error was estimated based on the instrument design. The atmospheric profiles were obtained from Model for Ozone And Related chemical Tracers (MOZART) simulations and surface reflectances were obtained from climatology of OMI Lambertian equivalent reflectance. The uncertainties of the GEMS trace gas and aerosol products were estimated based on the OE method using the atmospheric profile and surface reflectance. Most of the estimated uncertainties of NO2, HCHO, stratospheric and total O3 products satisfied the user's requirements with sufficient margin. However, about 26% of the estimated uncertainties of SO2 and about 30% of the estimated uncertainties of tropospheric O3 do not meet the required precision. Particularly the estimated uncertainty of SO2 is high in winter, when the emission is strong in East Asia. Further efforts are necessary in order to improve the retrieval accuracy of SO2 and tropospheric O3 in order to reach the scientific goal of GEMS. Random measurement error of GEMS was important for the NO2, SO2, and HCHO retrieval, while both the random and systematic measurement errors were important for the O3 retrievals. The degree of freedom for signal of tropospheric O3 was 0.8 ± 0.2 and that for stratospheric O3 was 2.9 ± 0.5. The estimated uncertainties of the aerosol retrieval from GEMS measurements were predicted to be lower than the required precision for the SZA range of the trace gas retrievals.

Gemfibrozil and carbamazepine decrease steroid production in zebrafish testes (Danio rerio).

PubMed

Fraz, Shamaila; Lee, Abigail H; Wilson, Joanna Y

2018-05-01

Gemfibrozil (GEM) and carbamazepine (CBZ) are two environmentally relevant pharmaceuticals and chronic exposure of fish to these compounds has decreased androgen levels and fish reproduction in laboratory studies. The main focus of this study was to examine the effects of GEM and CBZ on testicular steroid production, using zebrafish as a model species. Chronic water borne exposures of adult zebrafish to 10 μg/L of GEM and CBZ were conducted and the dosing was confirmed by chemical analysis of water as 17.5 ± 1.78 and 11.2 ± 1.08 μg/L respectively. A 67 day exposure led to reduced reproductive output and lowered whole body, plasma, and testicular 11-ketotestosterone (11-KT). Testicular production of 11-KT was examined post exposure (42 days) using ex vivo cultures to determine basal and stimulated steroid production. The goal was to ascertain the step impaired in the steroidogenic pathway by each compound. Ex vivo 11-KT production in testes from males chronically exposed to GEM and CBZ was lower than that from unexposed males. Although hCG, 25-OH cholesterol, and pregnenolone stimulation increased 11-KT production in all treatment groups over basal levels, hCG stimulated 11-KT production remained significantly less in testes from exposed males compared to controls. 25-OH cholesterol and pregnenolone stimulated 11-KT production was similar between GEM and control groups but the CBZ group had lower 11-KT production than controls with both stimulants. We therefore propose that chronic GEM and CBZ exposure can reduce production of 11-KT in testes through direct effects independent of mediation through HPG axis. The biochemical processes for steroid production appear un-impacted by GEM exposure; while CBZ exposure may influence steroidogenic enzyme expression or function. Copyright © 2018 Elsevier B.V. All rights reserved.

State-Space Analysis of Granger-Geweke Causality Measures with Application to fMRI.

PubMed

Solo, Victor

2016-05-01

The recent interest in the dynamics of networks and the advent, across a range of applications, of measuring modalities that operate on different temporal scales have put the spotlight on some significant gaps in the theory of multivariate time series. Fundamental to the description of network dynamics is the direction of interaction between nodes, accompanied by a measure of the strength of such interactions. Granger causality and its associated frequency domain strength measures (GEMs) (due to Geweke) provide a framework for the formulation and analysis of these issues. In pursuing this setup, three significant unresolved issues emerge. First, computing GEMs involves computing submodels of vector time series models, for which reliable methods do not exist. Second, the impact of filtering on GEMs has never been definitively established. Third, the impact of downsampling on GEMs has never been established. In this work, using state-space methods, we resolve all these issues and illustrate the results with some simulations. Our analysis is motivated by some problems in (fMRI) brain imaging, to which we apply it, but it is of general applicability.

State-Space Analysis of Granger-Geweke Causality Measures with Application to fMRI

PubMed Central

Solo, Victor

2017-01-01

The recent interest in the dynamics of networks and the advent, across a range of applications, of measuring modalities that operate on different temporal scales have put the spotlight on some significant gaps in the theory of multivariate time series. Fundamental to the description of network dynamics is the direction of interaction between nodes, accompanied by a measure of the strength of such interactions. Granger causality and its associated frequency domain strength measures (GEMs) (due to Geweke) provide a framework for the formulation and analysis of these issues. In pursuing this setup, three significant unresolved issues emerge. First, computing GEMs involves computing submodels of vector time series models, for which reliable methods do not exist. Second, the impact of filtering on GEMs has never been definitively established. Third, the impact of downsampling on GEMs has never been established. In this work, using state-space methods, we resolve all these issues and illustrate the results with some simulations. Our analysis is motivated by some problems in (fMRI) brain imaging, to which we apply it, but it is of general applicability. PMID:26942749

OpenGeoSys-GEMS: Hybrid parallelization of a reactive transport code with MPI and threads

NASA Astrophysics Data System (ADS)

Kosakowski, G.; Kulik, D. A.; Shao, H.

2012-04-01

OpenGeoSys-GEMS is a generic purpose reactive transport code based on the operator splitting approach. The code couples the Finite-Element groundwater flow and multi-species transport modules of the OpenGeoSys (OGS) project (http://www.ufz.de/index.php?en=18345) with the GEM-Selektor research package to model thermodynamic equilibrium of aquatic (geo)chemical systems utilizing the Gibbs Energy Minimization approach (http://gems.web.psi.ch/). The combination of OGS and the GEM-Selektor kernel (GEMS3K) is highly flexible due to the object-oriented modular code structures and the well defined (memory based) data exchange modules. Like other reactive transport codes, the practical applicability of OGS-GEMS is often hampered by the long calculation time and large memory requirements. • For realistic geochemical systems which might include dozens of mineral phases and several (non-ideal) solid solutions the time needed to solve the chemical system with GEMS3K may increase exceptionally. • The codes are coupled in a sequential non-iterative loop. In order to keep the accuracy, the time step size is restricted. In combination with a fine spatial discretization the time step size may become very small which increases calculation times drastically even for small 1D problems. • The current version of OGS is not optimized for memory use and the MPI version of OGS does not distribute data between nodes. Even for moderately small 2D problems the number of MPI processes that fit into memory of up-to-date workstations or HPC hardware is limited. One strategy to overcome the above mentioned restrictions of OGS-GEMS is to parallelize the coupled code. For OGS a parallelized version already exists. It is based on a domain decomposition method implemented with MPI and provides a parallel solver for fluid and mass transport processes. In the coupled code, after solving fluid flow and solute transport, geochemical calculations are done in form of a central loop over all finite element nodes with calls to GEMS3K and consecutive calculations of changed material parameters. In a first step the existing MPI implementation was utilized to parallelize this loop. Calculations were split between the MPI processes and afterwards data was synchronized by using MPI communication routines. Furthermore, multi-threaded calculation of the loop was implemented with help of the boost thread library (http://www.boost.org). This implementation provides a flexible environment to distribute calculations between several threads. For each MPI process at least one and up to several dozens of worker threads are spawned. These threads do not replicate the complete OGS-GEM data structure and use only a limited amount of memory. Calculation of the central geochemical loop is shared between all threads. Synchronization between the threads is done by barrier commands. The overall number of local threads times MPI processes should match the number of available computing nodes. The combination of multi-threading and MPI provides an effective and flexible environment to speed up OGS-GEMS calculations while limiting the required memory use. Test calculations on different hardware show that for certain types of applications tremendous speedups are possible.

Systems biology of the structural proteome.

PubMed

Brunk, Elizabeth; Mih, Nathan; Monk, Jonathan; Zhang, Zhen; O'Brien, Edward J; Bliven, Spencer E; Chen, Ke; Chang, Roger L; Bourne, Philip E; Palsson, Bernhard O

2016-03-11

The success of genome-scale models (GEMs) can be attributed to the high-quality, bottom-up reconstructions of metabolic, protein synthesis, and transcriptional regulatory networks on an organism-specific basis. Such reconstructions are biochemically, genetically, and genomically structured knowledge bases that can be converted into a mathematical format to enable a myriad of computational biological studies. In recent years, genome-scale reconstructions have been extended to include protein structural information, which has opened up new vistas in systems biology research and empowered applications in structural systems biology and systems pharmacology. Here, we present the generation, application, and dissemination of genome-scale models with protein structures (GEM-PRO) for Escherichia coli and Thermotoga maritima. We show the utility of integrating molecular scale analyses with systems biology approaches by discussing several comparative analyses on the temperature dependence of growth, the distribution of protein fold families, substrate specificity, and characteristic features of whole cell proteomes. Finally, to aid in the grand challenge of big data to knowledge, we provide several explicit tutorials of how protein-related information can be linked to genome-scale models in a public GitHub repository ( https://github.com/SBRG/GEMPro/tree/master/GEMPro_recon/). Translating genome-scale, protein-related information to structured data in the format of a GEM provides a direct mapping of gene to gene-product to protein structure to biochemical reaction to network states to phenotypic function. Integration of molecular-level details of individual proteins, such as their physical, chemical, and structural properties, further expands the description of biochemical network-level properties, and can ultimately influence how to model and predict whole cell phenotypes as well as perform comparative systems biology approaches to study differences between organisms. GEM-PRO offers insight into the physical embodiment of an organism's genotype, and its use in this comparative framework enables exploration of adaptive strategies for these organisms, opening the door to many new lines of research. With these provided tools, tutorials, and background, the reader will be in a position to run GEM-PRO for their own purposes.

Coupling the Canadian Terrestrial Ecosystem Model (CTEM v. 2.0) to Environment and Climate Change Canada's greenhouse gas forecast model (v.107-glb)

NASA Astrophysics Data System (ADS)

Badawy, Bakr; Polavarapu, Saroja; Jones, Dylan B. A.; Deng, Feng; Neish, Michael; Melton, Joe R.; Nassar, Ray; Arora, Vivek K.

2018-02-01

The Canadian Land Surface Scheme and the Canadian Terrestrial Ecosystem Model (CLASS-CTEM) together form the land surface component in the family of Canadian Earth system models (CanESMs). Here, CLASS-CTEM is coupled to Environment and Climate Change Canada (ECCC)'s weather and greenhouse gas forecast model (GEM-MACH-GHG) to consistently model atmosphere-land exchange of CO2. The coupling between the land and the atmospheric transport model ensures consistency between meteorological forcing of CO2 fluxes and CO2 transport. The procedure used to spin up carbon pools for CLASS-CTEM for multi-decadal simulations needed to be significantly altered to deal with the limited availability of consistent meteorological information from a constantly changing operational environment in the GEM-MACH-GHG model. Despite the limitations in the spin-up procedure, the simulated fluxes obtained by driving the CLASS-CTEM model with meteorological forcing from GEM-MACH-GHG were comparable to those obtained from CLASS-CTEM when it is driven with standard meteorological forcing from the Climate Research Unit (CRU) combined with reanalysis fields from the National Centers for Environmental Prediction (NCEP) to form CRU-NCEP dataset. This is due to the similarity of the two meteorological datasets in terms of temperature and radiation. However, notable discrepancies in the seasonal variation and spatial patterns of precipitation estimates, especially in the tropics, were reflected in the estimated carbon fluxes, as they significantly affected the magnitude of the vegetation productivity and, to a lesser extent, the seasonal variations in carbon fluxes. Nevertheless, the simulated fluxes based on the meteorological forcing from the GEM-MACH-GHG model are consistent to some extent with other estimates from bottom-up or top-down approaches. Indeed, when simulated fluxes obtained by driving the CLASS-CTEM model with meteorological data from the GEM-MACH-GHG model are used as prior estimates for an atmospheric CO2 inversion analysis using the adjoint of the GEOS-Chem model, the retrieved CO2 flux estimates are comparable to those obtained from other systems in terms of the global budget and the total flux estimates for the northern extratropical regions, which have good observational coverage. In data-poor regions, as expected, differences in the retrieved fluxes due to the prior fluxes become apparent. Coupling CLASS-CTEM into the Environment Canada Carbon Assimilation System (EC-CAS) is considered an important step toward understanding how meteorological uncertainties affect both CO2 flux estimates and modeled atmospheric transport. Ultimately, such an approach will provide more direct feedback to the CLASS-CTEM developers and thus help to improve the performance of CLASS-CTEM by identifying the model limitations based on atmospheric constraints.

GEM2Net: from gene expression modeling to -omics networks, a new CATdb module to investigate Arabidopsis thaliana genes involved in stress response.

PubMed

Zaag, Rim; Tamby, Jean Philippe; Guichard, Cécile; Tariq, Zakia; Rigaill, Guillem; Delannoy, Etienne; Renou, Jean-Pierre; Balzergue, Sandrine; Mary-Huard, Tristan; Aubourg, Sébastien; Martin-Magniette, Marie-Laure; Brunaud, Véronique

2015-01-01

CATdb (http://urgv.evry.inra.fr/CATdb) is a database providing a public access to a large collection of transcriptomic data, mainly for Arabidopsis but also for other plants. This resource has the rare advantage to contain several thousands of microarray experiments obtained with the same technical protocol and analyzed by the same statistical pipelines. In this paper, we present GEM2Net, a new module of CATdb that takes advantage of this homogeneous dataset to mine co-expression units and decipher Arabidopsis gene functions. GEM2Net explores 387 stress conditions organized into 18 biotic and abiotic stress categories. For each one, a model-based clustering is applied on expression differences to identify clusters of co-expressed genes. To characterize functions associated with these clusters, various resources are analyzed and integrated: Gene Ontology, subcellular localization of proteins, Hormone Families, Transcription Factor Families and a refined stress-related gene list associated to publications. Exploiting protein-protein interactions and transcription factors-targets interactions enables to display gene networks. GEM2Net presents the analysis of the 18 stress categories, in which 17,264 genes are involved and organized within 681 co-expression clusters. The meta-data analyses were stored and organized to compose a dynamic Web resource. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

New error calibration tests for gravity models using subset solutions and independent data - Applied to GEM-T3

NASA Technical Reports Server (NTRS)

Lerch, F. J.; Nerem, R. S.; Chinn, D. S.; Chan, J. C.; Patel, G. B.; Klosko, S. M.

1993-01-01

A new method has been developed to provide a direct test of the error calibrations of gravity models based on actual satellite observations. The basic approach projects the error estimates of the gravity model parameters onto satellite observations, and the results of these projections are then compared with data residual computed from the orbital fits. To allow specific testing of the gravity error calibrations, subset solutions are computed based on the data set and data weighting of the gravity model. The approach is demonstrated using GEM-T3 to show that the gravity error estimates are well calibrated and that reliable predictions of orbit accuracies can be achieved for independent orbits.

GEM Building Taxonomy (Version 2.0)

USGS Publications Warehouse

Brzev, S.; Scawthorn, C.; Charleson, A.W.; Allen, L.; Greene, M.; Jaiswal, Kishor; Silva, V.

2013-01-01

/7/8/IRRE9/10/RSH3+RWO211/FW12/13/ which can be read as (1) Direction = [DX or DY] (the building has the same lateral load-resisting system in both directions); (2) Material = [Unreinforced Masonry + solid fired clay bricks + cement: lime mortar]; (3) Lateral Load-Resisting System = [Wall]; (4) Date of construction = [pre-1939]; (5) Heaight = [exactly 2 storeys]; (6) Occupancy = [residential, unknown type]; (7) Building Position = [unknown = no entry]; (8) Shape of building plan = [unknown = no entry]; (9) Structural irregularity = [regular]; (10) Exterior walls = [unknown = no entry]; (11) Roof = [Shape: pitched and hipped, Roof covering: clay tiles, Roof system material: wood, Roof system type: wood trusses]; (12) Floor = [Floor system: Wood, unknown]; (13) Foundation = [unknown = no entry]. Mapping of GEM Building Taxonomy to selected taxonomies is included in the report -- for example, the above building would be referenced by previous structural taxonomies as: PAGER-STR as UFB or UFB4, by the World Housing Encyclopedia as 7 or 8 and by the European Macroseismic Scale (98) as M5. The Building Taxonomy data model is highly flexible and has been incorporated within a relational database architecture. Due to its ability to represent building typologies using a shorthand form, it is also possible to use the taxonomy for non-database applications, and we discuss possible application of adaptation for Building Information Modelling (BIM) systems, and for the insurance industry. The GEM Building Taxonomy was independently evaluated and tested by the Earthquake Engineering Research Institute (EERI), which received 217 TaxT reports from 49 countries, representing a wide range of building typologies, including single and multi-storey buildings, reinforced and unreinforced masonry, confined masonry, concrete, steel, wood, and earthern buildings used for residential, commercial, industrial, and educational occupancy. Based on these submissions and other feedback, the EERI team validated that the GEM Building Taxonomy is highly functional, robust and able to describe different buildings around the world. The GEM Building Taxonomy is accompanied by supplementary resources. All terms have been explained in a companion online Glossary, which provides both text and graphic descriptions. The Taxonomy is accompanied by TaxT, a computer application that enables a user record information about a building or a building typology using the attributes of the GEM Building Taxonomy v2.0. TaxT can generate a taxonomy string and enable a user to generate a report in PDF format which summarizes the attribute values (s)he has chosen as representative of the building typology under consideration. The report concludes with recommendations for future development of the GEM Building Taxonomy. Appendices provide the detailed GEM Building Taxonomy tables and additional resource, as well as mappings to other taxonomies.

Evaluation of CMAQ Coupled With a State-of-the-Art Mercury Chemical Mechanism (CMAQ-newHg-Br)

NASA Astrophysics Data System (ADS)

Ye, Zhuyun; Mao, Huiting; Driscoll, Charles T.; Wang, Yan; Zhang, Yanxu; Jaeglé, Lyatt

2018-03-01

Most regional three-dimensional chemical transport models neglect gaseous elemental mercury (GEM) oxidation by bromine (Br) radicals and Br chemistry. In this study, the Community Multiscale Air Quality model with its default mercury module (CMAQ-Hg) was modified by implementing a state-of-the-art algorithm depicting Hg reactions coupled with Br chemistry (CMAQ-newHg-Br). Using CMAQ-newHg-Br with initial and boundary concentrations (ICs and BCs) from global model output, we conducted simulations for the northeastern United States over March-November 2010. Simulated GEM mixing ratios were predominantly influenced by BCs and hence reflected significant seasonal variation that was captured in the global model output as opposed to a lack of seasonal variation using CMAQ-Hg's default constant BCs. Observed seasonal percentage changes (i.e., seasonal amplitude [=maximum - minimum] in percentage of the seasonal average) of gaseous oxidized mercury (GOM) and particulate bound mercury (PBM) were 76% and 39%, respectively. CMAQ-newHg-Br significantly improved the simulated seasonal changes in GOM and PBM to 43% and 23%, respectively, from 18% and 16% using CMAQ-Hg. CMAQ-newHg-Br reproduced observed Hg wet deposition with a remarkably low fractional bias (FB; 0.4%) as opposed to a -56% to 19% FB for CMAQ-Hg simulations. Simulated Hg dry deposition using CMAQ-newHg-Br excluding the GEM + OH reaction agreed well with studies using inferential methods and litterfall/throughfall measurements, and the discrepancy varied over 13%-42%. This study demonstrated the promising capability of CMAQ-newHg-Br to reproduce observed concentrations and seasonal variations of GEM, GOM and PBM, and Hg wet and dry deposition fluxes.

SPICE Work Package 3: Modelling the Effects of Stratospheric Aerosol Geoengineering

NASA Astrophysics Data System (ADS)

Driscoll, Simon

2015-04-01

This talk presents the results of the SPICE Work Package 3. There is an obvious need for methods to verify the accuracy of geoengineering given no observations of a geoengineering programme. Accordingly, model ability in reproducing the observed dynamical response to volcanic eruptions is discussed using analysis of CMIP5 data and different configurations of the HadGEM2 model. With the HadGEM2-L60 model shown to be substantially better in reproducing the observed dynamical response to volcanic eruptions, simulations of GeoMIP's G4 scenario are performed. Simulated impacts of geoengineering are described, and asymmetries between the immediate onset and immediate cessation ('termination') of geoengineering are analysed. Whilst a rapid large increase in stratospheric sulphate aerosols (such as from volcanic eruptions) can cause substantial damage, most volcanic eruptions in general are not catastrophic. One may therefore suspect that an 'equal but opposite' change in radiative forcing from termination may therefore not be catastrophic, if the climatic response is simulated to be symmetric. HadGEM2 simulations reveal a substantially more rapid change in variables such as near-surface temperature and precipitation following termination than the onset, indicating that termination may be substantially more damaging and even catastrophic. Some suggestions for hemispherically asymmetric geoengineering have been proposed as a way to reduce Northern Hemisphere sea ice, for example, with lesser impacts on the rest of the climate. However, HadGEM2 simulations are performed and observations analysed following volcanic eruptions. Both indicate substantial averse consequences from hemispherically asymmetric loading of stratospheric loading on precipitation in the Sahelian region - a vulnerable region where drought has caused hundreds of thousands of deaths and created millions of refugees in the past.

Sharing behavioral data through a grid infrastructure using data standards.

PubMed

Min, Hua; Ohira, Riki; Collins, Michael A; Bondy, Jessica; Avis, Nancy E; Tchuvatkina, Olga; Courtney, Paul K; Moser, Richard P; Shaikh, Abdul R; Hesse, Bradford W; Cooper, Mary; Reeves, Dianne; Lanese, Bob; Helba, Cindy; Miller, Suzanne M; Ross, Eric A

2014-01-01

In an effort to standardize behavioral measures and their data representation, the present study develops a methodology for incorporating measures found in the National Cancer Institute's (NCI) grid-enabled measures (GEM) portal, a repository for behavioral and social measures, into the cancer data standards registry and repository (caDSR). The methodology consists of four parts for curating GEM measures into the caDSR: (1) develop unified modeling language (UML) models for behavioral measures; (2) create common data elements (CDE) for UML components; (3) bind CDE with concepts from the NCI thesaurus; and (4) register CDE in the caDSR. UML models have been developed for four GEM measures, which have been registered in the caDSR as CDE. New behavioral concepts related to these measures have been created and incorporated into the NCI thesaurus. Best practices for representing measures using UML models have been utilized in the practice (eg, caDSR). One dataset based on a GEM-curated measure is available for use by other systems and users connected to the grid. Behavioral and population science data can be standardized by using and extending current standards. A new branch of CDE for behavioral science was developed for the caDSR. It expands the caDSR domain coverage beyond the clinical and biological areas. In addition, missing terms and concepts specific to the behavioral measures addressed in this paper were added to the NCI thesaurus. A methodology was developed and refined for curation of behavioral and population science data. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://group.bmj.com/group/rights-licensing/permissions.

Quantitative Analysis of Complex Drug-Drug Interactions Between Repaglinide and Cyclosporin A/Gemfibrozil Using Physiologically Based Pharmacokinetic Models With In Vitro Transporter/Enzyme Inhibition Data.

PubMed

Kim, Soo-Jin; Toshimoto, Kota; Yao, Yoshiaki; Yoshikado, Takashi; Sugiyama, Yuichi

2017-09-01

Quantitative analysis of transporter- and enzyme-mediated complex drug-drug interactions (DDIs) is challenging. Repaglinide (RPG) is transported into the liver by OATP1B1 and then is metabolized by CYP2C8 and CYP3A4. The purpose of this study was to describe the complex DDIs of RPG quantitatively based on unified physiologically based pharmacokinetic (PBPK) models using in vitro K i values for OATP1B1, CYP3A4, and CYP2C8. Cyclosporin A (CsA) or gemfibrozil (GEM) increased the blood concentrations of RPG. The time profiles of RPG and the inhibitors were analyzed by PBPK models, considering the inhibition of OATP1B1 and CYP3A4 by CsA or OATP1B1 inhibition by GEM and its glucuronide and the mechanism-based inhibition of CYP2C8 by GEM glucuronide. RPG-CsA interaction was closely predicted using a reported in vitro K i,OATP1B1 value in the presence of CsA preincubation. RPG-GEM interaction was underestimated compared with observed data, but the simulation was improved with the increase of f m,CYP2C8 . These results based on in vitro K i values for transport and metabolism suggest the possibility of a bottom-up approach with in vitro inhibition data for the prediction of complex DDIs using unified PBPK models and in vitro f m value of a substrate for multiple enzymes should be considered carefully for the prediction. Copyright © 2017 American Pharmacists Association®. Published by Elsevier Inc. All rights reserved.

The current status of the Gas Electron Multiplier (GEM) research at Kasetsart University, Thailand

NASA Astrophysics Data System (ADS)

Kumpiranon, P.; Kulasri, K.; Rittirong, A.; Saenboonruang, K.

2017-06-01

During the past decade, Gas Electron Multiplier (GEM) detectors have been greatly developed and utilized in numbers of applications including advanced nuclear and particle researches, medical imaging, astrophysics, and neutron detection for national security. Our GEM research group at the Department of Applied Radiation and Isotopes, Faculty of Science, Kasetsart University, Thailand, realized in its excellent properties/potentials and started extensive researches on GEM detectors. To build a strong foundation on our research group, two 10 cm × 10 cm triple GEM detectors were characterized on their important properties including absolute gains and detection uniformity. Moreover, to widen applications of the GEM detector, our group had modified the GEM detector by introducing either solid or gaseous neutron converters to the detector so that the detector could effectively detect neutrons. These modifications included coating a thin film of 10B and natB to the GEM drift cathode for thermal neutron detection and flowing a gas mixture of He/CO2 (80:20 and 70:30) and C4H10/He/CO2 (7:70:23) for fast neutron detection. Results showed that the modified GEM-based neutron detector could detect both types of neutrons with different relative efficiencies and gains depending on thicknesses and types of neutron converters. This article discusses basic knowledge of the GEM detector, construction and testing procedures, results, and discussion.

Measuring gravel transport and dispersion in a mountain river using passive radio tracers

USGS Publications Warehouse

Bradley, D. N.; Tucker, G. E.

2012-01-01

Random walk models of fluvial sediment transport recognize that grains move intermittently, with short duration steps separated by rests that are comparatively long. These models are built upon the probability distributions of the step length and the resting time. Motivated by these models, tracer experiments have attempted to measure directly the steps and rests of sediment grains in natural streams. This paper describes results from a large tracer experiment designed to test stochastic transport models. We used passive integrated transponder (PIT) tags to label 893 coarse gravel clasts and placed them in Halfmoon Creek, a small alpine stream near Leadville, Colorado, USA. The PIT tags allow us to locate and identify tracers without picking them up or digging them out of the streambed. They also enable us to find a very high percentage of our rocks, 98% after three years and 96% after the fourth year. We use the annual tracer displacement to test two stochastic transport models, the Einstein–Hubbell–Sayre (EHS) model and the Yang–Sayre gamma-exponential model (GEM). We find that the GEM is a better fit to the observations, particularly for slower moving tracers and suggest that the strength of the GEM is that the gamma distribution of step lengths approximates a compound Poisson distribution. Published in 2012. This article is a US Government work and is in the public domain in the USA.

Assessing the contribution of different factors in RegCM4.3 regional climate model projections using the Factor Separation method over the Med-CORDEX domain

NASA Astrophysics Data System (ADS)

Zsolt Torma, Csaba; Giorgi, Filippo

2014-05-01

A set of regional climate model (RCM) simulations applying dynamical downscaling of global climate model (GCM) simulations over the Mediterranean domain specified by the international initiative Coordinated Regional Downscaling Experiment (CORDEX) were completed with the Regional Climate Model RegCM, version RegCM4.3. Two GCMs were selected from the Coupled Model Intercomparison Project Phase 5 (CMIP5) ensemble to provide the driving fields for the RegCM: HadGEM2-ES (HadGEM) and MPI-ESM-MR (MPI). The simulations consist of an ensemble including multiple physics configurations and different "Reference Concentration Pathways" (RCP4.5 and RCP8.5). In total 15 simulations were carried out with 7 model physics configurations with varying convection and land surface schemes. The horizontal grid spacing of the RCM simulations is 50 km and the simulated period in all cases is 1970-2100 (1970-2099 in case of HadGEM driven simulations). This ensemble includes a combination of experiments in which different model components are changed individually and in combination, and thus lends itself optimally to the application of the Factor Separation (FS) method. This study applies the FS method to investigate the contributions of different factors, along with their synergy, on a set of regional climate model (RCM) projections for the Mediterranean region. The FS method is applied to 6 projections for the period 1970-2100 performed with the regional model RegCM4.3 over the Med-CORDEX domain. Two different sets of factors are intercompared, namely the driving global climate model (HadGEM and MPI) boundary conditions against two model physics settings (convection scheme and irrigation). We find that both the GCM driving conditions and the model physics provide important contributions, depending on the variable analyzed (surface air temperature and precipitation), season (winter vs. summer) and time horizon into the future, while the synergy term mostly tends to counterbalance the contributions of the individual factors. We demonstrate the usefulness of the FS method to assess different sources of uncertainty in RCM-based regional climate projections.

Incorporating big data into treatment plan evaluation: Development of statistical DVH metrics and visualization dashboards.

PubMed

Mayo, Charles S; Yao, John; Eisbruch, Avraham; Balter, James M; Litzenberg, Dale W; Matuszak, Martha M; Kessler, Marc L; Weyburn, Grant; Anderson, Carlos J; Owen, Dawn; Jackson, William C; Haken, Randall Ten

2017-01-01

To develop statistical dose-volume histogram (DVH)-based metrics and a visualization method to quantify the comparison of treatment plans with historical experience and among different institutions. The descriptive statistical summary (ie, median, first and third quartiles, and 95% confidence intervals) of volume-normalized DVH curve sets of past experiences was visualized through the creation of statistical DVH plots. Detailed distribution parameters were calculated and stored in JavaScript Object Notation files to facilitate management, including transfer and potential multi-institutional comparisons. In the treatment plan evaluation, structure DVH curves were scored against computed statistical DVHs and weighted experience scores (WESs). Individual, clinically used, DVH-based metrics were integrated into a generalized evaluation metric (GEM) as a priority-weighted sum of normalized incomplete gamma functions. Historical treatment plans for 351 patients with head and neck cancer, 104 with prostate cancer who were treated with conventional fractionation, and 94 with liver cancer who were treated with stereotactic body radiation therapy were analyzed to demonstrate the usage of statistical DVH, WES, and GEM in a plan evaluation. A shareable dashboard plugin was created to display statistical DVHs and integrate GEM and WES scores into a clinical plan evaluation within the treatment planning system. Benchmarking with normal tissue complication probability scores was carried out to compare the behavior of GEM and WES scores. DVH curves from historical treatment plans were characterized and presented, with difficult-to-spare structures (ie, frequently compromised organs at risk) identified. Quantitative evaluations by GEM and/or WES compared favorably with the normal tissue complication probability Lyman-Kutcher-Burman model, transforming a set of discrete threshold-priority limits into a continuous model reflecting physician objectives and historical experience. Statistical DVH offers an easy-to-read, detailed, and comprehensive way to visualize the quantitative comparison with historical experiences and among institutions. WES and GEM metrics offer a flexible means of incorporating discrete threshold-prioritizations and historic context into a set of standardized scoring metrics. Together, they provide a practical approach for incorporating big data into clinical practice for treatment plan evaluations.

GEM Detector Performance Assessment in the BM@N Experiment

NASA Astrophysics Data System (ADS)

Kapishin, Mikhail; Karjavin, Vladimir; Kulish, Elena; Lenivenko, Vasilisa; Makankin, Alexander; Maksymchuk, Anna; Palichik, Vladimir; Vasiliev, Sergey

2018-02-01

The Gas Electron Multiplier (GEM) chambers are developed for modern purposes in the elementary particle physics. In the BM@N experiment, a GEM system is used for the reconstruction of the trajectories of the charged particles. The investigation of GEM performance (efficiency and spatial resolution) is presented.

Study of the GEM detector performance in BM@N experiment

NASA Astrophysics Data System (ADS)

Bazylev, Sergei; Kapishin, Mikhail; Kapusniak, Kacper; Karjavine, Vladimir; Khabarov, Sergei; Kolesnikov, Alexander; Kulish, Elena; Lenivenko, Vasilisa; Makankin, Alexander; Maksymchuk, Anna; Mehl, Bertrand; De Oliveira, Rui; Palchik, Vladimir; Pokatashkin, Gleb; Rodriguez, A.; Rufanov, Igor; Shutov, Alexander; Slepnev, Ilya; Slepnev, Vyacheslav; Vasiliev, Sergei; Zinchenko, Alexander

2018-04-01

BM@N is the fixed target experiment at the accelerator complex NICA-Nuclotron aimed to study nuclear matter in the relativistic heavy ion collisions. Triple-GEM detectors were identified as appropriate for the BM@N tracking system located inside the analyzing magnet. Seven GEM chambers are integrated into the BM@N experimental setup and data acquisition system. GEM construction, main characteristics and first obtained results of the GEM tracking system performance in the technical run with the deuteron beam are shortly reviewed.

Role of resolution in regional climate change projections over China

NASA Astrophysics Data System (ADS)

Shi, Ying; Wang, Guiling; Gao, Xuejie

2017-11-01

This paper investigates the sensitivity of projected future climate changes over China to the horizontal resolution of a regional climate model RegCM4.4 (RegCM), using RCP8.5 as an example. Model validation shows that RegCM performs better in reproducing the spatial distribution and magnitude of present-day temperature, precipitation and climate extremes than the driving global climate model HadGEM2-ES (HadGEM, at 1.875° × 1.25° degree resolution), but little difference is found between the simulations at 50 and 25 km resolutions. Comparison with observational data at different resolutions confirmed the added value of the RCM and finer model resolutions in better capturing the probability distribution of precipitation. However, HadGEM and RegCM at both resolutions project a similar pattern of significant future warming during both winter and summer, and a similar pattern of winter precipitation changes including dominant increase in most areas of northern China and little change or decrease in the southern part. Projected precipitation changes in summer diverge among the three models, especially over eastern China, with a general increase in HadGEM, little change in RegCM at 50 km, and a mix of increase and decrease in RegCM at 25 km resolution. Changes of temperature-related extremes (annual total number of daily maximum temperature > 25 °C, the maximum value of daily maximum temperature, the minimum value of daily minimum temperature in the three simulations especially in the two RegCM simulations are very similar to each other; so are the precipitation-related extremes (maximum consecutive dry days, maximum consecutive 5-day precipitation and extremely wet days' total amount). Overall, results from this study indicate a very low sensitivity of projected changes in this region to model resolution. While fine resolution is critical for capturing the spatial variability of the control climate, it may not be as important for capturing the climate response to homogeneous forcing (in this case greenhouse gas concentration changes).

Gemcitabine-loaded albumin nanospheres (GEM-ANPs) inhibit PANC-1 cells in vitro and in vivo

NASA Astrophysics Data System (ADS)

Li, Ji; Di, Yang; Jin, Chen; Fu, Deliang; Yang, Feng; Jiang, Yongjian; Yao, Lie; Hao, Sijie; Wang, Xiaoyi; Subedi, Sabin; Ni, Quanxing

2013-04-01

With the development of nanotechnology, special attention has been given to the nanomaterial application in tumor treatment. Here, a modified desolvation-cross-linking method was successfully applied to fabricate gemcitabine-loaded albumin nanospheres (GEM-ANPs), with 110 and 406 nm of mean diameter, respectively. The aim of this study was to assess the drug distribution, side effects, and antitumor activity of GEM-ANPs in vivo. The metabolic viability and flow cytometry analysis revealed that both GEM-ANPs, especially 406-nm GEM-ANPs, could effectively inhibit the metabolism and proliferation and promote the apoptosis of human pancreatic carcinoma (PANC-1) in vitro. Intravenous injection of 406-nm GEM-ANPs exhibited a significant increase of gemcitabine in the pancreas, liver, and spleen of Sprague-Dawley rats ( p < 0.05). Moreover, no signs of toxic side effects analyzed by blood parameter changes were observed after 3 weeks of administration although a high dose (200 mg/kg) of GEM-ANPs were used. Additionally, in PANC-1-induced tumor mice, intravenous injection of 406-nm GEM-ANPs also could effectively reduce the tumor volume by comparison with free gemcitabine. With these findings, albumin nanosphere-loading approach might be efficacious to improve the antitumor activity of gemcitabine, and the efficacy is associated with the size of GEM-ANPs.

Evaluation of the Cloud Fields in the UK Met Office HadGEM3-UKCA Model Using the CCCM Satellite Data Product to Advance Our Understanding of the Influence of Clouds on Tropospheric Composition and Chemistry

NASA Technical Reports Server (NTRS)

Varma, Sunil; Voulgarakis, Apostolos; Liu, Hongyu; Crawford, James H.; White, James

2016-01-01

To determine the role of clouds in driving inter-annual and inter-seasonal variability of trace gases in the troposphere and lower stratosphere with a particular focus on the importance of cloud modification of photolysis. To evaluate the cloud fields and their vertical distribution in the HadGEM3 model utilizing CCCM, a unique 3-D cloud data product merged from multiple A-Train satellites (CERES, CloudSat, CALIPSO, and MODIS) developed at the NASA Langley Research Center.

Reentrant and Isostructural Transitions in the Cluster-Crystal Forming GEM-4

NASA Astrophysics Data System (ADS)

Zhang, Kai; Charbonneau, Patrick; Mladek, Bianca

2011-03-01

Systems governed by soft, bounded, purely repulsive interactions show two possible equilibrium behaviors under compression: reentrant melting, as in the Gaussian core model (GCM), or clustering, as in the penetrable sphere model (PSM). The generalized exponential model of power 4 (GEM-4), which is the intermedia of the GCM and PSM with a simple isotropic pair interaction u (r) ~e-r4 , is thought to belong to the second family and was indeed found to form clusters at sufficiently high densities at high temperatures. Here, we present the low-temperature behavior of GEM-4 through Monte Carlo simulations using a specially developed free energy integration scheme. We find the phase behavior to be hybrid between the GCM and the PSM limits, showing a surprisingly rich phase behavior in spite of the simplicity of the interaction form. For instance, S- shaped doubly reentrant phase sequences and evidence of a cascade of critical isostructural transitions between crystals of different average lattice site occupancy are observed. The possible annihilation of lattice sites and accompanying clustering moreover leads to an unusual softening upon compression, which suggest that these materials may have interesting mechanical properties. We discuss possible experimental realizations and challenges of this class of materials.

EMIC wave events during the four QARBM challenge intervals

NASA Astrophysics Data System (ADS)

Engebretson, M. J.; Posch, J. L.; Braun, D.; Li, W.; Angelopoulos, V.; Kellerman, A. C.; Kletzing, C.; Lessard, M.; Mann, I. R.; Tero, R.; Shiokawa, K.; Wygant, J. R.

2017-12-01

We present observations of EMIC waves from multiple data sources during the four GEM challenge events in 2013 selected by the GEM focus group on Quantitative Assessment of Radiation Belt Modeling: March 17-18 (Stormtime Enhancement), May 31-June 2 (Stormtime Dropout), September 19-20 (Non-storm Enhancement), and September 23-25 (Non-storm Dropout). Observations include EMIC wave data from the Van Allen Probes and THEMIS spacecraft in the inner magnetosphere and from several arrays of ground-based search coil magnetometers worldwide, as well as localized ring current proton precipitation data from the low-altitude POES spacecraft. Each of these data sets provides only limited spatial coverage, but their combination reveals consistent occurrence patterns, which are then used to evaluate the effectiveness of EMIC waves in causing dropouts of radiation belt electrons during these GEM events.

The influence of gemfibrozil on malondialdehyde level and paraoxonase 1 activity in wistar and fisher rats.

PubMed

Macan, Marija; Marija, Macan; Konjevoda, Paško; Paško, Konjevoda; Lovric, Jasna; Jasna, Lovrić; Koprivanac, Marijan; Marijan, Koprivanac; Kelava, Marta; Marta, Kelava; Vrkic, Nada; Nada, Vrkić; Bradamante, Vlasta; Vlasta, Bradamante

2011-06-01

There are diverse experimental data about the influence of gemfibrozil (GEM) on the production of hydrogen peroxide (H(2)O(2)) and antioxidant enzymes. We investigated the influence of GEM treatment on the production of malondialdehyde (MDA) level in tissues of normolipidaemic Wistar and Fisher rats which is an index of lipid peroxidation. Because serum paraoxonase 1 (PON1) is an important enzyme with specific protective function on metabolism of lipid peroxides, we examined the influence of GEM on PON1 activity in liver and serum. MDA level and enzyme activities were also determined 10 days after withdrawal of GEM treatment. The significantly increased levels of MDA in liver, kidney and heart of both rat strains were obtained after 3 weeks of GEM treatment. We propose two possibilities for the increase of MDA levels caused by GEM, induction of peroxisome proliferation and activities of enzymes that participated in occurrence of H(2)O(2) and possible reduction of enzyme activities including in H(2)O(2) metabolism. Ten days after withdrawal of GEM treatment, MDA levels in all tissue levels of both rat strains were less in comparison with GEM treatment. GEM caused a significant drop of PON1 activity in serum and liver of Fisher rats, and in liver of Wistar rats. We suggest that GEM, through induction of lipid peroxidation, caused the damage of hepatocytes with consequent reduction of PON1 synthesis. The increase in PON1 activity in serum and tissues of both rat strains 10 days after withdrawal of GEM treatment shows the fast recovery of enzyme synthesis. © 2011 The Authors. Basic & Clinical Pharmacology & Toxicology © 2011 Nordic Pharmacological Society.

CONKO-005: Adjuvant Chemotherapy With Gemcitabine Plus Erlotinib Versus Gemcitabine Alone in Patients After R0 Resection of Pancreatic Cancer: A Multicenter Randomized Phase III Trial.

PubMed

Sinn, Marianne; Bahra, Marcus; Liersch, Torsten; Gellert, Klaus; Messmann, Helmut; Bechstein, Wolf; Waldschmidt, Dirk; Jacobasch, Lutz; Wilhelm, Martin; Rau, Bettina M; Grützmann, Robert; Weinmann, Arndt; Maschmeyer, Georg; Pelzer, Uwe; Stieler, Jens M; Striefler, Jana K; Ghadimi, Michael; Bischoff, Sven; Dörken, Bernd; Oettle, Helmut; Riess, Hanno

2017-10-10

Purpose Gemcitabine is standard of care in the adjuvant treatment of resectable pancreatic ductal adenocarcinoma (PDAC). The epidermal growth factor receptor tyrosine kinase inhibitor erlotinib in combination with gemcitabine has shown efficacy in the treatment of advanced PDAC and was considered to improve survival in patients with primarily resectable PDAC after R0 resection. Patients and Methods In an open-label, multicenter trial, patients were randomly assigned to one of two study arms: gemcitabine 1,000 mg/m 2 days 1, 8, 15, every 4 weeks plus erlotinib 100 mg once per day (GemErlo) or gemcitabine (Gem) alone for six cycles. The primary end point of the study was to improve disease-free survival (DFS) from 14 to 18 months by adding erlotinib to gemcitabine. Results In all, 436 patients were randomly assigned at 57 study centers between April 2008 and July 2013. A total of 361 instances (83%) of disease recurrence were observed after a median follow-up of 54 months. Median treatment duration was 22 weeks in both arms. There was no difference in median DFS (GemErlo 11.4 months; Gem 11.4 months) or median overall survival (GemErlo 24.5 months; Gem 26.5 months). There was a trend toward long-term survival in favor of GemErlo (estimated survival after 1, 2, and 5 years for GemErlo was 77%, 53%, and 25% v 79%, 54%, and 20% for Gem, respectively). The occurrence or the grade of rash was not associated with a better survival in the GemErlo arm. Conclusion To the best of our knowledge, CONKO-005 is the first study to investigate the combination of chemotherapy and a targeted therapy in the adjuvant treatment of PDAC. GemErlo for 24 weeks did not improve DFS or overall survival over Gem.

Use of short-term breath measures to estimate daily methane production by cattle.

PubMed

Velazco, J I; Mayer, D G; Zimmerman, S; Hegarty, R S

2016-01-01

Methods to measure enteric methane (CH4) emissions from individual ruminants in their production environment are required to validate emission inventories and verify mitigation claims. Estimates of daily methane production (DMP) based on consolidated short-term emission measurements are developing, but method verification is required. Two cattle experiments were undertaken to test the hypothesis that DMP estimated by averaging multiple short-term breath measures of methane emission rate did not differ from DMP measured in respiration chambers (RC). Short-term emission rates were obtained from a GreenFeed Emissions Monitoring (GEM) unit, which measured emission rate while cattle consumed a dispensed supplement. In experiment 1 (Expt. 1), four non-lactating cattle (LW=518 kg) were adapted for 18 days then measured for six consecutive periods. Each period consisted of 2 days of ad libitum intake and GEM emission measurement followed by 1 day in the RC. A prototype GEM unit releasing water as an attractant (GEM water) was also evaluated in Expt. 1. Experiment 2 (Expt. 2) was a larger study based on similar design with 10 cattle (LW=365 kg), adapted for 21 days and GEM measurement was extended to 3 days in each of the six periods. In Expt. 1, there was no difference in DMP estimated by the GEM unit relative to the RC (209.7 v. 215.1 g CH(4)/day) and no difference between these methods in methane yield (MY, 22.7 v. 23.7 g CH(4)/kg of dry matter intake, DMI). In Expt. 2, the correlation between GEM and RC measures of DMP and MY were assessed using 95% confidence intervals, with no difference in DMP or MY between methods and high correlations between GEM and RC measures for DMP (r=0.85; 215 v. 198 g CH(4)/day SEM=3.0) and for MY (r=0.60; 23.8 v. 22.1 g CH(4)/kg DMI SEM=0.42). When data from both experiments was combined neither DMP nor MY differed between GEM- and RC-based measures (P>0.05). GEM water-based estimates of DMP and MY were lower than RC and GEM (P<0.05). Cattle accessed the GEM water unit with similar frequency to the GEM unit (2.8 v. 3.5 times/day, respectively) but eructation frequency was reduced from 1.31 times/min (GEM) to once every 2.6 min (GEM water). These studies confirm the hypothesis that DMP estimated by averaging multiple short-term breath measures of methane emission rate using GEM does not differ from measures of DMP obtained from RCs. Further, combining many short-term measures of methane production rate during supplement consumption provides an estimate of DMP, which can be usefully applied in estimating MY.

How important is biomass burning in Canada to mercury contamination?

NASA Astrophysics Data System (ADS)

Fraser, Annemarie; Dastoor, Ashu; Ryjkov, Andrei

2018-05-01

Wildfire frequency has increased in past four decades in Canada and is expected to increase in future as a result of climate change (Wotton et al., 2010). Mercury (Hg) emissions from biomass burning are known to be significant; however, the impact of biomass burning on air concentration and deposition fluxes in Canada has not been previously quantified. We use estimates of burned biomass from FINN (Fire INventory from NCAR) and vegetation-specific emission factors (EFs) of mercury to investigate the spatiotemporal variability of Hg emissions in Canada. We use Environment and Climate Change Canada's GEM-MACH-Hg (Global Environmental Multi-scale, Modelling Air quality and Chemistry model, mercury version) to quantify the impact of biomass burning in Canada on spatiotemporal variability of air concentrations and deposition fluxes of mercury in Canada. We use North American gaseous elemental mercury (GEM) observations (2010-2015), GEM-MACH-Hg, and an inversion technique to optimize the EFs for GEM for five vegetation types represented in North American fires to constrain the biomass burning impacts of mercury. The inversion results suggest that EFs representing more vegetation types - specifically peatland - are required. This is currently limited by the sparseness of measurements of Hg from biomass burning plumes. More measurements of Hg concentration in the air, specifically downwind of fires, would improve the inversions. We use three biomass burning Hg emissions scenarios in Canada to conduct three sets of model simulations for 2010-2015: two scenarios where Hg is emitted only as GEM using literature or optimized EFs and a third scenario where Hg is emitted as GEM using literature EFs and particle bound mercury (PBM) emitted using the average GEM/PBM ratio from lab measurements. The three biomass burning emission scenarios represent a range of possible values for the impacts of Hg emissions from biomass burning in Canada on Hg concentration and deposition. We find total biomass burning Hg emissions to be highly variable from year to year and estimate average 2010-2015 total atmospheric biomass burning emissions of Hg in Canada to be between 6 and 14 t during the biomass burning season (i.e. from May to September), which is 3-7 times the mercury emission from anthropogenic sources in Canada for this period. On average, 65 % of the emissions occur in the provinces west of Ontario. We find that while emissions from biomass burning have a small impact on surface air concentrations of GEM averaged over individual provinces/territories, the impact at individual sites can be as high as 95 % during burning events. We estimate average annual mercury deposition from biomass burning in Canada to be between 0.3 and 2.8 t, compared to 0.14 t of mercury deposition from anthropogenic sources during the biomass burning season in Canada. Compared to the biomass burning emissions, the relative impact of fires on mercury deposition is shifted eastward, with on average 54 % percent of the deposition occurring in provinces west of Ontario. While the relative contribution of Canadian biomass burning to the total mercury deposition over each province/territory is no more than 9 % between 2010 and 2015, the local contribution in some locations (including areas downwind of biomass burning) can be as high as 80 % (e.g. northwest of Great Slave Lake in 2014) from May to September. We find that northern Alberta and Saskatchewan, central British Columbia, and the area around Great Slave Lake in the Northwest Territories are at greater risk of mercury contamination from biomass burning. GEM is considered to be the dominant mercury species emitted from biomass burning; however, there remains an uncertainty in the speciation of mercury released from biomass burning. We find that the impact of biomass burning emissions on mercury deposition is significantly affected by the uncertainty in speciation of emitted mercury because PBM is more readily deposited closer to the emission sources than GEM; an addition of ˜ 18 % percent of mercury emission from biomass burning in the form of PBM in the model increases the 6-year average deposition by ˜ 4 times.

Great Explorations in Math and Science[R] (GEMS[R]) Space Science. What Works Clearinghouse Intervention Report

ERIC Educational Resources Information Center

What Works Clearinghouse, 2012

2012-01-01

"Great Explorations in Math and Science[R] (GEMS[R]) Space Science" is an instructional sequence for grades 3-5 that covers fundamental concepts, including planetary sizes and distance, the Earth's shape and movement, gravity, and moon phases and eclipses. Part of the "GEMS"[R] core curriculum, "GEMS[R] Space Science"…

Possible Gems and Ultra-Fine Grained Polyphase Units in Comet Wild 2.

NASA Technical Reports Server (NTRS)

Gainsforth, Z.; Butterworth, A. L.; Jilly-Rehak, C. E.; Westphal, A. J.; Brownlee, D. E.; Joswiak, D.; Ogliore, R. C.; Zolensky, M. E.; Bechtel, H. A.; Ebel, D. S.;

On the Origin of GEMS

NASA Technical Reports Server (NTRS)

Keller, L. P.; Messenger, S.

2004-01-01

GEMS (glass with embedded metal and sulfides) are a major component of anhydrous interplanetary dust particles (IDPs) their physical and chemical characteristics show marked similarities to contemporary interstellar dust. Recent oxygen isotopic measurements confirm that at least a small fraction (less than 5%) of GEMS are demonstrably presolar, while the remainder have ratios that are indistinguishable from solar values. GEMS with solar oxygen isotopic compositions either (1) had their isotopic compositions homogenized through processing in the interstellar medium (ISM), or (2) formed in the early solar system. Isotopic homogenization necessarily implies chemical homogenization, so (interstellar) GEMS compositions should reflect the average composition of dust in the local ISM. We performed a systematic examination of the bulk chemistry of GEMS in primitive IDPs in order to test this hypothesis.

Measuring Men's Gender Norms and Gender Role Conflict/Stress in a High HIV-Prevalence South African Setting.

PubMed

Gottert, Ann; Barrington, Clare; Pettifor, Audrey; McNaughton-Reyes, Heath Luz; Maman, Suzanne; MacPhail, Catherine; Kahn, Kathleen; Selin, Amanda; Twine, Rhian; Lippman, Sheri A

2016-08-01

Gender norms and gender role conflict/stress may influence HIV risk behaviors among men; however scales measuring these constructs need further development and evaluation in African settings. We conducted exploratory and confirmatory factor analyses to evaluate the Gender Equitable Men's Scale (GEMS) and the Gender Role Conflict/Stress (GRC/S) scale among 581 men in rural northeast South Africa. The final 17-item GEMS was unidimensional, with adequate model fit and reliability (alpha = 0.79). Factor loadings were low (0.2-0.3) for items related to violence and sexual relationships. The final 24-item GRC/S scale was multidimensional with four factors: Success, power, competition; Subordination to women; Restrictive emotionality; and Sexual prowess. The scale had adequate model fit and good reliability (alpha = 0.83). While GEMS is a good measure of inequitable gender norms, new or revised scale items may need to be explored in the South African context. Adding the GRC/S scale to capture men's strain related to gender roles could provide important insights into men's risk behaviors.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

The GEM collaboration was formed in June 1991 to develop a major detector for the SSC. The primary physics objectives of GEM are those central to the motivation for the SSC, to study high p{sub T} physics - exemplified by the search for Higgs bosons - and to search for new physics beyond the standard model. The authors present in this Technical Design Report (TDR) a detector with broad capabilities for the discovery and subsequent study of electroweak symmetry breaking, the origin of mass and flavor, and other physics requiring precise measurements of gammas, electrons, and muons - hence themore » name, GEM. In addition, as a design goal, they have taken care to provide the robustness needed to do the physics that requires high luminosity. Finally, good coverage and hermeticity allow the detection of missing transverse energy, E{sub T}. The GEM design emphasizes clean identification and high resolution measurement of the primary physics signatures for high p{sub T} physics. The approach is to make precise energy measurements that maximize the sensitivity to rare narrow resonances, to detect the elementary interaction products (quarks, leptons, and photons), and to build in the features required to reduce backgrounds.« less

A genome-scale metabolic flux model of Escherichia coli K–12 derived from the EcoCyc database

PubMed Central

2014-01-01

Background Constraint-based models of Escherichia coli metabolic flux have played a key role in computational studies of cellular metabolism at the genome scale. We sought to develop a next-generation constraint-based E. coli model that achieved improved phenotypic prediction accuracy while being frequently updated and easy to use. We also sought to compare model predictions with experimental data to highlight open questions in E. coli biology. Results We present EcoCyc–18.0–GEM, a genome-scale model of the E. coli K–12 MG1655 metabolic network. The model is automatically generated from the current state of EcoCyc using the MetaFlux software, enabling the release of multiple model updates per year. EcoCyc–18.0–GEM encompasses 1445 genes, 2286 unique metabolic reactions, and 1453 unique metabolites. We demonstrate a three-part validation of the model that breaks new ground in breadth and accuracy: (i) Comparison of simulated growth in aerobic and anaerobic glucose culture with experimental results from chemostat culture and simulation results from the E. coli modeling literature. (ii) Essentiality prediction for the 1445 genes represented in the model, in which EcoCyc–18.0–GEM achieves an improved accuracy of 95.2% in predicting the growth phenotype of experimental gene knockouts. (iii) Nutrient utilization predictions under 431 different media conditions, for which the model achieves an overall accuracy of 80.7%. The model’s derivation from EcoCyc enables query and visualization via the EcoCyc website, facilitating model reuse and validation by inspection. We present an extensive investigation of disagreements between EcoCyc–18.0–GEM predictions and experimental data to highlight areas of interest to E. coli modelers and experimentalists, including 70 incorrect predictions of gene essentiality on glucose, 80 incorrect predictions of gene essentiality on glycerol, and 83 incorrect predictions of nutrient utilization. Conclusion Significant advantages can be derived from the combination of model organism databases and flux balance modeling represented by MetaFlux. Interpretation of the EcoCyc database as a flux balance model results in a highly accurate metabolic model and provides a rigorous consistency check for information stored in the database. PMID:24974895

Transcriptomics-based strain optimization tool for designing secondary metabolite overproducing strains of Streptomyces coelicolor.

PubMed

Kim, Minsuk; Yi, Jeong Sang; Lakshmanan, Meiyappan; Lee, Dong-Yup; Kim, Byung-Gee

2016-03-01

In silico model-driven analysis using genome-scale model of metabolism (GEM) has been recognized as a promising method for microbial strain improvement. However, most of the current GEM-based strain design algorithms based on flux balance analysis (FBA) heavily rely on the steady-state and optimality assumptions without considering any regulatory information. Thus, their practical usage is quite limited, especially in its application to secondary metabolites overproduction. In this study, we developed a transcriptomics-based strain optimization tool (tSOT) in order to overcome such limitations by integrating transcriptomic data into GEM. Initially, we evaluated existing algorithms for integrating transcriptomic data into GEM using Streptomyces coelicolor dataset, and identified iMAT algorithm as the only and the best algorithm for characterizing the secondary metabolism of S. coelicolor. Subsequently, we developed tSOT platform where iMAT is adopted to predict the reaction states, and successfully demonstrated its applicability to secondary metabolites overproduction by designing actinorhodin (ACT), a polyketide antibiotic, overproducing strain of S. coelicolor. Mutants overexpressing tSOT targets such as ribulose 5-phosphate 3-epimerase and NADP-dependent malic enzyme showed 2 and 1.8-fold increase in ACT production, thereby validating the tSOT prediction. It is expected that tSOT can be used for solving other metabolic engineering problems which could not be addressed by current strain design algorithms, especially for the secondary metabolite overproductions. © 2015 Wiley Periodicals, Inc.

Performance verification of the Gravity and Extreme Magnetism Small explorer (GEMS) x-ray polarimeter

NASA Astrophysics Data System (ADS)

Enoto, Teruaki; Black, J. Kevin; Kitaguchi, Takao; Hayato, Asami; Hill, Joanne E.; Jahoda, Keith; Tamagawa, Toru; Kaneko, Kenta; Takeuchi, Yoko; Yoshikawa, Akifumi; Marlowe, Hannah; Griffiths, Scott; Kaaret, Philip E.; Kenward, David; Khalid, Syed

2014-07-01

Polarimetry is a powerful tool for astrophysical observations that has yet to be exploited in the X-ray band. For satellite-borne and sounding rocket experiments, we have developed a photoelectric gas polarimeter to measure X-ray polarization in the 2-10 keV range utilizing a time projection chamber (TPC) and advanced micro-pattern gas electron multiplier (GEM) techniques. We carried out performance verification of a flight equivalent unit (1/4 model) which was planned to be launched on the NASA Gravity and Extreme Magnetism Small Explorer (GEMS) satellite. The test was performed at Brookhaven National Laboratory, National Synchrotron Light Source (NSLS) facility in April 2013. The polarimeter was irradiated with linearly-polarized monochromatic X-rays between 2.3 and 10.0 keV and scanned with a collimated beam at 5 different detector positions. After a systematic investigation of the detector response, a modulation factor >=35% above 4 keV was obtained with the expected polarization angle. At energies below 4 keV where the photoelectron track becomes short, diffusion in the region between the GEM and readout strips leaves an asymmetric photoelectron image. A correction method retrieves an expected modulation angle, and the expected modulation factor, ~20% at 2.7 keV. Folding the measured values of modulation through an instrument model gives sensitivity, parameterized by minimum detectable polarization (MDP), nearly identical to that assumed at the preliminary design review (PDR).

Does GEM-encoding clinical practice guidelines improve the quality of knowledge bases? A study with the rule-based formalism.

PubMed

Georg, Georg; Séroussi, Brigitte; Bouaud, Jacques

2003-01-01

The aim of this work was to determine whether the GEM-encoding step could improve the representation of clinical practice guidelines as formalized knowledge bases. We used the 1999 Canadian recommendations for the management of hypertension, chosen as the knowledge source in the ASTI project. We first clarified semantic ambiguities of therapeutic sequences recommended in the guideline by proposing an interpretative framework of therapeutic strategies. Then, after a formalization step to standardize the terms used to characterize clinical situations, we created the GEM-encoded instance of the guideline. We developed a module for the automatic derivation of a rule base, BR-GEM, from the instance. BR-GEM was then compared to the rule base, BR-ASTI, embedded within the critic mode of ASTI, and manually built by two physicians from the same Canadian guideline. As compared to BR-ASTI, BR-GEM is more specific and covers more clinical situations. When evaluated on 10 patient cases, the GEM-based approach led to promising results.

gem-Difluoroolefination of diaryl ketones and enolizable aldehydes with difluoromethyl 2-pyridyl sulfone: new insights into the Julia-Kocienski reaction.

PubMed

Gao, Bing; Zhao, Yanchuan; Hu, Mingyou; Ni, Chuanfa; Hu, Jinbo

2014-06-16

The direct conversion of diaryl ketones and enolizable aliphatic aldehydes into gem-difluoroalkenes has been a long-standing challenge in organofluorine chemistry. Herein, we report efficient strategies to tackle this problem by using difluoromethyl 2-pyridyl sulfone as a general gem-difluoroolefination reagent. The gem-difluoroolefination of diaryl ketones proceeds by acid-promoted Smiles rearrangement of the carbinol intermediate; the gem-difluoroolefination is otherwise difficult to achieve through a conventional Julia-Kocienski olefination protocol under basic conditions due to the retro-aldol type decomposition of the key intermediate. Efficient gem-difluoroolefination of aliphatic aldehydes was achieved by the use of an amide base generated in situ (from CsF and tris(trimethylsilyl)amine), which diminishes the undesired enolization of aliphatic aldehydes and provides a powerful synthetic method for chemoselective gem-difluoroolefination of multi-carbonyl compounds. Our results provide new insights into the mechanistic understanding of the classical Julia-Kocienski reaction. © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Improving care coordination for community-dwelling older Australians: a longitudinal qualitative study.

PubMed

Harvey, Desley; Foster, Michele; Strivens, Edward; Quigley, Rachel

2017-05-01

Objective The aim of the present study was to describe the care transition experiences of older people who transfer between subacute and primary care, and to identify factors that influence these experiences. A further aim of the study was to identify ways to enhance the Geriatric Evaluation and Management (GEM) model of care and improve local coordination of services for older people. Methods The present study was an exploratory, longitudinal case study involving repeat interviews with 19 patients and carers, patient chart audits and three focus groups with service providers. Interview transcripts were coded and synthesised to identify recurring themes. Results Patients and carers experienced care transitions as dislocating and unpredictable within a complex and turbulent service context. The experience was characterised by precarious self-management in the community, floundering with unmet needs and holistic care within the GEM service. Patient and carer attitudes to seeking help, quality and timeliness of communication and information exchange, and system pressure affected care transition experiences. Conclusion Further policy and practice attention, including embedding early intervention and prevention, strengthening links between levels of care by building on existing programs and educative and self-help initiatives for patients and carers is recommended to improve care transition experiences and optimise the impact of the GEM model of care. What is known about the topic? Older people with complex care needs experience frequent care transitions because of fluctuating health and fragmentation of aged care services in Australia. The GEM model of care promotes multidisciplinary, coordinated care to improve care transitions and outcomes for older people with complex care needs. What does this paper add? The present study highlights the crucial role of the GEM service, but found there is a lack of systemised linkages within and across levels of care that disrupts coordinated care and affects care transition experiences. There are underutilised opportunities for early intervention and prevention across the system, including the emergency department and general practice. What are the implications for practitioners? Comprehensive screening, assessment and intervention in primary and acute care, formalised transition processes and enhanced support for patients and carers to access timely, appropriate care is required to achieve quality, coordinated care transitions for older people.

Outcomes after helicopter versus ground emergency medical services for major trauma--propensity score and instrumental variable analyses: a retrospective nationwide cohort study.

PubMed

Tsuchiya, Asuka; Tsutsumi, Yusuke; Yasunaga, Hideo

2016-11-29

Because of a lack of randomized controlled trials and the methodological weakness of currently available observational studies, the benefits of helicopter emergency medical services (HEMS) over ground emergency medical services (GEMS) for major trauma patients remain uncertain. The aim of this retrospective nationwide cohort study was to compare the mortality of adults with serious traumatic injuries who were transported by HEMS and GEMS, and to analyze the effects of HEMS in various subpopulations. Using the Japan Trauma Data Bank, we evaluated all adult patients who had an injury severity score ≥ 16 transported by HEMS or GEMS during the daytime between 2004 and 2014. We compared in-hospital mortality between patients transported by HEMS and GEMS using propensity score matching, inverse probability of treatment weighting and instrumental variable analyses to adjust for measured and unmeasured confounding factors. Eligible patients (n = 21,286) from 192 hospitals included 4128 transported by HEMS and 17,158 transported by GEMS. In the propensity score-matched model, there was a significant difference in the in-hospital mortality between HEMS and GEMS groups (22.2 vs. 24.5%, risk difference -2.3% [95% confidence interval, -4.2 to -0.5]; number needed to treat, 43 [95% confidence interval, 24 to 220]). The inverse probability of treatment weighting (20.8% vs. 23.9%; risk difference, -3.9% [95% confidence interval, -5.7 to -2.1]; number needed to treat, 26 [95% confidence interval, 17 to 48]) and instrumental variable analyses showed similar results (risk difference, -6.5% [95% confidence interval, -9.2 to -3.8]; number needed to treat, 15 [95% confidence interval, 11 to 27]). HEMS transport was significantly associated with lower in-hospital mortality after falls, compression injuries, severe chest injuries, extremity (including pelvic) injuries, and traumatic arrest on arrival to the emergency department. HEMS was associated with a significantly lower mortality than GEMS in adult patients with major traumatic injuries after adjusting for measured and unmeasured confounders.

PLC-controlled cryostats for the BlackGEM and MeerLICHT detectors

NASA Astrophysics Data System (ADS)

Raskin, Gert; Morren, Johan; Pessemier, Wim; Bloemen, Steven; Klein-Wolt, Marc; Roelfsema, Ronald; Groot, Paul; Aerts, Conny

2016-08-01

BlackGEM is an array of telescopes, currently under development at the Radboud University Nijmegen and at NOVA (Netherlands Research School for Astronomy). It targets the detection of the optical counterparts of gravitational waves. The first three BlackGEM telescopes are planned to be installed in 2018 at the La Silla observatory (Chile). A single prototype telescope, named MeerLICHT, will already be commissioned early 2017 in Sutherland (South Africa) to provide an optical complement for the MeerKAT radio array. The BlackGEM array consists of, initially, a set of three robotic 65-cm wide-field telescopes. Each telescope is equipped with a single STA1600 CCD detector with 10.5k x 10.5k 9-micron pixels that covers a 2.7 square degrees field of view. The cryostats for housing these detectors are developed and built at the KU Leuven University (Belgium). The operational model of BlackGEM requires long periods of reliable hands-off operation. Therefore, we designed the cryostats for long vacuum hold time and we make use of a closed-cycle cooling system, based on Polycold PCC Joule-Thomson coolers. A single programmable logic controller (PLC) controls the cryogenic systems of several BlackGEM telescopes simultaneously, resulting in a highly reliable, cost-efficient and maintenance-friendly system. PLC-based cryostat control offers some distinct advantages, especially for a robotic facility. Apart of temperature monitoring and control, the PLC also monitors the vacuum quality, the power supply and the status of the PCC coolers (compressor power consumption and temperature, pressure in the gas lines, etc.). Furthermore, it provides an alarming system and safe and reproducible procedures for automatic cool down and warm up. The communication between PLC and higher-level software takes place via the OPC-UA protocol, offering a simple to implement, yet very powerful interface. Finally, a touch-panel display on the PLC provides the operator with a user-friendly and robust technical interface. In this contribution, we present the design of the BlackGEM cryostats and of the PLC-based control system.

Current understanding of the driving mechanisms for spatiotemporal variations of atmospheric speciated mercury: a review

NASA Astrophysics Data System (ADS)

Mao, Huiting; Cheng, Irene; Zhang, Leiming

2016-10-01

Atmospheric mercury (Hg) is a global pollutant and thought to be the main source of mercury in oceanic and remote terrestrial systems, where it becomes methylated and bioavailable; hence, atmospheric mercury pollution has global consequences for both human and ecosystem health. Understanding of spatial and temporal variations of atmospheric speciated mercury can advance our knowledge of mercury cycling in various environments. This review summarized spatiotemporal variations of total gaseous mercury or gaseous elemental mercury (TGM/GEM), gaseous oxidized mercury (GOM), and particulate-bound mercury (PBM) in various environments including oceans, continents, high elevation, the free troposphere, and low to high latitudes. In the marine boundary layer (MBL), the oxidation of GEM was generally thought to drive the diurnal and seasonal variations of TGM/GEM and GOM in most oceanic regions, leading to lower GEM and higher GOM from noon to afternoon and higher GEM during winter and higher GOM during spring-summer. At continental sites, the driving mechanisms of TGM/GEM diurnal patterns included surface and local emissions, boundary layer dynamics, GEM oxidation, and for high-elevation sites mountain-valley winds, while oxidation of GEM and entrainment of free tropospheric air appeared to control the diurnal patterns of GOM. No pronounced diurnal variation was found for Tekran measured PBM at MBL and continental sites. Seasonal variations in TGM/GEM at continental sites were attributed to increased winter combustion and summertime surface emissions, and monsoons in Asia, while those in GOM were controlled by GEM oxidation, free tropospheric transport, anthropogenic emissions, and wet deposition. Increased PBM at continental sites during winter was primarily due to local/regional coal and wood combustion emissions. Long-term TGM measurements from the MBL and continental sites indicated an overall declining trend. Limited measurements suggested TGM/GEM increasing from the Southern Hemisphere (SH) to the Northern Hemisphere (NH) due largely to the vast majority of mercury emissions in the NH, and the latitudinal gradient was insignificant in summer probably as a result of stronger meridional mixing. Aircraft measurements showed no significant vertical variation in GEM over the field campaign regions; however, depletion of GEM was observed in stratospherically influenced air masses. In examining the remaining questions and issues, recommendations for future research needs were provided, and among them is the most imminent need for GOM speciation measurements and fundamental understanding of multiphase redox kinetics.

Immunogenicity and immunoprotection of porcine circovirus type 2 (PCV2) Cap protein displayed by Lactococcus lactis.

PubMed

Li, Peng-Cheng; Qiao, Xu-Wen; Zheng, Qi-Sheng; Hou, Ji-Bo

2016-01-27

The capsid (Cap) protein, an important immunoprotective protein of porcine circovirus type 2 (PCV2), was expressed on the cell surface of the Gram-positive food-grade bacterium, Lactococcus lactis. Cap protein was fused to the peptidoglycan binding domain (known as the protein anchor domain, PA) of the lactococcal AcmA cell-wall hydrolase. The Cap protein fusion was non-covalently rebound to the surface of non-genetically modified, non-living high-binder L. lactis cells (designated Gram-positive enhancer matrix (GEM) particles). Expression of the recombinant GEM-displaying capsid protein (GEM-PA-Cap) was verified by Western blotting and immunofluorescence and transmission electron microscopy assays. To evaluate the immunogenicity of the recombinant Cap protein (rCap), 20 PCV2-seronegative piglets were immunized with the GEM-PA-Cap subunit vaccine, GEM alone, or phosphate-buffered saline (PBS, challenge control and empty control). Each group consisted of five piglets. The results showed that the level of PCV2-specific antibodies in piglets immunized with the GEM-PA-Cap subunit vaccine was significantly higher than that of the piglets immunized with GEM alone or the control group at all the time points post-vaccination (P<0.01). After challenge with the PCV2 wild-type strain, piglets that received the GEM-PA-Cap subunit vaccine showed significantly higher average daily weight gain (DWG) and shorter fever duration than the other two groups (P<0.001). Furthermore, a significant reduction in the gross lung lesion scores and lymph node lesion scores was noted in the GEM-PA-Cap-immunized group compared with the scores of the GEM or PBS-treated group (P<0.01). The results suggest that recombinant rCap displayed by L. lactis GEM particles provided the piglets with significant immunoprotection from PCV2-associated disease. Thus, the novel GEM-PA-Cap subunit vaccine has potential to be considered an effective and safe candidate vaccine against PCV2 infection in piglets. Copyright © 2015. Published by Elsevier Ltd.

Emissions of mercury in Southern Africa derived from long-term observations at Cape Point, South Africa

NASA Astrophysics Data System (ADS)

Brunke, E.-G.; Ebinghaus, R.; Kock, H. H.; Labuschagne, C.; Slemr, F.

2012-05-01

Mercury emissions in South Africa have so far been estimated only by a bottom-up approach from activities and emission factors for different processes. In this paper we derive GEM/CO (GEM being gaseous elemental mercury, Hg0), GEM/CO2, GEM/CH4, CO/CO2, CH4/CO2, and CH4/CO emission ratios from plumes observed during long-term monitoring of these species at Cape Point between March 2007 and December 2009. The average observed GEM/CO, GEM/CO2, GEM/CH4, CO/CO2, CH4/CO2, and CH4/CO emission ratios were 2.40 ± 2.65 pg m-3 ppb-1 (n = 47), 62.7 ± 80.2 pg m-3 ppb-1 (n = 44), 3.61 ± 4.66 pg m-3 ppb-1 (n = 46), 35.6 ± 25.4 ppb ppm-1 (n = 52), 20.2 ± 15.5 ppb ppm-1 (n=48), and 0.876 ± 1.106 ppb ppm-1 (n=42), respectively. The observed CO/CO2, CH4/CO2, and CH4/CO emission ratios agree within the combined uncertainties of the observations and emissions with the ratios calculated from EDGAR (version 4.2) CO2, CO, and CH4 inventories for South Africa and Southern Africa (South Africa, Lesotho, Swaziland, Namibia, Botswana, Zimbabwe, and Mozambique) in 2007 and 2008 (inventories for 2009 are not available yet). Total elemental mercury emission of 13.1, 15.2, and 16.1 t Hg yr-1 are estimated independently using the GEM/CO, GEM/CO2, and GEM/CH4 emission ratios and the annual mean CO, CO2, and CH4 emissions, respectively, of South Africa in 2007 and 2008. The average of these independent estimates of 14.8 ± 1.5 t GEM yr-1 is much less than the total emission of 257 t Hg yr-1 from older inventories. Considering that emission of GEM represents only 50-78% of all mercury emissions, our estimates come close to the total mercury emission estimates ranging between 40-50 t Hg yr-1 from more recent inventories.

Extending the ISC-GEM Global Earthquake Instrumental Catalogue

NASA Astrophysics Data System (ADS)

Di Giacomo, Domenico; Engdhal, Bob; Storchak, Dmitry; Villaseñor, Antonio; Harris, James

2015-04-01

After a 27-month project funded by the GEM Foundation (www.globalquakemodel.org), in January 2013 we released the ISC-GEM Global Instrumental Earthquake Catalogue (1900 2009) (www.isc.ac.uk/iscgem/index.php) as a special product to use for seismic hazard studies. The new catalogue was necessary as improved seismic hazard studies necessitate that earthquake catalogues are homogeneous (to the largest extent possible) over time in their fundamental parameters, such as location and magnitude. Due to time and resource limitation, the ISC-GEM catalogue (1900-2009) included earthquakes selected according to the following time-variable cut-off magnitudes: Ms=7.5 for earthquakes occurring before 1918; Ms=6.25 between 1918 and 1963; and Ms=5.5 from 1964 onwards. Because of the importance of having a reliable seismic input for seismic hazard studies, funding from GEM and two commercial companies in the US and UK allowed us to start working on the extension of the ISC-GEM catalogue both for earthquakes that occurred beyond 2009 and for earthquakes listed in the International Seismological Summary (ISS) which fell below the cut-off magnitude of 6.25. This extension is part of a four-year program that aims at including in the ISC-GEM catalogue large global earthquakes that occurred before the beginning of the ISC Bulletin in 1964. In this contribution we present the updated ISC GEM catalogue, which will include over 1000 more earthquakes that occurred in 2010 2011 and several hundreds more between 1950 and 1959. The catalogue extension between 1935 and 1949 is currently underway. The extension of the ISC-GEM catalogue will also be helpful for regional cross border seismic hazard studies as the ISC-GEM catalogue should be used as basis for cross-checking the consistency in location and magnitude of those earthquakes listed both in the ISC GEM global catalogue and regional catalogues.

Temporal distribution and potential sources of atmospheric mercury measured at a high-elevation background station in Taiwan

NASA Astrophysics Data System (ADS)

Sheu, Guey-Rong; Lin, Neng-Huei; Wang, Jia-Lin; Lee, Chung-Te; Ou Yang, Chang-Feng; Wang, Sheng-Hsiang

2010-07-01

Measurements of gaseous elemental mercury (GEM), reactive gaseous mercury (RGM), and particulate mercury (PHg) have been conducted at Lulin Atmospheric Background Station (LABS) in Taiwan since April 2006. This was the first long-term free tropospheric atmospheric Hg monitoring program in the downwind region of East Asia, which is a major Hg emission source region. Between April 13, 2006 and December 31, 2007, the mean concentrations of GEM, RGM, and PHg were 1.73 ng m -3, 12.1 pg m -3, and 2.3 pg m -3, respectively. A diurnal pattern was observed for GEM with afternoon peaks and nighttime lows, whereas the diurnal pattern of RGM was opposite to that of GEM. Spikes of RGM were frequently observed between midnight and early morning with concurrent decreases in GEM and relative humidity and increases in O 3, suggesting the oxidation of GEM and formation of RGM in free troposphere (FT). Upslope movement of boundary layer (BL) air in daytime and subsidence of FT air at night resulted in these diurnal patterns. Considering only the nighttime data, which were more representative of FT air, the composite monthly mean GEM concentrations ranged between 1.06 and 2.06 ng m -3. Seasonal variation in nighttime GEM was evident, with lower concentrations usually occurring in summer when clean marine air masses prevailed. Between fall and spring, air masses passed the East Asian continent prior to reaching LABS, contributing to the elevated GEM concentrations. Analysis of GEM/CO correlation tends to support the argument. Good GEM/CO correlations were observed in fall, winter, and spring, suggesting influence of anthropogenic emission sources. Our results demonstrate the significance of East Asian Hg emissions, including both anthropogenic and biomass burning emissions, and their long-range transport in the FT. Because of the pronounced seasonal monsoon activity and the seasonal variation in regional wind field, export of the Asian Hg emissions to Taiwan occurs mainly during fall, winter, and spring.

Impaired clinical utility of sequential patient GEM blood gas measurements associated with calibration schedule.

PubMed

Cembrowski, George S; Xu, Qian; Cembrowski, Adam R; Mei, Junyi; Sadrzadeh, Hossein

2017-11-01

Within- and/or between-instrument variation may falsely indicate patient trends or obscure real trends. We employ a methodology that transforms sequential intra-patient results into estimates of biologic and analytic variation. We previously derived realistic biologic variation (s b ) of blood gas (BG) and hematology analytes. We extend this methodology to derive the imprecision of two GEM 4000 BG analyzers. A laboratory data repository provided arterial BG, electrolyte and metabolite results generated by two GEM 4000s on ICU patients in 2012-2013. We tabulated consecutive pairs of intra-patient results separated by increasing time interval between consecutive tests. The average between pair variations were regressed against time with the y-intercept representing the sum of the biologic variation and short term analytic variation: y o 2 =s b 2 +s a 2 . Using an equivalent equation for the Radiometer ABL, the imprecision of the two GEMs was calculated: s aGEM =(y oGEM 2 -y oABL 2 +s aABL 2 ) 1/2 . This analysis was performed for nearly all measurements, regardless of time as well for values obtained over two 12h mutually exclusive periods, starting either at 2am or 2pm. Regression graphs were derived from 1800 patients' blood gas results with least 10,000 data pairs grouped into 2h intervals. The calculated s aGEM exceed the directly measured s aABL with many GEM sigma ratios of biologic variation/analytic variation being close to unity. All of the afternoon s aGEM exceeded their morning counterparts with pH, pCO 2 , K and bicarbonate being statistically significant. For many analytes, the average analytical variation of tandem GEMs approximates the biologic variation, indicating impaired clinical usefulness of tandem sequential measurements. A significant component of this variation is due to increased variation of the GEMs between 2pm and 2am. Copyright © 2017 The Authors. Published by Elsevier Inc. All rights reserved.

Photodegradation of gemfibrozil in aqueous solution under UV irradiation: kinetics, mechanism, toxicity, and degradation pathways.

PubMed

Ma, Jingshuai; Lv, Wenying; Chen, Ping; Lu, Yida; Wang, Fengliang; Li, Fuhua; Yao, Kun; Liu, Guoguang

2016-07-01

The lipid regulator gemfibrozil (GEM) has been reported to be persistent in conventional wastewater treatment plants. This study investigated the photolytic behavior, toxicity of intermediate products, and degradation pathways of GEM in aqueous solutions under UV irradiation. The results demonstrated that the photodegradation of GEM followed pseudo-first-order kinetics, and the pseudo-first-order rate constant was decreased markedly with increasing initial concentrations of GEM and initial pH. The photodegradation of GEM included direct photolysis via (3)GEM(*) and self-sensitization via ROS, where the contribution rates of degradation were 0.52, 90.05, and 8.38 % for ·OH, (1)O2, and (3)GEM(*), respectively. Singlet oxygen ((1)O2) was evidenced by the molecular probe compound, furfuryl alcohol (FFA), and was identified as the primary reactive species in the photolytic process. The steady-state concentrations of (1)O2 increased from (0.324 ± 0.014) × 10(-12) to (1.021 ± 0.040) × 10(-12) mol L(-1), as the initial concentrations of GEM were increased from 5 to 20 mg L(-1). The second-order rate constant for the reaction of GEM with (1)O2 was calculated to be 2.55 × 10(6) M(-1) s(-1). The primary transformation products were identified using HPLC-MS/MS, and possible photodegradation pathways were proposed by hydroxylation, aldehydes reactions, as well as the cleavage of ether side chains. The toxicity of phototransformation product evaluation revealed that photolysis potentially provides a critical pathway for GEM toxicity reduction in potable water and wastewater treatment facilities.

2008 GEM Modeling Challenge: Metrics Study of the Dst Index in Physics-Based Magnetosphere and Ring Current Models and in Statistical and Analytic Specifications

NASA Technical Reports Server (NTRS)

Rastaetter, L.; Kuznetsova, M.; Hesse, M.; Pulkkinen, A.; Glocer, A.; Yu, Y.; Meng, X.; Raeder, J.; Wiltberger, M.; Welling, D.;

Genome-scale modeling of human metabolism - a systems biology approach.

PubMed

Mardinoglu, Adil; Gatto, Francesco; Nielsen, Jens

2013-09-01

Altered metabolism is linked to the appearance of various human diseases and a better understanding of disease-associated metabolic changes may lead to the identification of novel prognostic biomarkers and the development of new therapies. Genome-scale metabolic models (GEMs) have been employed for studying human metabolism in a systematic manner, as well as for understanding complex human diseases. In the past decade, such metabolic models - one of the fundamental aspects of systems biology - have started contributing to the understanding of the mechanistic relationship between genotype and phenotype. In this review, we focus on the construction of the Human Metabolic Reaction database, the generation of healthy cell type- and cancer-specific GEMs using different procedures, and the potential applications of these developments in the study of human metabolism and in the identification of metabolic changes associated with various disorders. We further examine how in silico genome-scale reconstructions can be employed to simulate metabolic flux distributions and how high-throughput omics data can be analyzed in a context-dependent fashion. Insights yielded from this mechanistic modeling approach can be used for identifying new therapeutic agents and drug targets as well as for the discovery of novel biomarkers. Finally, recent advancements in genome-scale modeling and the future challenge of developing a model of whole-body metabolism are presented. The emergent contribution of GEMs to personalized and translational medicine is also discussed. Copyright © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Experimenting with the GMAO 4D Data Assimilation

NASA Technical Reports Server (NTRS)

Todling, R.; El Akkraoui, A.; Errico, R. M.; Guo, J.; Kim, J.; Kliest, D.; Parrish, D. F.; Suarez, M.; Trayanov, A.; Tremolet, Yannick;

Dst Index in the 2008 GEM Modeling Challenge - Model Performance for Moderate and Strong Magnetic Storms

NASA Technical Reports Server (NTRS)

Rastaetter, Lutz; Kuznetsova, Maria; Hesse, Michael; Chulaki, Anna; Pulkkinen, Antti; Ridley, Aaron J.; Gombosi, Tamas; Vapirev, Alexander; Raeder, Joachim; Wiltberger, Michael James;

Does GEM-Encoding Clinical Practice Guidelines Improve the Quality of Knowledge Bases? A Study with the Rule-Based Formalism

PubMed Central

Georg, Gersende; Séroussi, Brigitte; Bouaud, Jacques

2003-01-01

The aim of this work was to determine whether the GEM-encoding step could improve the representation of clinical practice guidelines as formalized knowledge bases. We used the 1999 Canadian recommendations for the management of hypertension, chosen as the knowledge source in the ASTI project. We first clarified semantic ambiguities of therapeutic sequences recommended in the guideline by proposing an interpretative framework of therapeutic strategies. Then, after a formalization step to standardize the terms used to characterize clinical situations, we created the GEM-encoded instance of the guideline. We developed a module for the automatic derivation of a rule base, BR-GEM, from the instance. BR-GEM was then compared to the rule base, BR-ASTI, embedded within the critic mode of ASTI, and manually built by two physicians from the same Canadian guideline. As compared to BR-ASTI, BR-GEM is more specific and covers more clinical situations. When evaluated on 10 patient cases, the GEM-based approach led to promising results. PMID:14728173

Data Analysis And Polarization Measurements With GEMS

NASA Technical Reports Server (NTRS)

Stohmayer, Tod

2011-01-01

The Gravity and Extreme Magnetism SMEX (GEMS) mission was selected by NASA for flight in 2014. GEMS will make the first sensitive survey of X-ray polarization across a wide range of source classes including black hole and neutron star binaries, AGN of different types, rotation and accretion-powered pulsars, magnetars, shell supernova remnants and pulsar wind nebulae. GEMS employs grazing-incidence foil mirrors and novel time-projection chamber (TPC) polarimeters leveraging the photoelectric effect. The GEMS detectors image the charge tracks of photoelectrons produced by 2 - 10 keV X-rays. The initial direction of the photoelectron is determined by the linear polarization of the photon. We present an overview of the data analysis challenges and methods for GEMS, including procedures for producing optimally filtered images of the charge tracks and estimating their initial directions. We illustrate our methods using laboratory measurements of polarized and unpolarized X-rays with flight-like detectors as well as from simulated tracks. We also present detailed simulations exploring the statistics of polarization measurements appropriate for GEMS, and make comparisons with previous work.

Microvesicle removal of anticancer drugs contributes to drug resistance in human pancreatic cancer cells

PubMed Central

Muralidharan-Chari, Vandhana; Kohan, Hamed Gilzad; Asimakopoulos, Alexandros G.; Sudha, Thangirala; Sell, Stewart; Kannan, Kurunthachalam; Boroujerdi, Mehdi; Davis, Paul J.; Mousa, Shaker A.

2016-01-01

High mortality in pancreatic cancer patients is partly due to resistance to chemotherapy. We describe that human pancreatic cancer cells acquire drug resistance by a novel mechanism in which they expel and remove chemotherapeutic drugs from the microenvironment via microvesicles (MVs). Using human pancreatic cancer cells that exhibit varied sensitivity to gemcitabine (GEM), we show that GEM exposure triggers the cancer cells to release MVs in an amount that correlates with that cell line's sensitivity to GEM. The importance of MV-release in gaining drug resistance in GEM-resistant pancreatic cancer cells was confirmed when the inhibition of MV-release sensitized the cells to GEM treatment, both in vitro and in vivo. Mechanistically, MVs remove drugs that are internalized into the cells and that are in the microenvironment. The differences between the drug-resistant and drug-sensitive pancreatic cancer cell lines tested here are explained based on the variable content of influx/efflux proteins present on MVs, which directly dictates the ability of MVs either to trap GEM or to allow GEM to flow back to the microenvironment. PMID:27391262

Integrating remotely sensed land cover observations and a biogeochemical model for estimating forest ecosystem carbon dynamics

USGS Publications Warehouse

Liu, J.; Liu, S.; Loveland, Thomas R.; Tieszen, L.L.

2008-01-01

Land cover change is one of the key driving forces for ecosystem carbon (C) dynamics. We present an approach for using sequential remotely sensed land cover observations and a biogeochemical model to estimate contemporary and future ecosystem carbon trends. We applied the General Ensemble Biogeochemical Modelling System (GEMS) for the Laurentian Plains and Hills ecoregion in the northeastern United States for the period of 1975-2025. The land cover changes, especially forest stand-replacing events, were detected on 30 randomly located 10-km by 10-km sample blocks, and were assimilated by GEMS for biogeochemical simulations. In GEMS, each unique combination of major controlling variables (including land cover change history) forms a geo-referenced simulation unit. For a forest simulation unit, a Monte Carlo process is used to determine forest type, forest age, forest biomass, and soil C, based on the Forest Inventory and Analysis (FIA) data and the U.S. General Soil Map (STATSGO) data. Ensemble simulations are performed for each simulation unit to incorporate input data uncertainty. Results show that on average forests of the Laurentian Plains and Hills ecoregion have been sequestrating 4.2 Tg C (1 teragram = 1012 gram) per year, including 1.9 Tg C removed from the ecosystem as the consequences of land cover change. ?? 2008 Elsevier B.V.

GEMS X-ray Polarimeter Performance Simulations

NASA Technical Reports Server (NTRS)

Baumgartner, Wayne H.; Strohmayer, Tod; Kallman, Tim; Black, J. Kevin; Hill, Joanne; Swank, Jean

2012-01-01

The Gravity and Extreme Magnetism Small explorer (GEMS) is an X-ray polarization telescope selected as a NASA small explorer satellite mission. The X-ray Polarimeter on GEMS uses a Time Projection Chamber gas proportional counter to measure the polarization of astrophysical X-rays in the 2-10 keV band by sensing the direction of the track of the primary photoelectron excited by the incident X-ray. We have simulated the expected sensitivity of the polarimeter to polarized X-rays. We use the simulation package Penelope to model the physics of the interaction of the initial photoelectron with the detector gas and to determine the distribution of charge deposited in the detector volume. We then model the charge diffusion in the detector,and produce simulated track images. Within the track reconstruction algorithm we apply cuts on the track shape and focus on the initial photoelectron direction in order to maximize the overall sensitivity of the instrument, using this technique we have predicted instrument modulation factors nu(sub 100) for 100% polarized X-rays ranging from 10% to over 60% across the 2-10 keV X-ray band. We also discuss the simulation program used to develop and model some of the algorithms used for triggering, and energy measurement of events in the polarimeter.

ISC-GEM: Global Instrumental Earthquake Catalogue (1900-2009), II. Location and seismicity patterns

NASA Astrophysics Data System (ADS)

Bondár, I.; Engdahl, E. Robert; Villaseñor, A.; Harris, James; Storchak, D.

2015-02-01

We present the final results of a two-year project sponsored by the Global Earthquake Model (GEM) Foundation. The ISC-GEM global catalogue consists of some 19 thousand instrumentally recorded, moderate to large earthquakes, spanning 110 years of seismicity. We relocated all events in the catalogue using a two-tier approach. The EHB location methodology (Engdahl et al., 1998) was applied first to obtain improved hypocentres with special focus on the depth determination. The locations were further refined in the next step by fixing the depths to those from the EHB analysis and applying the new International Seismological Centre (ISC) location algorithm (Bondár and Storchak, 2011) that reduces location bias by accounting for correlated travel-time prediction error structure. To facilitate the relocation effort, some one million seismic P and S wave arrival-time data were added to the ISC database for the period between 1904 and 1970, either from original station bulletins in the ISC archive or by digitizing the scanned images of the International Seismological Summary (ISS) bulletin (Villaseñor and Engdahl, 2005, 2007). Although no substantial amount of new phase data were acquired for the modern period (1964-2009), the number of phases used in the location has still increased by three millions, owing to fact that both the EHB and ISC locators use most well-recorded ak135 (Kennett et al., 1995) phases in the location. We show that the relocation effort yielded substantially improved locations, especially in the first half of the 20th century; we demonstrate significant improvements in focal depth estimates in subduction zones and other seismically active regions; and we show that the ISC-GEM catalogue provides an improved view of 110 years of global seismicity of the Earth. The ISC-GEM Global Instrumental Earthquake Catalogue represents the final product of one of the ten global components in the GEM program, and is available to researchers at the ISC (http://www.isc.ac.uk).

Atmospheric mercury in the Southern Hemisphere tropics: seasonal and diurnal variations and influence of inter-hemispheric transport

NASA Astrophysics Data System (ADS)

Howard, Dean; Nelson, Peter F.; Edwards, Grant C.; Morrison, Anthony L.; Fisher, Jenny A.; Ward, Jason; Harnwell, James; van der Schoot, Marcel; Atkinson, Brad; Chambers, Scott D.; Griffiths, Alan D.; Werczynski, Sylvester; Williams, Alastair G.

2017-09-01

Mercury is a toxic element of serious concern for human and environmental health. Understanding its natural cycling in the environment is an important goal towards assessing its impacts and the effectiveness of mitigation strategies. Due to the unique chemical and physical properties of mercury, the atmosphere is the dominant transport pathway for this heavy metal, with the consequence that regions far removed from sources can be impacted. However, there exists a dearth of long-term monitoring of atmospheric mercury, particularly in the tropics and Southern Hemisphere. This paper presents the first 2 years of gaseous elemental mercury (GEM) measurements taken at the Australian Tropical Atmospheric Research Station (ATARS) in northern Australia, as part of the Global Mercury Observation System (GMOS). Annual mean GEM concentrations determined at ATARS (0.95 ± 0.12 ng m-3) are consistent with recent observations at other sites in the Southern Hemisphere. Comparison with GEM data from other Australian monitoring sites suggests a concentration gradient that decreases with increasing latitude. Seasonal analysis shows that GEM concentrations at ATARS are significantly lower in the distinct wet monsoon season than in the dry season. This result provides insight into alterations of natural mercury cycling processes as a result of changes in atmospheric humidity, oceanic/terrestrial fetch, and convective mixing, and invites future investigation using wet mercury deposition measurements. Due to its location relative to the atmospheric equator, ATARS intermittently samples air originating from the Northern Hemisphere, allowing an opportunity to gain greater understanding of inter-hemispheric transport of mercury and other atmospheric species. Diurnal cycles of GEM at ATARS show distinct nocturnal depletion events that are attributed to dry deposition under stable boundary layer conditions. These cycles provide strong further evidence supportive of a multi-hop model of GEM cycling, characterised by multiple surface depositions and re-emissions, in addition to long-range transport through the atmosphere.

Numerical Representation of Wintertime Near-Surface Inversions in the Arctic with a 2.5-km Version of the Global Environmental Multiscale (GEM) Model

NASA Astrophysics Data System (ADS)

Dehghan, A.; Mariani, Z.; Gascon, G.; Bélair, S.; Milbrandt, J.; Joe, P. I.; Crawford, R.; Melo, S.

2017-12-01

Environment and Climate Change Canada (ECCC) is implementing a 2.5-km resolution version of the Global Environmental Multiscale (GEM) model over the Canadian Arctic. Radiosonde observations were used to evaluate the numerical representation of surface-based temperature inversion which is a major feature in the Arctic region. Arctic surface-based inversions are often created by imbalance between radiative cooling processes at surface and warm air advection above. This can have a significant effect on vertical mixing of pollutants and moisture, and ultimately, on cloud formation. It is therefore important to correctly predict the existence of surface inversions along with their characteristics (i.e., intensity and depth). Previous climatological studies showed that the frequency and intensity of surface-based inversions are larger during colder months in the Arctic. Therefore, surface-based inversions were estimated using radiosonde measurements during winter (December 2015 to February 2016) at Iqaluit (Nunavut, Canada). Results show that the inversion intensity can exceed 10 K with depths as large as 1 km. Preliminary evaluation of GEM outputs reveals that the model tends to underestimate the intensity of near-surface inversions, and in some cases, the model failed to predict an inversion. This study presents the factors contributing to this bias including surface temperature and snow cover.

16 CFR 23.25 - Misuse of the word “gem.”

Code of Federal Regulations, 2014 CFR

2014-01-01

... stones possess the necessary qualifications to properly be termed “gems.” Imitation diamonds and other imitation stones should not be described as “gems.” Not all diamonds or natural stones, including those...

16 CFR 23.25 - Misuse of the word “gem.”

Code of Federal Regulations, 2013 CFR

2013-01-01

... stones possess the necessary qualifications to properly be termed “gems.” Imitation diamonds and other imitation stones should not be described as “gems.” Not all diamonds or natural stones, including those...

16 CFR 23.25 - Misuse of the word “gem.”

Code of Federal Regulations, 2011 CFR

2011-01-01

... stones possess the necessary qualifications to properly be termed “gems.” Imitation diamonds and other imitation stones should not be described as “gems.” Not all diamonds or natural stones, including those...

16 CFR 23.25 - Misuse of the word “gem.”

Code of Federal Regulations, 2012 CFR

2012-01-01

... stones possess the necessary qualifications to properly be termed “gems.” Imitation diamonds and other imitation stones should not be described as “gems.” Not all diamonds or natural stones, including those...

Gravitational induction

NASA Astrophysics Data System (ADS)

Bini, Donato; Cherubini, Christian; Chicone, Carmen; Mashhoon, Bahram

2008-11-01

We study the linear post-Newtonian approximation to general relativity known as gravitoelectromagnetism (GEM); in particular, we examine the similarities and differences between GEM and electrodynamics. Notwithstanding some significant differences between them, we find that a special nonstationary metric in GEM can be employed to show explicitly that it is possible to introduce gravitational induction within GEM in close analogy with Faraday's law of induction and Lenz's law in electrodynamics. Some of the physical implications of gravitational induction are briefly discussed.

Emissions of mercury in southern Africa derived from long-term observations at Cape Point, South Africa

NASA Astrophysics Data System (ADS)

Brunke, E.-G.; Ebinghaus, R.; Kock, H. H.; Labuschagne, C.; Slemr, F.

2012-08-01

Mercury emissions in South Africa have so far been estimated only by a bottom-up approach from activities and emission factors for different processes. In this paper we derive GEM/CO (GEM being gaseous elemental mercury, Hg0), GEM/CO2, GEM/CH4, CO/CO2, CH4/CO2, and CH4/CO emission ratios from plumes observed during long-term monitoring of these species at Cape Point between March 2007 and December 2009. The average observed GEM/CO, GEM/CO2, GEM/CH4, CO/CO2, CH4/CO2, and CH4/CO emission ratios were 2.40 ± 2.65 pg m-3 ppb-1 (n = 47), 62.7 ± 80.2 pg m-3 ppm-1 (n = 44), 3.61 ± 4.66 pg m-3 ppb-1 (n = 46), 35.6 ± 25.4 ppb ppm-1 (n = 52), 20.2 ± 15.5 ppb ppm-1 (n = 48), and 0.876 ± 1.106 ppb ppb-1 (n = 42), respectively. The observed CO/CO2, CH4/CO2, and CH4/CO emission ratios agree within the combined uncertainties of the observations and emissions with the ratios calculated from EDGAR (version 4.2) CO2, CO, and CH4 inventories for South Africa and southern Africa (South Africa, Lesotho, Swaziland, Namibia, Botswana, Zimbabwe, and Mozambique) in 2007 and 2008 (inventories for 2009 are not available yet). Total elemental mercury emission of 13.1, 15.2, and 16.1 t Hg yr-1 are estimated independently using the GEM/CO, GEM/CO2, and GEM/CH4 emission ratios and the annual mean CO, CO2, and CH4 emissions, respectively, of South Africa in 2007 and 2008. The average of these independent estimates of 14.8 t GEM yr-1 is much less than the total emission of 257 t Hg yr-1 shown by older inventories which are now considered to be wrong. Considering the uncertainties of our emission estimate, of the emission inventories, and the fact that emission of GEM represents 50-78 % of all mercury emissions, our estimate is comparable to the currently cited GEM emissions in 2004 and somewhat smaller than emissions in 2006. A further increase of mercury emissions due to increasing electricity consumption will lead to a more pronounced difference. A quantitative assessment of the difference and its significance, however, will require emission inventories for the years of observations (2007-2009) as well as better data on the speciation of the total mercury emissions in South Africa.

Time-resolved Spectroscopy of RS CVn Binaries and dMe Flare Stars

NASA Astrophysics Data System (ADS)

Brown, Alexander

One of the most striking feature of the first two years of EUVE spectroscopy is the frequent occurrence of largescale coronal variability, in the form of stellar flares and slower changes in activity level due to rotational modulation and evolution of active regions. We propose EUVE observations of a set of RS CVn and dMe star binaries, most with short (< 2 days) periods, to investigate the coronal conditions and physical processes associated with this variability. EUVE flare outbursts have mostly been long duration events lasting many satellite orbits and been readily studied using time-resolved spectroscopy. Our targets are the dMe binaries YY Gem, CC Eri and Gliese 2123, and the RS CVn systems EI Eri, AR Psc, and TY Pyx. YY Gem and TY Pyx are eclipsing systems and Deep Survey photometry will be used to investigate the size of the coronal emitting regions. Situated 73 arcmin from YY Gem is Castor (Alpha Gem) another X-ray source that can be observed (and spatially resolved) simultaneously. We shall use the DS lightcurve to guide our time resolved spectral analysis. Changes in the coronal emission measure as a function of temperature and possibly changes in coronal density will be used to constrain magnetic loop models.

Vertical structure of aerosol distribution and radiative properties over Svalbard - observations and modelling

NASA Astrophysics Data System (ADS)

Kaminski, Jacek W.; Struzewska, Joanna; Markowicz, Krzysztof; Jefimow, Maciej

2015-04-01

In the scope of the iAREA projects (Impact of absorbing aerosols on radiative forcing in the European Arctic - http://www.igf.fuw.edu.pl/iAREA) a field campaign was undertaken in March and April 2014 on Spitzbergen. Analysis of measurements was supported by the GEM-AQ model simulations. The GEM-AQ model is a chemical weather model. The core of the model is based on a weather prediction model with environmental processes (chemistry and aerosols) implanted on-line and are interactive (i.e. providing feedback of chemistry on radiation and dynamics). Numerical experiments were performed with the computational grid resolution of ˜15 km. The emission inventory developed by NILU in the ECLIPSE project was used. Preliminary analysis revealed small but systematic overestimation of modelled AOD and background BC levels. We will present the analysis of the vertical distribution of different aerosol species and its contribution to AOD for two stations on Svalbard. Also, changes of modelled chemical composition of aerosols with altitude will be analyzed.

Performance of GEM Detectors in the DarkLight Experiment at LERF

NASA Astrophysics Data System (ADS)

Mohammed Prem Nazeer, Sahara Jesmin; DarkLight Collaboration

2017-01-01

The DarkLight experiment has been proposed to search for a heavy photon A' in the mass range of 10-100 MeV/c2 produced in electron-proton collisions. Phase-I of DarkLight has started to take place in 2016 at the Low Energy Recirculator Facility (LERF) at Jefferson Lab. LERF delivered a 100 MeV electron beam onto a windowless hydrogen gas target. The phase-I detector tracks leptons inside the DarkLight solenoid with a set of Gas Electron Multiplier (GEM) detectors, combined with segmented scintillators for triggering. The GEM telescope consists of four 10 × 10 cm2 triple layer GEM chambers with 2D readout strips, mounted in a slightly angled fixed frame about 12 cm tall. The GEM data are read out with analog pipeline front-end cards (APV-25) each of which can process 128 readout channels. Each GEM chamber has 250 channels for each coordinate axis, read out with two APVs on each side, resulting in 2000 readout channels for the GEM stack, processed by 16 APVs. One Multi Purpose Digitizer (MPD) module is used to read out all of the 16 APV-25 cards. The current run status of DarkLight experiment and the performance of GEMs in the experiment will be discussed. This work has been supported by NSF PHY-1436680 and PHY-1505934.

Self-Delivery Nanoparticles of Amphiphilic Methotrexate-Gemcitabine Prodrug for Synergistic Combination Chemotherapy via Effect of Deoxyribonucleotide Pools.

PubMed

Wang, Yao; Huang, Ping; Hu, Minxi; Huang, Wei; Zhu, Xinyuan; Yan, Deyue

2016-11-16

The distinct and complementary biochemical mechanisms of folic acid analog methotrexate (MTX) and cytidine analog gemcitabine (GEM) make their synergistic combination effective. Unfortunately, such a combination faces severe pharmacokinetic problems and several transportation barriers. To overcome these problems, a new strategy of amphiphilic small molecule prodrug (ASMP) is developed to improve their synergistic combination effect. The ASMP was prepared by the amidation of the hydrophilic GEM with the hydrophobic MTX at a fixed ratio. Owing to its inherent amphiphilicity, the MTX-GEM ASMP self-assembled into stable nanoparticles (ASMP-NPs) with high drug loading capacity (100%), in which the MTX and GEM could self-deliver without any carriers and release synchronously in cancer cells. In vitro studies showed that the MTX-GEM ASMP-NPs could greatly improve the synergistic combination effects by the reason of arresting more S phase of the cell cycle and reducing levels of deoxythymidine triphosphate (dTTP), deoxyadenosine triphosphate (dATP), and deoxycytidine triphosphate (dCTP). The stronger synergistic effects caused the higher cell cytotoxicity and apoptotic ratio, and circumvented the multidrug resistance (MDR) of tumor cells. Additionally, MTX-GEM ASMP-NPs could achieve the same anticancer effect with the greatly reduced dosage compared with the free drugs according to the dose-reduction index (DRI) values of MTX and GEM in MTX-GEM ASMP-NPs, which may be beneficial for reducing the side effects.

Gaseous elemental mercury (GEM) fluxes over canopy of two typical subtropical forests in south China

NASA Astrophysics Data System (ADS)

Yu, Qian; Luo, Yao; Wang, Shuxiao; Wang, Zhiqi; Hao, Jiming; Duan, Lei

2018-01-01

Mercury (Hg) exchange between forests and the atmosphere plays an important role in global Hg cycling. The present estimate of global emission of Hg from natural source has large uncertainty, partly due to the lack of chronical and valid field data, particularly for terrestrial surfaces in China, the most important contributor to global atmospheric Hg. In this study, the micrometeorological method (MM) was used to continuously observe gaseous elemental mercury (GEM) fluxes over forest canopy at a mildly polluted site (Qianyanzhou, QYZ) and a moderately polluted site (Huitong, HT, near a large Hg mine) in subtropical south China for a full year from January to December in 2014. The GEM flux measurements over forest canopy in QYZ and HT showed net emission with annual average values of 6.67 and 0.30 ng m-2 h-1, respectively. Daily variations of GEM fluxes showed an increasing emission with the increasing air temperature and solar radiation in the daytime to a peak at 13:00, and decreasing emission thereafter, even as a GEM sink or balance at night. High temperature and low air Hg concentration resulted in the high Hg emission in summer. Low temperature in winter and Hg absorption by plant in spring resulted in low Hg emission, or even adsorption in the two seasons. GEM fluxes were positively correlated with air temperature, soil temperature, wind speed, and solar radiation, while it is negatively correlated with air humidity and atmospheric GEM concentration. The lower emission fluxes of GEM at the moderately polluted site (HT) when compared with that in the mildly polluted site (QYZ) may result from a much higher adsorption fluxes at night in spite of a similar or higher emission fluxes during daytime. This shows that the higher atmospheric GEM concentration at HT restricted the forest GEM emission. Great attention should be paid to forests as a crucial increasing Hg emission source with the decreasing atmospheric GEM concentration in polluted areas because of Hg emission abatement in the future.

Limitations and opportunities of whole blood bilirubin measurements by GEM premier 4000®.

PubMed

Wang, Li; Albert, Arianne Y K; Jung, Benjamin; Hadad, Keyvan; Lyon, Martha E; Basso, Melanie

2017-03-29

Neonatal hyperbilirubinemia has traditionally been screened by either total serum bilirubin or transcutaneous bilirubin. Whole blood bilirubin (TwB) by the GEM Premier 4000® blood gas analyzer (GEM) is a relatively new technology and it provides fast bilirubin results with a small sample volume and can measure co-oximetry and other analytes. Our clinical study was to evaluate the reliability of TwB measured by the GEM and identify analytical and clinical factors that may contribute to possible bias. 440 consecutive healthy newborn samples that had plasma bilirubin ordered for neonatal hyperbilirubinemia screening were included. TwB was first measured using the GEM, after which the remainder of the blood was spun and plasma neonatal bilirubin was measured using the VITROS 5600® (VITROS). 62 samples (14%) were excluded from analysis due to failure in obtaining GEM results. Passing-Bablok regression suggested that the GEM results were negatively biased at low concentrations of bilirubin and positively biased at higher concentrations relative to the VITROS results (y = 1.43x-61.13). Bland-Altman plots showed an overall negative bias of the GEM bilirubin with a wide range of differences compared to VITROS. Both hemoglobin concentration and hemolysis affected the accuracy of the GEM results. Clinically, male infants had higher mean bilirubin levels, and infants delivered by caesarean section had lower hemoglobin levels. When comparing the number of results below the 40th percentile and above the 95th percentile cut-offs in the Bhutani nomogram which would trigger discharge or treatment, GEM bilirubin exhibited poor sensitivity and poor specificity in contrast to VITROS bilirubin. An imperfect correlation was observed between whole blood bilirubin measured on the GEM4000® and plasma bilirubin on the VITROS 5600®. The contributors to the observed differences between the two instruments were specimen hemolysis and the accuracy of hemoglobin measurements, the latter of which affects the calculation of plasma-equivalent bilirubin. Additionally, the lack of standardization of total bilirubin calibration particularly in newborn specimens, may also account for some of the disagreement in results.

The development and evaluation of mini-GEMs - short, focused, online e-learning videos in geriatric medicine.

PubMed

Garside, Mark J; Fisher, James M; Blundell, Adrian G; Gordon, Adam L

2018-01-01

Mini Geriatric E-Learning Modules (Mini-GEMs) are short, focused, e-learning videos on geriatric medicine topics, hosted on YouTube, which are targeted at junior doctors working with older people. This study aimed to explore how these resources are accessed and used. The authors analyzed the viewing data from 22 videos published over the first 18 months of the Mini-GEM project. We conducted a focus group of U.K. junior doctors considering their experiences with Mini-GEMS. The Mini-GEMs were viewed 10,291 times over 18 months, equating to 38,435 minutes of total viewing time. The average viewing time for each video was 3.85 minutes. Learners valued the brevity and focused nature of the Mini-GEMs and reported that they watched them in a variety of settings to supplement clinical experiences and consolidate learning. Watching the videos led to an increase in self-reported confidence in managing older patients. Mini-GEMs can effectively disseminate clinical teaching material to a wide audience. The videos are valued by junior doctors due to their accessibility and ease of use.

GEM-CEDAR Study of Ionospheric Energy Input and Joule Dissipation

NASA Technical Reports Server (NTRS)

Rastaetter, Lutz; Kuznetsova, Maria M.; Shim, Jasoon

2012-01-01

We are studying ionospheric model performance for six events selected for the GEM-CEDAR modeling challenge. DMSP measurements of electric and magnetic fields are converted into Poynting Flux values that estimate the energy input into the ionosphere. Models generate rates of ionospheric Joule dissipation that are compared to the energy influx. Models include the ionosphere models CTIPe and Weimer and the ionospheric electrodynamic outputs of global magnetosphere models SWMF, LFM, and OpenGGCM. This study evaluates the model performance in terms of overall balance between energy influx and dissipation and tests the assumption that Joule dissipation occurs locally where electromagnetic energy flux enters the ionosphere. We present results in terms of skill scores now commonly used in metrics and validation studies and we can measure the agreement in terms of temporal and spatial distribution of dissipation (i.e, location of auroral activity) along passes of the DMSP satellite with the passes' proximity to the magnetic pole and solar wind activity level.

Method and apparatus for detecting gem-polyhalogenated hydrocarbons

DOEpatents

Anderson, deceased, William G.; Anderson, legal representative, Johanna S.

1990-01-01

A method and optrode for detecting gem polyhalogenated hydrocarbons in a sample fluid based on a single phase Fujiwara reaction as provided. The method comprises contacting a reaction mixture with a sample fluid which contains the gem-polyhalogenated hydrocarbons. The reaction mixture comprises an aqueous solution of pyridine or derivative thereof and a hindered nitrogen base. Upon contact a fluorescent and/or chromgenic reaction product forms whose fluorescence and/or absorbance is related to the concentration of gem-polyhalogenated hydrocarbons in the sample fluid.

High Yield Production and Radiochemical Isolation of Isotopically Pure Arsenic-72 and Novel Radioarsenic Labeling Strategies for the Development of Theranostic Radiopharmaceuticals.

PubMed

Ellison, Paul A; Barnhart, Todd E; Chen, Feng; Hong, Hao; Zhang, Yin; Theuer, Charles P; Cai, Weibo; Nickles, Robert J; DeJesus, Onofre T

2016-01-20

Radioisotopes of arsenic are of considerable interest to the field of nuclear medicine with unique nuclear and chemical properties making them well-suited for use in novel theranostic radiopharmaceuticals. However, progress must still be made in the production of isotopically pure radioarsenic and in its stable conjugation to biological targeting vectors. This work presents the production and irradiation of isotopically enriched (72)Ge(m) discs in an irrigation-cooled target system allowing for the production of isotopically pure (72)As with capability on the order of 10 GBq. A radiochemical separation procedure isolated the reactive trivalent radioarsenic in a small volume buffered aqueous solution, while reclaiming (72)Ge target material. The direct thiol-labeling of a monoclonal antibody resulted in a conjugate exhibiting exceptionally poor in vivo stability in a mouse model. This prompted further investigations to alternative radioarsenic labeling strategies, including the labeling of the dithiol-containing chelator dihydrolipoic acid, and thiol-modified mesoporous silica nanoparticles (MSN-SH). Radioarsenic-labeled MSN-SH showed exceptional in vivo stability toward dearsenylation.

High Yield Production and Radiochemical Isolation of Isotopically Pure Arsenic-72 and Novel Radioarsenic Labeling Strategies for the Development of Theranostic Radiopharmaceuticals

PubMed Central

Ellison, Paul A.; Barnhart, Todd E.; Chen, Feng; Hong, Hao; Zhang, Yin; Theuer, Charles P.; Cai, Weibo; Nickles, Robert J.; DeJesus, Onofre T.

2016-01-01

Radioisotopes of arsenic are of considerable interest to the field of nuclear medicine with unique nuclear and chemical properties making them well-suited for use in novel theranostic radiopharmaceuticals. However, progress must still be made in the production of isotopically pure radioarsenic and in its stable conjugation to biological targeting vectors. This work presents the production and irradiation of isotopically enriched 72Ge(m) discs in an irrigation-cooled target system allowing for the production of isotopically pure 72As with capability on the order of 10 GBq. A radiochemical separation procedure isolated the reactive trivalent radioarsenic in a small volume buffered aqueous solution, while reclaiming 72Ge target material. The direct thiol-labeling of a monoclonal antibody resulted in a conjugate exhibiting exceptionally poor in vivo stability in a mouse model. This prompted further investigations to alternative radioarsenic labeling strategies, including the labeling of the dithiol-containing chelator dihydrolipoic acid, and thiol-modified mesoporous silica nanoparticles (MSN-SH). Radioarsenic-labeled MSN-SH showed exceptional in vivo stability toward dearsenylation. PMID:26646989

USERS MANUAL: LANDFILL GAS EMISSIONS MODEL - VERSION 2.0

EPA Science Inventory

The document is a user's guide for a computer model, Version 2.0 of the Landfill Gas Emissions Model (LandGEM), for estimating air pollution emissions from municipal solid waste (MSW) landfills. The model can be used to estimate emission rates for methane, carbon dioxide, nonmet...

Two new sources of reactive gaseous mercury in the free troposphere

NASA Astrophysics Data System (ADS)

Timonen, H.; Ambrose, J. L.; Jaffe, D. A.

2012-11-01

Mercury (Hg) is a neurotoxin that bioaccumulates in the food chain. Mercury is emitted to the atmosphere primarily in its elemental form, which has a long lifetime allowing global transport. It is known that atmospheric oxidation of gaseous elemental mercury (GEM) generates reactive gaseous mercury (RGM) which plays an important role in the atmospheric mercury cycle by enhancing the rate of mercury deposition to ecosystems. However, the primary GEM oxidants, and the sources and chemical composition of RGM are poorly known. Using speciated mercury measurements conducted at the Mt. Bachelor Observatory since 2005 we present two previously unidentified sources of RGM to the free troposphere (FT). Firstly, we observed elevated RGM concentrations, large RGM/GEM-ratios, and anti-correlation between RGM and GEM during Asian long-rang transport events, demonstrating that RGM is formed from GEM by in-situ oxidation in some anthropogenic pollution plumes in the FT. During the Asian pollution events the measured RGM/GEM-ratios reached peak values, up to ~0.20, which are significantly larger than ratios typically measured (RGM/GEM < 0.05) in the Asian source region. Secondly, we observed very high RGM levels - the highest reported in the FT - in clean air masses that were processed upwind of Mt. Bachelor Observatory over the Pacific Ocean. The high RGM concentrations (up to 700 pg m-3), high RGM/GEM-ratios (up to 1), and very low ozone levels during these events provide the first observational evidence indicating significant GEM oxidation in the lower FT. The identification of these processes changes our conceptual understanding of the formation and distribution of oxidized Hg in the global atmosphere.

Modelling Active Faults in Probabilistic Seismic Hazard Analysis (PSHA) with OpenQuake: Definition, Design and Experience

NASA Astrophysics Data System (ADS)

Weatherill, Graeme; Garcia, Julio; Poggi, Valerio; Chen, Yen-Shin; Pagani, Marco

2016-04-01

The Global Earthquake Model (GEM) has, since its inception in 2009, made many contributions to the practice of seismic hazard modeling in different regions of the globe. The OpenQuake-engine (hereafter referred to simply as OpenQuake), GEM's open-source software for calculation of earthquake hazard and risk, has found application in many countries, spanning a diversity of tectonic environments. GEM itself has produced a database of national and regional seismic hazard models, harmonizing into OpenQuake's own definition the varied seismogenic sources found therein. The characterization of active faults in probabilistic seismic hazard analysis (PSHA) is at the centre of this process, motivating many of the developments in OpenQuake and presenting hazard modellers with the challenge of reconciling seismological, geological and geodetic information for the different regions of the world. Faced with these challenges, and from the experience gained in the process of harmonizing existing models of seismic hazard, four critical issues are addressed. The challenge GEM has faced in the development of software is how to define a representation of an active fault (both in terms of geometry and earthquake behaviour) that is sufficiently flexible to adapt to different tectonic conditions and levels of data completeness. By exploring the different fault typologies supported by OpenQuake we illustrate how seismic hazard calculations can, and do, take into account complexities such as geometrical irregularity of faults in the prediction of ground motion, highlighting some of the potential pitfalls and inconsistencies that can arise. This exploration leads to the second main challenge in active fault modeling, what elements of the fault source model impact most upon the hazard at a site, and when does this matter? Through a series of sensitivity studies we show how different configurations of fault geometry, and the corresponding characterisation of near-fault phenomena (including hanging wall and directivity effects) within modern ground motion prediction equations, can have an influence on the seismic hazard at a site. Yet we also illustrate the conditions under which these effects may be partially tempered when considering the full uncertainty in rupture behaviour within the fault system. The third challenge is the development of efficient means for representing both aleatory and epistemic uncertainties from active fault models in PSHA. In implementing state-of-the-art seismic hazard models into OpenQuake, such as those recently undertaken in California and Japan, new modeling techniques are needed that redefine how we treat interdependence of ruptures within the model (such as mutual exclusivity), and the propagation of uncertainties emerging from geology. Finally, we illustrate how OpenQuake, and GEM's additional toolkits for model preparation, can be applied to address long-standing issues in active fault modeling in PSHA. These include constraining the seismogenic coupling of a fault and the partitioning of seismic moment between the active fault surfaces and the surrounding seismogenic crust. We illustrate some of the possible roles that geodesy can play in the process, but highlight where this may introduce new uncertainties and potential biases into the seismic hazard process, and how these can be addressed.

Estimating Fallout Building Attributes from Architectural Features and Global Earthquake Model (GEM) Building Descriptions

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dillon, Michael B.; Kane, Staci R.

A nuclear explosion has the potential to injure or kill tens to hundreds of thousands (or more) of people through exposure to fallout (external gamma) radiation. Existing buildings can protect their occupants (reducing fallout radiation exposures) by placing material and distance between fallout particles and individuals indoors. Prior efforts have determined an initial set of building attributes suitable to reasonably assess a given building’s protection against fallout radiation. The current work provides methods to determine the quantitative values for these attributes from (a) common architectural features and data and (b) buildings described using the Global Earthquake Model (GEM) taxonomy. Thesemore » methods will be used to improve estimates of fallout protection for operational US Department of Defense (DoD) and US Department of Energy (DOE) consequence assessment models.« less

COTHERM: Modelling fluid-rock interactions in Icelandic geothermal systems

NASA Astrophysics Data System (ADS)

Thien, Bruno; Kosakowski, Georg; Kulik, Dmitrii

2014-05-01

Mineralogical alteration of reservoir rocks, driven by fluid circulation in natural or enhanced geothermal systems, is likely to influence the long-term performance of geothermal power generation. A key factor is the change of porosity due to dissolution of primary minerals and precipitation of secondary phases. Porosity changes will affect fluid circulation and solute transport, which, in turn, influence mineralogical alteration. This study is part of the Sinergia COTHERM project (COmbined hydrological, geochemical and geophysical modeling of geotTHERMal systems) that is an integrative research project aimed at improving our understanding of the sub-surface processes in magmatically-driven natural geothermal systems. We model the mineralogical and porosity evolution of Icelandic geothermal systems with 1D and 2D reactive transport models. These geothermal systems are typically high enthalphy systems where a magmatic pluton is located at a few kilometers depth. The shallow plutons increase the geothermal gradient and trigger the circulation of hydrothermal waters with a steam cap forming at shallow depth. We investigate two contrasting geothermal systems: Krafla, for which the water recharge consists of meteoritic water; and Reykjanes, for which the water recharge mainly consists of seawater. The initial rock composition is a fresh basalt. We use the GEM-Selektor geochemical modeling package [1] for calculation of kinetically controlled mineral equilibria between the rock and the ingression water. We consider basalt minerals dissolution kinetics according to Palandri & Kharaka [2]. Reactive surface areas are assumed to be geometric surface areas, and are corrected using a spherical-particle surface/mass relationship. For secondary minerals, we consider the partial equilibrium assuming that the primary mineral dissolution is slow, and the secondary mineral precipitation is fast. Comparison of our modeling results with the mineralogical assemblages observed in the field by Gudmundsson & Arnorsson [3] and by Icelandic partners of the COTHERM project suggests that the concept of partial equilibrium with instantaneous precipitation of secondary minerals is not sufficient to satisfactorily describe the experimental data. Considering kinetic controls also for secondary minerals appears as indispensable to properly describe the geothermal system evolution using a reactive transport modelling approach [4]. [1] Kulik D.A., Wagner T., Dmytrieva S.V., Kosakowski G., Hingerl F.F., Chudnenko K.V., Berner U., 2013. GEM-Selektor geochemical modeling package: revised algorithm and GEMS3K numerical kernel for coupled simulation codes. Computational Geosciences 17, 1-24. http://gems.web.psi.ch. [2] Palandri, J.L., Kharaka, Y.K., 2004. A compilation of rate parameters of water-mineral interaction kinetics for application to geochemical modelling. U.S.Geological Survey, Menlo Park, CA, pp. 1-64. [3] Gudmundsson B.T., Arnorsson S., 2005. Secondary mineral-fluid equilibria in the Krafla and Namafjall geothermal systems, Iceland. Applied Geochememistry 20, 1607-1625. [4] Kosakowski, G., & Watanabe, N., 2013. OpenGeoSys-Gem: A numerical tool for calculating geochemical and porosity changes in saturated and partially saturated media. Physics and Chemistry of the Earth, Parts A/B/C. doi:10.1016/j.pce.2013.11.008

Development of Resistive Electrode Gas Electron Multiplier (RE-GEM)

NASA Technical Reports Server (NTRS)

Yoshikawa, A.; Tamagawa, T.; Iwahashi, T.; Asami, F.; Takeuchi, Y.; Hayato, A.; Hamagaki, H.; Gunji, T.; Akimoto, R.; Nukariya, A.;

Characterization of a hybrid GEM-Micromegas detector with respect to its application in a continuously read out TPC

NASA Astrophysics Data System (ADS)

Ratza, Viktor; Ball, Markus; Liebtrau, M.; Ketzer, Bernhard

2018-02-01

In the context of the upgrade of the LHC during the second long shutdown the interaction rate of the ALICE experiment will be increased up to 50 kHz for Pb-Pb collisions. As a consequence, a continuous read-out of the Time Projection Chamber (TPC) will be required. To keep the space-charge distortions at a manageable size, the ion backflow of the charge amplification system has to be significantly reduced. At the same time an excellent detector performance and stability of the system has to be maintained. A solution with four Gaseous Electron Multipliers (GEMs) has been adopted as baseline solution for the upgraded chambers. As an alternative approach a hybrid GEM-Micromegas detector consisting of one Micromegas (MM) and two GEMs has been investigated. The recent results of the study of the hybrid GEM-Micromegas detector will be presented and compared to measurements with four GEM foils.

Divergent Mechanistic Routes for the Formation of gem-Dimethyl Groups in the Biosynthesis of Complex Polyketides

DOE Office of Scientific and Technical Information (OSTI.GOV)

Poust, S; Phelan, RM; Deng, K

The gem-dimethyl groups in polyketide-derived natural products add steric bulk and, accordingly, lend increased stability to medicinal compounds, however, our ability to rationally incorporate this functional group in modified natural products is limited. In order to characterize the mechanism of gem-dimethyl group formation, with a goal toward engineering of novel compounds containing this moiety, the gem-dimethyl group producing polyketide synthase (PKS) modules of yersiniabactin and epothilone were characterized using mass spectrometry. The work demonstrated, contrary to the canonical understanding of reaction order in PKSs, that methylation can precede condensation in gem-dimethyl group producing PKS modules. Experiments showed that both PKSsmore » are able to use dimethylmalonyl acyl carrier protein (ACP) as an extender unit. Interestingly, for epothilone module8, use of dimethylmalonyl-ACP appeared to be the sole route to form a gem-dimethylated product, while the yersiniabactin PKS could methylate before or after ketosynthase condensation.« less

Contributions of natural and anthropogenic sources to ambient ammonia in the Athabasca Oil Sands and north-western Canada

NASA Astrophysics Data System (ADS)

Whaley, Cynthia H.; Makar, Paul A.; Shephard, Mark W.; Zhang, Leiming; Zhang, Junhua; Zheng, Qiong; Akingunola, Ayodeji; Wentworth, Gregory R.; Murphy, Jennifer G.; Kharol, Shailesh K.; Cady-Pereira, Karen E.

2018-02-01

Atmospheric ammonia (NH3) is a short-lived pollutant that plays an important role in aerosol chemistry and nitrogen deposition. Dominant NH3 emissions are from agriculture and forest fires, both of which are increasing globally. Even remote regions with relatively low ambient NH3 concentrations, such as northern Alberta and Saskatchewan in northern Canada, may be of interest because of industrial oil sands emissions and a sensitive ecological system. A previous attempt to model NH3 in the region showed a substantial negative bias compared to satellite and aircraft observations. Known missing sources of NH3 in the model were re-emission of NH3 from plants and soils (bidirectional flux) and forest fire emissions, but the relative impact of these sources on NH3 concentrations was unknown. Here we have used a research version of the high-resolution air quality forecasting model, GEM-MACH, to quantify the relative impacts of semi-natural (bidirectional flux of NH3 and forest fire emissions) and direct anthropogenic (oil sand operations, combustion of fossil fuels, and agriculture) sources on ammonia volume mixing ratios, both at the surface and aloft, with a focus on the Athabasca Oil Sands region during a measurement-intensive campaign in the summer of 2013. The addition of fires and bidirectional flux to GEM-MACH has improved the model bias, slope, and correlation coefficients relative to ground, aircraft, and satellite NH3 measurements significantly.By running the GEM-MACH-Bidi model in three configurations and calculating their differences, we find that averaged over Alberta and Saskatchewan during this time period an average of 23.1 % of surface NH3 came from direct anthropogenic sources, 56.6 % (or 1.24 ppbv) from bidirectional flux (re-emission from plants and soils), and 20.3 % (or 0.42 ppbv) from forest fires. In the NH3 total column, an average of 19.5 % came from direct anthropogenic sources, 50.0 % from bidirectional flux, and 30.5 % from forest fires. The addition of bidirectional flux and fire emissions caused the overall average net deposition of NHx across the domain to be increased by 24.5 %. Note that forest fires are very episodic and their contributions will vary significantly for different time periods and regions.This study is the first use of the bidirectional flux scheme in GEM-MACH, which could be generalized for other volatile or semi-volatile species. It is also the first time CrIS (Cross-track Infrared Sounder) satellite observations of NH3 have been used for model evaluation, and the first use of fire emissions in GEM-MACH at 2.5 km resolution.

Improving the Algae Bloom Prediction through the Assimilation of the Remotely Sensed Chlorophyll-A Data in a Generic Ecological Model in the North Sea

NASA Astrophysics Data System (ADS)

El Serafy, Ghada

2010-05-01

Harmful algae can cause damage to co-existing organisms, tourism and farmers. Accurate predictions of algal future composition and abundance as well as when and where algal blooms may occur could help early warning and mitigating. The Generic Ecological Model, GEM, [Blauw et al 2008] is an instrument that can be applied to any water system (fresh, transitional or coastal) to calculate the primary production, chlorophyll-a concentration and phytoplankton species composition. It consists of physical, chemical and ecological model components which are coupled together to build one generic and flexible modeling tool. For the North Sea, the model has been analyzed to assess sensitivity of the simulated chlorophyll-a concentration to a subset of ecologically significant set of factors. The research led to the definition of the most significant set of parameters to the algae blooming process in the North Sea [Salacinska et al 2009]. In order to improve the prediction of the model, the set of parameters and the chlorophyll-a concentration can be further estimated through the use of data assimilation. In this research, the Ensemble Kalman Filter (EnKF) data assimilation technique is used to assimilate the chlorophyll-a data of the North Sea, retrieved from MEdium Resolution Imaging Sensor (MERIS) spectrometer data [Peters et al 2005], in the GEM model. The chlorophyll-a data includes concentrations and error information that enable their use in data assimilation. For the same purpose, the uncertainty of the ecological generic model, GEM has been quantified by means of Monte Carlo approach. Through a study covering the year of 2003, the research demonstrates that both data and model are sufficiently robust for a successful assimilation. The results show that through the assimilation of the satellite data, a better description of the algae bloom has been achieved and an improvement of the capability of the model to predict the algae bloom for the North Sea has been confirmed. Blauw A.N., Los F.J., Bokhorst M., Erftemeijer P.L.A., (2009), GEM: a Generic Ecological Model for estuaries and coastal waters. Journal of Hydrobiologia, Volume 618, Number 1, 175-198. Peters, S.W.M., Eleveld, M. Pasterkamp, R., Woerd, H. van der, Devolder, M., Jans, S., Park, Y., Ruddick, K., Block, T., Brockmann, C., Doerffer, R., Krasemann, H., Röttgers, R., Schönfeld, W., Jørgensen, P.V., Tilstone, G., Martinez-Vicente, V., Moore, G., Sørensen, K., Høkedal, J., Johnsen, T.M., Lømsland, E.R., Aas, E. (2005). Atlas of Chlorophyll-a concentration for the North Sea based on MERIS imagery of 2003. IVM report, Vrije Universiteit Amsterdam, 117 pp. ISBN 90-5192-026-1. Salacinska K., El Serafy G.Y., Blauw A., Los F.J., (2009) Sensitivity analysis of the two dimensional application of the Generic Ecological Model (GEM) to algal bloom prediction in the North Sea, Journal of Ecological Modeling, volume 221, 7, pp 178-190, DOI: 10.1016/j.ecolmodel.2009.10.001

The Effects of HSP27 on Gemcitabine-Resistant Pancreatic Cancer Cell Line Through Snail.

PubMed

Zhang, Song; Zhang, Xiao-qi; Huang, Shu-ling; Chen, Min; Shen, Shan-shan; Ding, Xi-wei; Lv, Ying; Zou, Xiao-ping

2015-10-01

To evaluate the regulation mechanism of heat shock protein 27 (HSP27) on gemcitabine (GEM) resistance of pancreatic cancer cell. The expression vectors pEGFP-C1-HSP27 and the vectors of MicroRNA targeting Snail were introduced into GEM-sensitive pancreatic cancer SW1990 cells, and the vectors of small hairpin RNA targeting HSP27 were transfected into SW1990 and GEM-resistant SW1990/GEM cells. The expressions of HSP27, p-HSP27 (Ser82), Snail, ERCC1, and E-cadherin were evaluated by Western blotting. The sensitivity of transfected cells to GEM was detected by CCK-8 assay and Annexin V-FITC apoptosis assay. As compared to SW1990, SW1990/GEM showed significantly increased expressions of HSP27, p-HSP27, Snail and ERCC1 with decreased expression of E-cadherin. By increasing HSP27 expression, we found increase of Snail and ERCC1 with reduction of E-cadherin expressions, while reduction of HSP27 expression caused reduction of Snail and ERCC1 but increase of E-cadherin expressions. Downregulation of Snail resulted in the reduction of ERCC1 expression and increase of E-cadherin. Furthermore, downregulation of HSP27 or snail caused increased GEM sensitivity of pancreatic cancer cells, and upregulation of HSP27 showed the opposite results. There is an inverse correlation between HSP27 expression and GEM sensitivity of SW1990 cells, which might be realized by regulating E-cadherin and ERCC1 expressions through Snail.

Spatial analysis of future East Asian seasonal temperature using two regional climate model simulations

NASA Astrophysics Data System (ADS)

Kim, Yura; Jun, Mikyoung; Min, Seung-Ki; Suh, Myoung-Seok; Kang, Hyun-Suk

2016-05-01

CORDEX-East Asia, a branch of the coordinated regional climate downscaling experiment (CORDEX) initiative, provides high-resolution climate simulations for the domain covering East Asia. This study analyzes temperature data from regional climate models (RCMs) participating in the CORDEX - East Asia region, accounting for the spatial dependence structure of the data. In particular, we assess similarities and dissimilarities of the outputs from two RCMs, HadGEM3-RA and RegCM4, over the region and over time. A Bayesian functional analysis of variance (ANOVA) approach is used to simultaneously model the temperature patterns from the two RCMs for the current and future climate. We exploit nonstationary spatial models to handle the spatial dependence structure of the temperature variable, which depends heavily on latitude and altitude. For a seasonal comparison, we examine changes in the winter temperature in addition to the summer temperature data. We find that the temperature increase projected by RegCM4 tends to be smaller than the projection of HadGEM3-RA for summers, and that the future warming projected by HadGEM3-RA tends to be weaker for winters. Also, the results show that there will be a warming of 1-3°C over the region in 45 years. More specifically, the warming pattern clearly depends on the latitude, with greater temperature increases in higher latitude areas, which implies that warming may be more severe in the northern part of the domain.

The Ozone Layer. UNEP/GEMS Environment Library No. 2.

ERIC Educational Resources Information Center

United Nations Environment Programme, Nairobi (Kenya).

Since the United Nations Environment Program (UNEP) was created, more than a dozen years ago, public understanding of the environmental issues confronting our planet has increased enormously. The Global Environment Monitoring System (GEMS) has provided several environmental assessments. The aim of the UNEP/GEMS Environment Library is to provide…

Imaging Demonstration of a Glass Gas Electron Multiplier with Electronic Charge Readout

NASA Astrophysics Data System (ADS)

Mitsuya, Yuki; Thuiner, Patrik; Oliveri, Eraldo; Resnati, Filippo; Stenis, Miranda van; Fujiwara, Takeshi; Takahashi, Hiroyuki; Ropelewski, Leszek

2018-02-01

We have developed a Glass Gas Electron Multiplier (Glass GEM, G-GEM), which is composed of two copper electrodes separated by a photosensitive etchable glass substrate having holes arranged in a hexagonal pattern. In this paper, we report the result of imaging using a G-GEM combined with a 2D electronic charge readout. We used a crystallized photosensitive etchable glass as the G-GEM substrate. A precise X-ray image of a small mammal was successfully obtained with position resolutions of approximately 110 to 140 μm in RMS.

Discriminating cosmic muons and X-rays based on rise time using a GEM detector

NASA Astrophysics Data System (ADS)

Wu, Hui-Yin; Zhao, Sheng-Ying; Wang, Xiao-Dong; Zhang, Xian-Ming; Qi, Hui-Rong; Zhang, Wei; Wu, Ke-Yan; Hu, Bi-Tao; Zhang, Yi

2016-08-01

Gas electron multiplier (GEM) detectors have been used in cosmic muon scattering tomography and neutron imaging over the last decade. In this work, a triple GEM device with an effective readout area of 10 cm × 10 cm is developed, and a method of discriminating between cosmic muons and X-rays based on rise time is tested. The energy resolution of the GEM detector is tested by 55Fe ray source to prove the GEM detector has a good performance. Analysis of the complete signal-cycles allows us to get the rise time and pulse heights. The experiment result indicates that cosmic muons and X-rays can be discriminated with an appropriate rise time threshold. Supported by National Natural Science Foundation of China (11135002, 11275235, 11405077, 11575073)

Measurement Of Gas Electron Multiplier (GEM) Detector Characteristics

NASA Astrophysics Data System (ADS)

Park, Seongtae; Baldelomar, Edwin; Park, Kwangjune; Sosebee, Mark; White, Andy; Yu, Jaehoon

2011-06-01

The High Energy Physics group of the University of Texas at Arlington has been developing gas electron multiplier detectors to use them as sensitive gap detectors in digital hadron calorimeters for the International Linear Collider, a future high energy particle accelerator. For this purpose, we constructed numerous GEM detectors that employ double GEM layers. In this study, two kinds of prototype GEM detectors were tested; one with 28×28 cm2 active area double GEM structure with a 3 mm drift gap, a 1 mm transfer gap and a 1 mm induction gap and the other with two 3×3 cm2 GEM foils in the amplifier stage with a 5 mm drift gap, a 2 mm transfer gap and a 1 mm induction gap. The detectors' characteristics from exposure to high-energy charged particles and other radiations were measured using cosmic rays and 55Fe radioactive source. From the 55Fe tests, we observed two well separated characteristic X-ray emission peaks and confirmed the detectors' functionality. We also measured chamber gains to be over 6000 at a high voltage of 395 V across each GEM electrode. The responses to cosmic rays show the spectra that fit well to Landau distributions as expected from minimum ionizing particles.

Performance Evaluation of the COBRA GEM for the Application of the TPC

NASA Astrophysics Data System (ADS)

Terasaki, Kohei; Hamagaki, Hideki; Gunji, Taku; Yamaguchi, Yorito

2014-09-01

Suppression of the back-drifting ions from avalanche region to drift space (IBF: Ion Backflow) is the key for a Time Projection Chamber (TPC) since IBF easily distorts the drift field. To suppress IBF, Gating Grid system is widely used for the TPC but this limits the data taking rate. Gas Electron Multiplier (GEM) has advantages in the reduction of IBF and high rate capability. By adopting GEM, it is possible to run a TPC continuously under high rate and high multiplicity conditions. Motivated by the study of IBF reduction for RICH with Thick COBRA, which has been developed by F. A. Amero et al., we developed COBRA GEMs for the application of a TPC. With a stack configuration, IBF reaches about 0.1 ~ 0.5%, which is ×5--10 better IBF than the standard GEMs. However, the measured energy resolution with COBRA is 20% (σ) and this is much worse than the resolution with standard GEMs. Measurement of long-time stability of gain indicates that gain of COBRA varies significantly due to charging up effect. Simulation studies based on Garfield++ are performed for understanding quantitatively the reasons of worse energy resolution and instability of gain. In this presentation, we will report the simulation studies together with the measured performance of the COBRA GEM.

Activity of convective coupled equatorial wave in tropical Tropopause layer in reanalysis and high-top CMIP5 models

NASA Astrophysics Data System (ADS)

Harza, Alia; Lubis, Sandro W.; Setiawan, Sonni

2018-05-01

The activity of convectively coupled equatorial waves (CCEWs), including Kelvin waves, Mixed Rossby-Gravity (MRG), and Equatorial Rossby (ER), in the tropical tropopause layer (TTL) is investigated in the Reanalysis and nine high-top CMIP5 models using the zonal wave number-frequency spectral analysis with equatorially symmetric-antisymmetric decomposition. We found that the TTL activities in the high-top CMIP5 models show significant difference among the high-top CMIP5 models with respect to the observation. The MIROC and HadGEM2-CC models work best in simulating Kelvin wave in the TTL, while the HadGEM2-CC and MPI-ESM-LR models work best in simulating MRG waves. The ER waves in TTL are best simulated in the MRI-CGCM model. None of the models are good in simulating all waves at once. It is concluded that the broad range of wave activity found in the different CMIP5 models depend on the convective parameterization used by each model and the representation of the tropical stratosphere variability, including the QBO.

Ground and Helicopter Emergency Medical Services Time Tradeoffs Assessed with Geographic Information.

PubMed

Widener, Michael J; Ginsberg, Zac; Schleith, Daniel; Floccare, Douglas J; Hirshon, Jon Mark; Galvagno, Samuel

2015-07-01

We describe how geographic information systems (GIS) can be used to assess and compare estimated transport time for helicopter and ground emergency medical services. Recent research shows that while the odds of a trauma patient's survival increase with helicopter emergency medical services (HEMS), they may not increase to the extent necessary to make HEMS cost effective. This study offers an analytic tool to objectively quantify the patient travel time advantage that HEMS offers compared to ground emergency medical services (GEMS). Using helicopter dispatch data from the Maryland State Police from 2000-2011, we computed transport time estimates for HEMS and GEMS, compare these results to a reference transport time of 60 min, and use geospatial interpolation to extrapolate the total response times for each mode across the study region. Mapping the region's trauma incidents and modeling response times, our findings indicate the GIS framework for calculating transportation time tradeoffs is useful in identifying which areas can be better served by HEMS or GEMS. The use of GIS and the analytical methodology described in this study present a method to compare transportation by air and ground in the prehospital setting that accounts for how mode, distance, and road infrastructure impact total transport time. Whether used to generate regional maps in advance or applied real-time, the presented framework provides a tool to identify earlier incident locations that favor HEMS over GEMS transport modes.

WW Geminorum: An Early B-type Eclipsing Binary Evolving into the Contact Phase

NASA Astrophysics Data System (ADS)

Yang, Y.-G.; Yang, Y.; Dai, H.-F.; Yin, X.-G.

2014-11-01

WW Gem is a B-type eclipsing binary with a period of 1.2378 days. The CCD photometry of this binary was performed in 2013 December using the 85 cm telescope at the Xinglong Stations of the National Astronomical Observatories of China. Using the updated W-D program, the photometric model was deduced from the VRI light curves. The results imply that WW Gem is a near-contact eclipsing binary whose primary component almost fills its Roche lobe. The photometric mass ratio is q ph = 0.48(± 0.05). All collected times of minimum light, including two new ones, were used for the period studies. The orbital period changes of WW Gem could be described by an upward parabola, possibly overlaid by a light-time orbit with a period of P mod = 7.41(± 0.04) yr and a semi-amplitude of A = 0.0079 days(± 0.0005 days), respectively. This kind of cyclic oscillation may be attributed to the light-travel time effect via the third body. The long-term period increases at a rate of dP/dt = +3.47(±0.04) × 10-8 day yr-1, which may be explained by the conserved mass transfer from the less massive component to the more massive one. With mass transfer, the massive binary WW Gem may be evolving into a contact binary.

Pre-accretional sorting of grains in the outer solar nebula

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wozniakiewicz, P. J.; Bradley, J. P.; Ishii, H. A.

2013-12-20

Despite their micrometer-scale dimensions and nanogram masses, chondritic porous interplanetary dust particles (CP IDPs) are an important class of extraterrestrial material since their properties are consistent with a cometary origin and they show no evidence of significant post-accretional parent body alteration. Consequently, they can provide information about grain accretion in the comet-forming region of the outer solar nebula. We have previously reported our comparative study of the sizes and size distributions of crystalline silicate and sulfide grains in CP IDPs, in which we found these components exhibit a size-density relationship consistent with having been sorted together prior to accretion. Heremore » we extend our data set and include GEMS (glass with embedded metal and sulfide), the most abundant amorphous silicate phase observed in CP IDPs. We find that while the silicate and sulfide sorting trend previously observed is maintained, the GEMS size data do not exhibit any clear relationship to these crystalline components. Therefore, GEMS do not appear to have been sorted with the silicate and sulfide crystals. The disparate sorting trends observed in GEMS and the crystalline grains in CP IDPs present an interesting challenge for modeling early transport and accretion processes. They may indicate that several sorting mechanisms operated on these CP IDP components, or alternatively, they may simply be a reflection of different source environments.« less

Observations and modelling of enhanced AOD at Spitsbergen - long-range transport of biomass burning emissions from Alaska fires in July 2015

NASA Astrophysics Data System (ADS)

Struzewska, Joanna; Kaminski, Jacek W.; Markowicz, Krzysztof; Lisok, Justyna

2017-04-01

In the scope of the IAREA project (http://www.igf.fuw.edu.pl/iAREA) several measurement campaigns were undertaken at Svalbard in order to assess the variability of absorbing aerosols in this region during spring and summertime 2014-2016. During the summer campaign of 2015 a significant increase of aerosol concentrations and AOD were observed at NyAlesund station from 9 to 15 of July. This episode was connected with the long range transport of smoke plum emitted from biomass burning at Alaska. A tropospheric chemistry model GEM-AQ (Global Environmental Multiscale Air Quality) was used to analyse the pathways and vertical distribution of the biomass burning aerosol observed over Svalbard. The core of the model is based on a weather prediction model with environmental processes (chemistry and aerosols) implanted on-line and are interactive (i.e. providing feedback of chemistry on radiation and dynamics). Aerosol module includes 5 size-resolved types of aerosols: sulphates, black carbon, organic carbon, sea salt and mineral dust. Aerosol mass is distributed into 12 logarithmically spaced bins. Anthropogenic emissions developed by NILU in the ECLIPSE project were used for this study. Biomass burning emissions were applied using daily GFAS fields obtained from the Copernicus Services. We will present the GEM-AQ model results and comparison with available measurement. The GEM-AQ model correctly reproduced the inflow of polluted air masses and sharp increase of AOD values. PM10 analysis showed elevated concentration values up to 700 hPa level, with the maximum reaching 35 ppb at 900 hPa. Model analysis showed over Svalbard shows transport of a thick layer with enhanced extinction above the planetary boundary layer.

Modeling dynamic exchange of gaseous elemental mercury at polar sunrise.

PubMed

Dastoor, Ashu P; Davignon, Didier; Theys, Nicolas; Van Roozendael, Michel; Steffen, Alexandra; Ariya, Parisa A

2008-07-15

At polar sunrise, gaseous elemental mercury (GEM) undergoes an exceptional dynamic exchange in the air and at the snow surface during which GEM can be rapidly removed from the atmosphere (the so-called atmospheric mercury depletion events (AMDEs)) as well as re-emitted from the snow within a few hours to days in the Polar Regions. Although high concentrations of total mercury in snow following AMDEs is well documented, there is very little data available on the redox transformation processes of mercury in the snow and the fluxes of mercury at the air/snow interface. Therefore, the net gain of mercury in the Polar Regions as a result of AMDEs is still an open question. We developed a new version of the global mercury model, GRAHM, which includes for the first time bidirectional surface exchange of GEM in Polar Regions in spring and summer by developing schemes for mercury halogen oxidation, deposition, and re-emission. Also for the first time, GOME satellite data-derived boundary layer concentrations of BrO have been used in a global mercury model for representation of halogen mercury chemistry. Comparison of model simulated and measured atmospheric concentrations of GEM at Alert, Canada, for 3 years (2002-2004) shows the model's capability in simulating the rapid cycling of mercury during and after AMDEs. Brooks et al. (1) measured mercury deposition, reemission, and net surface gain fluxes of mercury at Barrow, AK, during an intensive measurement campaign for a 2 week period in spring (March 25 to April 7, 2003). They reported 1.7, 1.0 +/- 0.2, and 0.7 +/- 0.2 microg m(-2) deposition, re-emission, and net surface gain, respectively. Using the optimal configuration of the model, we estimated 1.8 microg m(-2) deposition, 1.0 microg m(-2) re-emission, and 0.8 microg m(-2) net surface gain of mercury for the same time period at Barrow. The estimated net annual accumulation of mercury within the Arctic Circle north of 66.5 degrees is approximately 174 t with +/-7 t of interannual variability for 2002-2004 using the optimal configuration. We estimated the uncertainty of the model results to the Hg/Br reaction rate coefficient to be approximately 6%. Springtime is clearly demonstrated as the most active period of mercury exchanges and net surface gain (approximately 46% of annual accumulation) in the Arctic.

NCCAM/NCI Phase 1 Study of Mistletoe Extract and Gemcitabine in Patients with Advanced Solid Tumors

PubMed Central

Mansky, Patrick J.; Sannes, Timothy S.; Johnson, Laura Lee; Blackman, Marc R.; Grem, Jean L.; Swain, Sandra M.; Monahan, Brian P.

2013-01-01

Purpose. European Mistletoe (Viscum album L.) extracts (mistletoe) are commonly used for cancer treatment in Europe. This phase I study of gemcitabine (GEM) and mistletoe in advanced solid cancers (ASC) evaluated: (1) safety, toxicity, and maximum tolerated dose (MTD), (2) absolute neutrophil count (ANC) recovery, (3) formation of mistletoe lectin antibodies (ML ab), (4) cytokine plasma concentrations, (5) clinical response, and (6) pharmacokinetics of GEM. Methods. Design: increasing mistletoe and fixed GEM dose in stage I and increasing doses of GEM with a fixed dose of mistletoe in stage II. Dose limiting toxicities (DLT) were grade (G) 3 nonhematologic and G4 hematologic events; MTD was reached with 2 DLTs in one dosage level. Response in stage IV ASC was assessed with descriptive statistics. Statistical analyses examined clinical response/survival and ANC recovery. Results. DLTs were G4 neutropenia, G4 thrombocytopenia, G4 acute renal failure, and G3 cellulitis, attributed to mistletoe. GEM 1380 mg/m2 and mistletoe 250 mg combined were the MTD. Of 44 patients, 24 developed nonneutropenic fever and flu-like syndrome. GEM pharmacokinetics were unaffected by mistletoe. All patients developed ML3 IgG antibodies. ANC showed a trend to increase between baseline and cycle 2 in stage I dose escalation. 6% of patients showed partial response, 42% stable disease. Median survival was 200 days. Compliance with mistletoe injections was high. Conclusion. GEM plus mistletoe is well tolerated. No botanical/drug interactions were observed. Clinical response is similar to GEM alone. PMID:24285980

The analysis of GEOS-3 altimeter data in the Tasman and Coral seas

NASA Technical Reports Server (NTRS)

Mather, R. S.

1977-01-01

A technique was developed for preprocessing GEOS-3 altimetry data to establish a model of the regional sea surface. The algorithms developed models for a 35,000,000 sq km area with an internal precision of + or - 1 m. There were discrepancies between the sea surface model so obtained and GEM6 based geoid profiles with wavelengths of approximately 2500 km and amplitudes of up to 5 m in this region. The amplitudes were smaller when compared with GEM10-based geoid determinations. However, the comparison of 14 pairs of overlapping passes in the region indicated altimeter resolution of the + or - 25 cm level if the wavelength corresponding to the Nyquist frequency were 30 km. The spectral analysis of such comparisons indicated the existence of significant signal strength in the discrepancies after least squares fitting, with wavelengths in excess of 200 km.

3D simulation of electron and ion transmission of GEM-based detectors

NASA Astrophysics Data System (ADS)

Bhattacharya, Purba; Mohanty, Bedangadas; Mukhopadhyay, Supratik; Majumdar, Nayana; da Luz, Hugo Natal

2017-10-01

Time Projection Chamber (TPC) has been chosen as the main tracking system in several high-flux and high repetition rate experiments. These include on-going experiments such as ALICE and future experiments such as PANDA at FAIR and ILC. Different R&D activities were carried out on the adoption of Gas Electron Multiplier (GEM) as the gas amplification stage of the ALICE-TPC upgrade version. The requirement of low ion feedback has been established through these activities. Low ion feedback minimizes distortions due to space charge and maintains the necessary values of detector gain and energy resolution. In the present work, Garfield simulation framework has been used to study the related physical processes occurring within single, triple and quadruple GEM detectors. Ion backflow and electron transmission of quadruple GEMs, made up of foils with different hole pitch under different electromagnetic field configurations (the projected solutions for the ALICE TPC) have been studied. Finally a new triple GEM detector configuration with low ion backflow fraction and good electron transmission properties has been proposed as a simpler GEM-based alternative suitable for TPCs for future collider experiments.

CTA1: Purified and display onto gram-positive enhancer matrix (GEM) particles as mucosal adjuvant.

PubMed

Zhang, Yuanpeng; Yu, Xiaoming; Hou, Liting; Chen, Jin; Li, Pengcheng; Qiao, Xuwen; Zheng, Qisheng; Hou, Jibo

2018-01-01

The A1 subunit of cholera toxin (CTA1) retains the adjuvant function of CT, without its toxic side effects, making the molecule a promising mucosal adjuvant. However, the methods required to obtain a pure product are both complicated and expensive, constricting its potential commercial applicability. Here, we fused the peptidoglycan binding domain (PA) to the C-terminus of CTA1, which enabled the fusion protein to be expressed by Bacillus subtilis, and secreted into the culture medium. CTA1 was then purified and displayed on GEM particles using a one step process, which resulted in the formation of CTA1-GEM complexes. Next, the CTA1-GEM complexes were used as an adjuvant to enhance the immune responses of mice to the influenza subunit vaccine. It was observed that the CTA1-GEM complexes enhanced specific systemic (IgG) and mucosal (IgA) immune responses against antigen, and induced cellular immune responses as well. The data presented here suggests that CTA1-GEM complexes can serve as a viable mucosal adjuvant. Copyright © 2017 Elsevier Inc. All rights reserved.

Gravitomagnetic acceleration of accretion disk matter to polar jets

NASA Astrophysics Data System (ADS)

Poirier, John; Mathews, Grant

2016-03-01

The motion of the masses of an accretion disk around a black hole creates a general relativistic, gravitomagnetic field (GEM) from the moving matter (be it charged or uncharged) of the accretion disk. This GEM field accelerates moving masses (neutral or charged) near the accretion disk vertically upward and away from the disk, and then inward toward the axis of the disk. As the accelerated material nears the axis with approximately vertical angles, a frame dragging effect contributes to the formation of narrow jets emanating from the poles. This GEM effect is numerically evaluated in the first post Newtonian (1PN) approximation from observable quantities like the mass and velocity of the disk. This GEM force is linear in the total mass of the accretion disk matter and quadratic in the velocity of matter near to the disk with approximately the same velocity. Since these masses and velocities can be quite high in astrophysical contexts, the GEM force, which in other contexts is weak, is quite significant. This GEM effect is compared to the ordinary electromagnetic effects applied to this problem in the past.

Gemfibrozil modulates cytochrome P450 and peroxisome proliferation-inducible enzymes in the liver of the yellow European eel (Anguilla anguilla).

PubMed

Lyssimachou, Angeliki; Thibaut, Rémi; Gisbert, Enric; Porte, Cinta

2014-01-01

The human lipid regulator gemfibrozil (GEM) has been shown to induce peroxisome proliferation in rodents leading to hepatocarcinogenesis. Since GEM is found at biological active concentrations in the aquatic environment, the present study investigates the effects of this drug on the yellow European eel (Anguilla anguilla). Eels were injected with different concentrations of GEM (0.1 to 200 μg/g) and sampled 24- and 96-h post-injection. GEM was shown to inhibit CYP1A, CYP3A and CYP2K-like catalytic activities 24-h post-injection, but at 96-h post-injection, only CYP1A was significantly altered in fish injected with the highest GEM dose. On the contrary, GEM had little effect on the phase II enzymes examined (UDP-glucuronyltransferase and glutathione-S-transferase). Peroxisome proliferation inducible enzymes (liver peroxisomal acyl-CoA oxidase and catalase) were very weakly induced. No evidence of a significant effect on the endocrine system of eels was observed in terms of plasmatic steroid levels or testosterone esterification in the liver.

Codelivery of dual drugs from polymeric micelles for simultaneous targeting of both cancer cells and cancer stem cells.

PubMed

Krishnamurthy, Sangeetha; Ng, Victor W L; Gao, Shujun; Tan, Min-Han; Hedrick, James L; Yang, Yi Yan

2015-01-01

Phenformin-loaded micelles (Phen M) were used in combination with gemcitabine-loaded micelles (Gem M) to study their combined effect against H460 human lung cancer cells and cancer stem cells (CSCs) in vitro and in vivo. Gem M and Phen M were prepared via self-assembly of a mixture of a diblock copolymer of PEG and urea-functionalized polycarbonate (PEG-PUC) and a diblock copolymer of PEG and acid-functionalized polycarbonate (PEG-PAC) through hydrogen bonding and ionic interactions. Gem M and Phen M were characterized and tested for efficacy both in vitro and in vivo against cancer cells and CSCs. The combination of Gem M/Phen M exhibited higher cytotoxicity against CSCs and non-CSCs than Gem M and Phen M alone, and showed significant cell cycle growth arrest in vitro. The combination therapy had superior tumor suppression and apoptosis in vivo without inducing toxicity to liver and kidney. The combination of Gem M and Phen M may be potentially used in lung cancer therapy.

Development of a scintillating G-GEM detector for a 6-MeV X-band Linac for medical applications

NASA Astrophysics Data System (ADS)

Fujiwara, T.; Tanaka, S.; Mitsuya, Y.; Takahashi, H.; Tagi, K.; Kusano, J.; Tanabe, E.; Yamamoto, M.; Nakamura, N.; Dobashi, K.; Tomita, H.; Uesaka, M.

2013-12-01

We recently developed glass gas electron multipliers (G-GEMs) with an entirely new process using photo-etchable glass. The photo-etchable glass used for the substrate is called PEG3 (Hoya Corporation). Taking advantage of low outgassing material, we have envisioned a medical application of G-GEMs. A two-dimensional position-sensitive dosimetry system based on a scintillating gas detector is being developed for real-time dose distribution monitoring in X-ray radiation therapy. The dosimetry system consists of a chamber filled with an Ar/CF4 scintillating gas mixture, inside of which G-GEM structures are mounted. Photons produced by the excited Ar/CF4 gas molecules during the gas multiplication in the GEM holes are detected by a mirror-lens-CCD-camera system. We found that the intensity distribution of the measured light spot is proportional to the 2D dose distribution. In this work, we report on the first results from a scintillating G-GEM detector for a position-sensitive X-ray beam dosimeter.

Large size GEM for Super Bigbite Spectrometer (SBS) polarimeter for Hall A 12GeV program at JLab

DOE PAGES

Gnanvo, Kondo; Liyanage, Nilanga; Nelyubin, Vladimir; ...

2015-05-01

We report on the R&D effort in the design and construction of a large size GEM chamber for the Proton Polarimeter of the Super Bigbite Spectrometer (SBS) in Hall A at Thomas Jefferson National Laboratory (JLab). The SBS Polarimeter trackers consist of two sets of four large chambers of size 200 cm x 60 cm 2. Each chamber is a vertical stack of four GEM modules with an active area of 60 cm x 50 cm. We have built and tested several GEM modules and we describe in this paper the design and construction of the final GEM as wellmore » as the preliminary results on performances from tests carried out in our detector lab and with test beams at (Fermilab).« less

Geostationary Environment Monitoring Spectrometer (gems) Over the Korea Peninsula and Asia-Pacific Region

NASA Astrophysics Data System (ADS)

Lasnik, J.; Stephens, M.; Baker, B.; Randall, C.; Ko, D. H.; Kim, S.; Kim, Y.; Lee, E. S.; Chang, S.; Park, J. M.; SEO, S. B.; Youk, Y.; Kong, J. P.; Lee, D.; Lee, S. H.; Kim, J.

2014-12-01

Introduction: The Geostationary Environment Monitoring Spectrometer (GEMS) is one of two instruments manifested aboard the South Korean Geostationary Earth Orbit KOrea Multi-Purpose SATellite-2B (GEO-KOMPSAT-2B or GK2B), which is scheduled to launch in 2018. Jointly developed/built by KARI and Ball Aerospace, GEMS is a geostationary UV-Vis hyperspectral imager designed to monitor trans-boundary tropospheric pollution events over the Korean peninsula and Asia-Pacific region. The spectrometer provides high temporal and spatial resolution (3.5 km N/S by 7.2 km E/W) measurements of ozone, its precursors, and aerosols. Over the short-term, hourly measurements by GEMS will improve early warnings for potentially dangerous pollution events and monitor population exposure. Over the 10-year mission-life, GEMS will serve to enhance our understanding of long-term climate change and broader air quality issues on both a regional and global scale. The GEMS sensor design and performance are discussed, which includes an overview of measurement capabilities and the on-orbit concept of operations. GEMS Sensor Overview: The GEMS hyperspectral imaging system consists of a telescope and Offner grating spectrometer that feeds a single CCD detector array. A spectral range of 300-500 nm and sampling of 0.2 nm enables NO2, SO2, HCHO, O3, and aerosol retrieval. The GEMS field of regard (FOR), which extends from 5°S to 45°N in latitude and 75°E to 145°E in longitude, is operationally achieved using an onboard two-axis scan mirror. On-orbit, the radiometric calibration is maintained using solar measurements, which are performed using two onboard diffusers: a working diffuser that is deployed routinely for the purpose of solar calibration, and a reference diffuser that is deployed sparingly for the purpose of monitoring working diffuser performance degradation.

CLIMATIC EFFECTS ON TUNDRA CARBON STORAGE INFERRED FROM EXPERIMENTAL DATA AND A MODEL

EPA Science Inventory

We used a process-based model of ecosystem carbon (C) and nitrogen (N)dynamics, MBL-GEM (Marine Biological Laboratory General Ecosystem Model), to integrated and analyze the results of several experiments that examined the response of arctic tussock tundra to manipulations of CO2...

Modeling Gameplay Enjoyment, Goal Orientations, and Individual Characteristics

ERIC Educational Resources Information Center

Quick, John M.; Atkinson, Robert K.

2014-01-01

The purpose of this study was to investigate the relationships between gameplay enjoyment, gaming goal orientations, and individual characteristics. A total of 301 participants were surveyed and the data were analyzed using structural equation modeling. This led to an expanded Gameplay Enjoyment Model (GEM) with 41 game design features that…

GEM-AQ, an On-line Global Multiscale Chemical Weather System: Model Description and Evaluation of Gas Phase Chemistry Processes

NASA Astrophysics Data System (ADS)

Neary, L.; Kaminski, J. W.; Struzewska, J.; Ainslie, B.; McConnell, J. C.

2007-12-01

Tropospheric chemistry and air quality processes were implemented on-line in the Global Environmental Multiscale model. The integrated model, GEM-AQ, has been developed as a platform to investigate chemical weather at scales from global to urban. On the global scale, the model was exercised for five years (2001-2005) to evaluate its ability to simulate seasonal variations and regional distributions of trace gases such as ozone, nitrogen dioxide and carbon monoxide. The model results are compared with observations from satellites, aircraft measurement campaigns and balloon sondes. The same model has also been evaluated on the regional (~15km resolution) and urban scale (~3km resolution). A simulation of the formation and transport of photooxidants during the European heat wave of 2006 was performed and compared with surface observations throughout central and eastern Europe. The complex topographic region of the Lower Fraser Valley in British Columbia was the focus of another model evaluation during the PACIFIC 2001 field campaign. Comparison of model results with observations during this period will be shown.

Editorial: Reviewer Selection Process and New Areas of Expertise in GEMS

NASA Technical Reports Server (NTRS)

Liemohn, Michael W.; Balikhin, Michael; Kepko, Larry; Rodger, Alan; Wang, Yuming

2016-01-01

One method of selecting potential reviewers for papers submitted to the Journal of Geophysical Research Space Physics is to filter the user database within the Geophysical Electronic Manuscript System (GEMS) by areas of expertise. The list of these areas in GEMS can be self selected by users in their profile settings. The Editors have added 18 new entries to this list, an increase of 33 more than the previous 55 entries. All space physicists are strongly encouraged to update their profile settings in GEMS, especially their areas of expertise selections, and details of how to do this are provided.

Editorial: Reviewer selection process and new areas of expertise in GEMS

NASA Astrophysics Data System (ADS)

Liemohn, Michael W.; Balikhin, Michael; Kepko, Larry; Rodger, Alan; Wang, Yuming

2016-06-01

One method of selecting potential reviewers for papers submitted to the Journal of Geophysical Research Space Physics is to filter the user database within the Geophysical Electronic Manuscript System (GEMS) by areas of expertise. The list of these areas in GEMS can be self selected by users in their profile settings. The Editors have added 18 new entries to this list, an increase of 33% more than the previous 55 entries. All space physicists are strongly encouraged to update their profile settings in GEMS, especially their areas of expertise selections, and details of how to do this are provided.

Multimodal properties and dynamics of gradient echo quantum memory.

PubMed

Hétet, G; Longdell, J J; Sellars, M J; Lam, P K; Buchler, B C

2008-11-14

We investigate the properties of a recently proposed gradient echo memory (GEM) scheme for information mapping between optical and atomic systems. We show that GEM can be described by the dynamic formation of polaritons in k space. This picture highlights the flexibility and robustness with regards to the external control of the storage process. Our results also show that, as GEM is a frequency-encoding memory, it can accurately preserve the shape of signals that have large time-bandwidth products, even at moderate optical depths. At higher optical depths, we show that GEM is a high fidelity multimode quantum memory.

Co-delivery of docetaxel and gemcitabine by anacardic acid modified self-assembled albumin nanoparticles for effective breast cancer management.

PubMed

Kushwah, Varun; Katiyar, Sameer S; Dora, Chander Parkash; Kumar Agrawal, Ashish; Lamprou, Dimitrios A; Gupta, Ramesh C; Jain, Sanyog

2018-06-01

In the present study, we have modified bovine serum albumin (BSA) by covalently conjugating with anacardic acid (AA) and gemcitabine (GEM) and further used for development of docetaxel (DTX) loaded nanoparticles (AA-GEM-BSA NPs). AA is supposed to provide tumor targeting through VEGF receptors overexpressed in tumors, while the combination of GEM and DTX is supposed to provide synergistic activity by targeting multiple pathways. The conjugate was synthesized via carbodiimide chemistry and characterized by 1 H NMR, FTIR, MALDI-TOF and elemental analysis. Conformational changes owing to conjugation of AA and GEM were estimated via fluorescence, Raman and CD spectroscopy, while changes in physiochemical properties were studied by differential scanning calorimetry (DSC), thermogravimetry (TGA) and contact angle goniometry (CAG). Synthesized conjugate was further transformed into DTX loaded NPs and freeze dried. Scanning Electron Microscopy (SEM) and Atomic Force Microscopy (AFM) demonstrated formation of spherical NPs having particle size, 163 ± 8 nm, PDI, 0.13 ± 0.09 and ZP, -27 ± 1 mV. Cellular uptake in MCF-7 and MDA-MB-231 revealed hNTs, OATP1B3 independent, clathrin mediated internalization followed via nuclear co-localization of C-6 loaded AA-GEM-BSA NPs, responsible for significantly higher apoptosis index. Pharmacokinetic profile of DTX loaded AA-GEM-BSA NPs revealed 6.12 and 3.27-fold and 6.28 and 8.9-fold higher AUC and T 1/2 values of DTX and GEM as compared to Taxotere® and Gemzar®, respectively. Interestingly, the developed NPs were found safe with no marked effect on RBCs, lower hepato and nephro toxicity. Data in hand suggest promising potential of developed NPs in ameliorating the pharmacokinetic and therapeutic profile of combinatorial regimen of DTX and GEM. The present report is the original state of art technology to selectively target dual drug (DTX and GEM) loaded BSA NPs via exploring tumor targeting potential of AA, having high affinity towards VEGF receptors (angiogenesis marker) overexpressed in tumor. The AA and GEM bio-conjugated BSA was synthesized and further used to develop DTX loaded nanoparticles (AA-GEM-BSA NPs). The optimized NPs were further evaluated via extensive in vitro and in vivo studies, demonstrating ameliorated cellular uptake, pharmacokinetic and toxicity profile of drugs. Conclusively, DTX loaded AA-GEM-BSA NPs, holds promising potential in increasing the therapeutic efficiency of drugs and overcoming solvent and drug mediated side effects and can be explored further as a scalable platform technology for difficult to deliver drugs. Copyright © 2018 Acta Materialia Inc. Published by Elsevier Ltd. All rights reserved.

Speciated atmospheric mercury and its potential source in Guiyang, China

NASA Astrophysics Data System (ADS)

Fu, Xuewu; Feng, Xinbin; Qiu, Guangle; Shang, Lihai; Zhang, Hui

2011-08-01

Speciated atmospheric mercury (Hg) including gaseous elemental mercury (GEM), particulate Hg (PHg), and reactive gaseous Hg (RGM) were continuously measured at an urban site in Guiyang city, southwest China from August to December 2009. The averaged concentrations for GEM, PHg, and RGM were 9.72 ± 10.2 ng m -3, 368 ± 676 pg m -3, and 35.7 ± 43.9 pg m -3, respectively, which were all highly elevated compared to observations at urban sites in Europe and North America. GEM and PHg were characterized by similar monthly and diurnal patterns, with elevated levels in cold months and nighttime, respectively. In contrast, RGM did not exhibit clear monthly and diurnal variations. The variations of GEM, PHg, and RGM indicate the sampling site was significantly impacted by sources in the city municipal area. Sources identification implied that both residential coal burning and large point sources were responsible to the elevated GEM and PHg concentrations; whereas point sources were the major contributors to elevated RGM concentrations. Point sources played a different role in regulating GEM, PHg, and RGM concentrations. Aside from residential emissions, PHg levels was mostly affected by small-scale coal combustion boilers situated to the east of the sampling site, which were scarcely equipped or lacking particulate control devices; whereas point sources situated to the east, southeast, and southwest of the sampling played an important role on the distribution of atmospheric GEM and RGM.

Hyperspectral imaging: gem identification and authentication

NASA Astrophysics Data System (ADS)

Gomez, Richard B.; Del Re, Nicholas

2005-01-01

Through the centuries gem materials have been highly prized and sought after. The varieties of gem materials run into the hundreds if not thousands, characterized by a gamut of material classes running from organic to inorganic and from crystalline to amorphous. All consisting of numerous chemical compositions and characterized by various physical and optical properties. In addition, most gem materials have been subject to numerous modifications to enhance and imitate the most pleasing of esthetic qualities, e.g., dyeing, impregnation, heating, reconstruction, high pressure and temperature, irradiation, and diffusion. Of concern is the ability not only to identify the gem material in question, but if applicable, the treatment. Up until recent, the main instruments utilized to detect these have been simple but quite effective such as a binocular microscope, refractometer, hand spectroscope, dichroscope, and measuring of specific gravity. New gem materials and techniques involved in treatments have become increasingly sophisticated such as ultraviolet-visible-infrared and Raman spectroscopy. In certain cases, some of the most recent techniques have become time consuming and expensive. Here is the opportunity to overview and utilize a powerful technology found in the field of remote sensing, i.e., Hyperspectral Imaging. This technology has been in effect for many years but only recently has it been used to focus on areas similar to the ones in this paper. In particular, hyperspectral imaging technology and its potential application to gem identification and authentication are covered in this paper.

An Initial Evaluation of Tablet Devices & What Are the Next Steps?

ERIC Educational Resources Information Center

McKillen, Tracey

2016-01-01

This paper describes an evaluation of tablet devices for a Graduate Entry Medical School (GEMS). The purpose of this evaluation is to assess what type of tablet device could meet the needs of a GEMS student. GEMS requirements for the evaluation include; using the tablet device to replace paper teaching resources in lectures and tutorials and…

Copper-Catalyzed SN2'-Selective Allylic Substitution Reaction of gem-Diborylalkanes.

PubMed

Zhang, Zhen-Qi; Zhang, Ben; Lu, Xi; Liu, Jing-Hui; Lu, Xiao-Yu; Xiao, Bin; Fu, Yao

2016-03-04

A Cu/(NHC)-catalyzed SN2'-selective substitution reaction of allylic electrophiles with gem-diborylalkanes is reported. Different substituted gem-diborylalkanes and allylic electrophiles can be employed in this reaction, and various synthetic valuable functional groups can be tolerated. The asymmetric version of this reaction was initially researched with chiral N-heterocyclic carbene (NHC) ligands.

77 FR 71776 - Certain Steel Threaded Rod From the People's Republic of China: Affirmative Preliminary...

Federal Register 2010, 2011, 2012, 2013, 2014

2012-12-04

... more chromium, by weight, produced by Gem-Year Industrial Co., Ltd. (``Gem- Year''), and otherwise... greater than 1.25 percent chromium, by weight, and otherwise meeting the requirements of the scope of the... threaded rod products with 1.25 percent or more chromium, by weight, produced by Gem-Year, and otherwise...

Quantifying Atmospheric Mercury Emissions Sources in coastal California from Shipboard Measurements During CalNex 2010

NASA Astrophysics Data System (ADS)

Weiss-Penzias, P. S.; Lerner, B. M.; Williams, E. J.; Bates, T. S.; Gaston, C. J.; Prather, K. A.

2011-12-01

Mercury is a neurotoxin that can bioaccumulate in aquatic ecosystems to levels that are unsafe for humans and biota. It has both natural and anthropogenic sources to the atmosphere, where it can be transported and undergo transformations that lead to its deposition in both wet and dry forms. Due to recent surveys of mercury in fish in California that show widespread contamination, there is great interest in knowing the source of this mercury, whether it be from local, regional, or global emissions. In this study we made simultaneous measurements of gaseous elemental mercury (GEM), CO2, CO, NOx, SO2, O3, and meteorology during the spring of 2010 (May 14-June 8) on board the research vessel Atlantis during the CalNex campaign. The goal of this study was to observe and quantify emissions of GEM from known and potential sources along the California coast, including an incinerator, oil refineries, cargo ships, and natural ocean emissions. Additionally, an understanding of the behavior of GEM in the marine boundary layer under land-sea breeze conditions was sought. Our results indicate that on at least one occasion when the ship was located in the San Pedro harbor, emissions from an incinerator were observed, as indicated by high concentrations of GEM and unique single particle chemical composition. Using the ratio of the enhancements in GEM and CO and the CO emissions inventory for this facility, it was estimated that the annual GEM emissions were 11 +/- 5 kg. This is a factor of 5 lower than the reported total mercury emissions inventory for this facility in 2008. The discrepancy may be explained if a significant fraction of the emissions were gaseous oxidized and particulate mercury, since only GEM was measured. Additionally, a plume from a cargo ship was intercepted and the GEM/CO2 enhancement ratio indicated that approximately 13 tonnes of GEM are emitted from shipping worldwide, assuming values for global fuel usage and a CO2/fuel burned mass ratio. In spite of these impacts from combustion sources, mean concentrations of GEM in the bight of the Los Angeles were 1.38 ± 0.19 ng m-3, which is less than recognized hemispheric mean of 1.5-1.7 ng m-3, indicating minimal impact from anthropogenic sources overall. In fact, a slight positive correlation was observed between GEM and DMS in seawater suggesting that the ocean productivity may be associated with a source of mercury in this region.

The structure of the GemC1 coiled coil and its interaction with the Geminin family of coiled-coil proteins

DOE Office of Scientific and Technical Information (OSTI.GOV)

Caillat, Christophe; Fish, Alexander; Pefani, Dafni-Eleftheria

The GemC1 coiled-coil structure has subtle differences compared with its homologues Geminin and Idas. Co-expression experiments in cells and biophysical stability analysis of the Geminin-family coiled coils suggest that the GemC1 coiled coil alone is unstable. GemC1, together with Idas and Geminin, an important regulator of DNA-replication licensing and differentiation decisions, constitute a superfamily sharing a homologous central coiled-coil domain. To better understand this family of proteins, the crystal structure of a GemC1 coiled-coil domain variant engineered for better solubility was determined to 2.2 Å resolution. GemC1 shows a less typical coiled coil compared with the Geminin homodimer and themore » Geminin–Idas heterodimer structures. It is also shown that both in vitro and in cells GemC1 interacts with Geminin through its coiled-coil domain, forming a heterodimer that is more stable that the GemC1 homodimer. Comparative analysis of the thermal stability of all of the possible superfamily complexes, using circular dichroism to follow the unfolding of the entire helix of the coiled coil, or intrinsic tryptophan fluorescence of a unique conserved N-terminal tryptophan, shows that the unfolding of the coiled coil is likely to take place from the C-terminus towards the N-terminus. It is also shown that homodimers show a single-state unfolding, while heterodimers show a two-state unfolding, suggesting that the dimer first falls apart and the helices then unfold according to the stability of each protein. The findings argue that Geminin-family members form homodimers and heterodimers between them, and this ability is likely to be important for modulating their function in cycling and differentiating cells.« less

Natural and anthropogenic atmospheric mercury in the European Arctic: a fractionation study

NASA Astrophysics Data System (ADS)

Steen, A. O.; Berg, T.; Dastoor, A. P.; Durnford, D. A.; Engelsen, O.; Hole, L. R.; Pfaffhuber, K. A.

2011-07-01

Gaseous elemental mercury (GEM) is converted to reactive gaseous mercury (RGM) during springtime Atmospheric Mercury Depletion Events (AMDE). This study reports the longest time series of GEM, RGM and particle-bound mercury (PHg) concentrations from a European Arctic site. From 27 April 2007 until 31 December 2008 composite GEM, RGM and PHg measurements were conducted in Ny-Ålesund (78° 54' N, 11° 53' E). The average concentrations of the complete dataset were 1.6 ± 0.3 ng m-3, 8 ± 13 pg m-3 and 8 ± 25 pg m-3 for GEM, RGM and PHg, respectively. For the complete dataset the atmospheric mercury distribution was 99 % GEM, whereas RGM and PHg constituted <1 %. The study revealed a seasonal distribution of GEM, RGM and PHg previously undiscovered in the Arctic. Increased concentrations of RGM were observed during the insolation period from March through August, while increased PHg concentrations occurred almost exclusively during the spring AMDE period in March and April. The elevated RGM concentrations suggest that atmospheric RGM deposition also occurs during the polar summer. RGM was suggested as the precursor for the PHg existence, but long range transportation of PHg has to be taken into consideration. Still there remain gaps in the knowledge of how RGM and PHg are related in the environment. RGM and PHg accounted for on average about 10 % of the depleted GEM during AMDEs. Although speculative, the fairly low RGM and PHg concentrations supported by the predominance of PHg with respect to RGM and no clear meteorological regime associated with these AMDEs would all suggest the events to be of non-local origin. With some exceptions, no clear meteorological regime was associated with the GEM, RGM and PHg concentrations throughout the year.

Enhanced tumor targeting of cRGD peptide-conjugated albumin nanoparticles in the BxPC-3 cell line.

PubMed

Yu, Xinzhe; Song, Yunlong; Di, Yang; He, Hang; Fu, Deliang; Jin, Chen

2016-08-12

The emerging albumin nanoparticle brings new hope for the delivery of antitumor drugs. However, a lack of robust tumor targeting greatly limits its application. In this paper, cyclic arginine-glycine-aspartic-conjugated, gemcitabine-loaded human serum albumin nanoparticles (cRGD-Gem-HSA-NPs) were successfully prepared, characterized, and tested in vitro in the BxPC-3 cell line. Initially, 4-N-myristoyl-gemcitabine (Gem-C14) was formed by conjugating myristoyl to the 4-amino group of gemcitabine. Then, cRGD-HSA was synthesized using sulfosuccinimidyl-(4-N-maleimidomethyl)cyclohexane-1-carboxylate (Sulfo-SMCC) cross-linkers. Finally, cRGD-Gem-HSA-NPs were formulated based on the nanoparticle albumin-bound (nab) technology. The resulting NPs were characterized for particle size, zeta potential, morphology, encapsulation efficiency, and drug loading efficiency. In vitro cellular uptake and inhibition studies were conducted to compare Gem-HSA-NPs and cRGD-Gem-HSA-NPs in a human pancreatic cancer cell line (BxPC-3). The cRGD-Gem-HSA-NPs exhibited an average particle size of 160 ± 23 nm. The encapsulation rate and drug loading rate were approximately 83 ± 5.6% and 11 ± 4.2%, respectively. In vitro, the cRGD-anchored NPs exhibited a significantly greater affinity for the BxPC-3 cells compared to non-targeted NPs and free drug. The cRGD-Gem-HSA-NPs also showed the strongest inhibitory effect in the BxPC-3 cells among all the analyzed groups. The improved efficacy of cRGD-Gem-HSA-NPs in the BxPC-3 cell line warrants further in vivo investigations.

Gemcitabine-Based Chemotherapy in Adrenocortical Carcinoma: A Multicenter Study of Efficacy and Predictive Factors.

PubMed

Henning, Judith E K; Deutschbein, Timo; Altieri, Barbara; Steinhauer, Sonja; Kircher, Stefan; Sbiera, Silviu; Wild, Vanessa; Schlötelburg, Wiebke; Kroiss, Matthias; Perotti, Paola; Rosenwald, Andreas; Berruti, Alfredo; Fassnacht, Martin; Ronchi, Cristina L

2017-11-01

Adrenocortical carcinoma (ACC) is rare and confers an unfavorable prognosis in advanced stages. Other than combination chemotherapy with cisplatin, etoposide, doxorubicin, and mitotane, the second- and third-line regimens are not well-established. Gemcitabine (GEM)-based chemotherapy was suggested in a phase 2 clinical trial with 28 patients. In other solid tumors, human equilibrative nucleoside transporter type 1 (hENT1) and/or ribonucleotide reductase catalytic subunit M1 (RRM1) expression have been associated with resistance to GEM. To assess the efficacy of GEM-based chemotherapy in ACC in a real-world setting and the predictive role of molecular parameters. Retrospective multicenter study. Referral centers of university hospitals. A total of 145 patients with advanced ACC were treated with GEM-based chemotherapy (132 with concomitant capecitabine). Formalin-fixed paraffin-embedded tumor material was available for 70 patients for immunohistochemistry. The main outcome measures were progression-free survival (PFS) and an objective response to GEM-based chemotherapy. The secondary objective was the predictive role of hENT1 and RRM1. The median PFS for the patient population was 12 weeks (range, 1 to 94). A partial response or stable disease was achieved in 4.9% and 25.0% of cases, with a median duration of 26.8 weeks. Treatment was generally well tolerated, with adverse events of grade 3 or 4 occurring in 11.0% of cases. No substantial effect of hENT1 and/or RRM1 expression was observed in response to GEM-based chemotherapy. GEM-based chemotherapy is a well-tolerated, but modestly active, regimen against advanced ACC. No reliable molecular predictive factors could be identified. Owing to the scarce alternative therapeutic options, GEM-based chemotherapy remains an important option for salvage treatment for advanced ACC. Copyright © 2017 Endocrine Society

Monsoon-driven transport of atmospheric mercury to the South China Sea from the Chinese mainland and Southeast Asia-Observation of gaseous elemental mercury at a background station in South China.

PubMed

Liu, Ming; Chen, Laiguo; Xie, Donghai; Sun, Jiaren; He, Qiusheng; Cai, Limei; Gao, Zhiqiang; Zhang, Yiqiang

2016-11-01

Concentrations of gaseous elemental mercury (GEM) were continuously monitored from May 2011 to May 2012 at the Wuzhishan State Atmosphere Background Monitoring Station (109°29'30.2″ E, 18°50'11.0″ N) located in Hainan Island. This station is an ideal site for monitoring long-range transport of atmospheric pollutants from mainland China and Southeast Asia to South China Sea. Annual average GEM concentration was 1.58 ± 0.71 ng m -3 during the monitoring period, which was close to background values in the Northern Hemisphere. GEM concentrations showed a clear seasonal variation with relatively higher levels in autumn (1.86 ± 0.55 ng m -3 ) and winter (1.80 ± 0.62 ng m -3 ) and lower levels in spring (1.16 ± 0.45 ng m -3 ) and summer (1.43 ± 0.46 ng m -3 ). Long-range atmospheric transport dominated by monsoons was a dominant factor influencing the seasonal variations of GEM. The GEM diel trends were related to the wind speed and long-range atmospheric mercury transport. We observed 30 pollution episodes throughout the monitoring period. The analysis of wind direction and backward trajectory suggested that elevated GEM concentrations at the monitoring site were primarily related to the outflows of atmospheric Hg from mainland China and the Indochina peninsula. The △GEM/△CO values also suggested that GEM was significantly affected by the long-range transport from the anthropogenic sources and biomass burning in Asia and Indochina peninsula.

Atmospheric mercury measurements at a suburban site in the Mid-Atlantic United States: Inter-annual, seasonal and diurnal variations and source-receptor relationships

NASA Astrophysics Data System (ADS)

Ren, Xinrong; Luke, Winston T.; Kelley, Paul; Cohen, Mark D.; Artz, Richard; Olson, Mark L.; Schmeltz, David; Puchalski, Melissa; Goldberg, Daniel L.; Ring, Allison; Mazzuca, Gina M.; Cummings, Kristin A.; Wojdan, Lisa; Preaux, Sandra; Stehr, Jeff W.

2016-12-01

Different atmospheric mercury forms have been measured at a suburban site in Beltsville, Maryland in the Mid-Atlantic United States since 2007 to investigate their inter-annual, seasonal and diurnal variabilities. Average concentrations and standard deviations of hourly measurements from 2007 to 2015 were 1.41 ± 0.23 ng m-3 for gaseous elemental mercury (GEM), 4.6 ± 33.7 pg m-3 for gaseous oxidized mercury (GOM), and 8.6 ± 56.8 pg m-3 for particulate-bound mercury (PBM). Observations show that on average, the rates of decrease were 0.020 ± 0.007 ng m-3 yr-1 (or 1.3 ± 0.5% yr-1, statistically significant, p-value < 0.01) for GEM, 0.54 ± 0.19 pg m-3 yr-1 (or 7.3 ± 2.6% yr-1, statistically significant, p-value < 0.01) for GOM, and 0.15 ± 0.35 pg m-3 yr-1 (or 1.6 ± 3.8% yr-1, statistically insignificant, p-value > 0.01) for PBM over this nine-year period. In addition, the collocated annual mercury wet deposition decreased at a rate of 0.51 ± 0.24 μg m-2 yr-2 (or 4.2 ± 1.9% yr-1, statistically insignificant, p-value > 0.01). Diurnal variation of GEM shows a slight peak in the morning, likely due to the shallow boundary layer. Seasonal variation of GEM shows lower levels in fall. Both diurnal variations of GOM and PBM show peaks in the afternoon likely due to the photochemical production of reactive mercury from the oxidation of GEM and the influence of boundary layer processes. Seasonally, GOM measurements show high levels in spring and constant low levels in the other three seasons, while PBM measurements exhibit higher levels from late fall to early spring and lower levels from late spring to fall. These measurement data were analyzed using the HYSPLIT back trajectory model in order to examine possible source-receptor relationships at this suburban site. Trajectory frequency analysis shows that high GEM/GOM/PBM events were generally associated with high frequencies of the trajectories passing through areas with high mercury emissions, while low GEM/GOM/PBM levels were largely associated the trajectories passing through relatively clean areas. This study indicates that local and regional sources appear to have a significant impact on the site and these impacts appear to have changed over time, as the local/regional emissions have been reduced.

LANDFILL GAS EMISSIONS MODEL (LANDGEM) VERSION 3.02 USER'S GUIDE

EPA Science Inventory

The Landfill Gas Emissions Model (LandGEM) is an automated estimation tool with a Microsoft Excel interface that can be used to estimate emission rates for total landfill gas, methane, carbon dioxide, nonmethane organic compounds, and individual air pollutants from municipal soli...

An Emission Measure Analysis of Stars Near the Transition Region Dividing Line

NASA Astrophysics Data System (ADS)

Linsky, Jeffery L.

We request high dispersion, short wavelength IUE spectra for three of the stars beta Gem (K0III), alpha Tau (K5III), epsilon Gem (G81b) and beta Cam (G0Ib) with exposure times of 16 hours or greater. These data will allow the measurement of line profiles, widths and Doppler shifts as well as density sensitive and opacity sensitive line ratios. Models of chromospheric and transition region structure will be calculated by emission measure techniques and model atmosphere computations for optically thick resonance lines such as MgII h and k, including partial redistribution radiation transfer. The chromospheric models will be used to investigate the energy balance of the atmosphere and the nature of the energy deposition processes. These results will be considered in relation to the evolutionary status of the stars, and will be compared with the atmospheric model properties of other stars previously studied by the authors and their collaborators.

Planning for subacute care: predicting demand using acute activity data.

PubMed

Green, Janette P; McNamee, Jennifer P; Kobel, Conrad; Seraji, Md Habibur R; Lawrence, Suanne J

2016-01-01

Objective The aim of the present study was to develop a robust model that uses the concept of 'rehabilitation-sensitive' Diagnosis Related Groups (DRGs) in predicting demand for rehabilitation and geriatric evaluation and management (GEM) care following acute in-patient episodes provided in Australian hospitals. Methods The model was developed using statistical analyses of national datasets, informed by a panel of expert clinicians and jurisdictional advice. Logistic regression analysis was undertaken using acute in-patient data, published national hospital statistics and data from the Australasian Rehabilitation Outcomes Centre. Results The predictive model comprises tables of probabilities that patients will require rehabilitation or GEM care after an acute episode, with columns defined by age group and rows defined by grouped Australian Refined (AR)-DRGs. Conclusions The existing concept of rehabilitation-sensitive DRGs was revised and extended. When applied to national data, the model provided a conservative estimate of 83% of the activity actually provided. An example demonstrates the application of the model for service planning. What is known about the topic? Health service planning is core business for jurisdictions and local areas. With populations ageing and an acknowledgement of the underservicing of subacute care, it is timely to find improved methods of estimating demand for this type of care. Traditionally, age-sex standardised utilisation rates for individual DRGs have been applied to Australian Bureau of Statistics (ABS) population projections to predict the future need for subacute services. Improved predictions became possible when some AR-DRGs were designated 'rehabilitation-sensitive'. This improved methodology has been used in several Australian jurisdictions. What does this paper add? This paper presents a new tool, or model, to predict demand for rehabilitation and GEM services based on in-patient acute activity. In this model, the methodology based on rehabilitation-sensitive AR-DRGs has been extended by updating them to AR-DRG Version 7.0, quantifying the level of 'sensitivity' and incorporating the patient's age to improve the prediction of demand for subacute services. What are the implications for practitioners? The predictive model takes the form of tables of probabilities that patients will require rehabilitation or GEM care after an acute episode and can be applied to acute in-patient administrative datasets in any Australian jurisdiction or local area. The use of patient-level characteristics will enable service planners to improve their forecasting of demand for these services. Clinicians and jurisdictional representatives consulted during the project regarded the model favourably and believed that it was an improvement on currently available methods.

Copper-catalyzed cross-coupling reactions of epoxides with gem-diborylmethane: access to γ-hydroxyl boronic esters.

PubMed

Ebrahim-Alkhalil, Ahmed; Zhang, Zhen-Qi; Gong, Tian-Jun; Su, Wei; Lu, Xiao-Yu; Xiao, Bin; Fu, Yao

2016-04-07

Herein, we describe a novel copper-catalyzed epoxide opening reaction with gem-diborylmethane. Aliphatic, aromatic epoxides as well as aziridines are converted to the corresponding γ-pinacolboronate alcohols or amines in moderate to excellent yields. This new reaction provides beneficial applications for classic epoxide substrates as well as interesting gem-diborylalkane reagents.

Mountain Gem Russet: A medium to late season potato variety with high early and full season yield potential and excellent fresh market characteristics

USDA-ARS?s Scientific Manuscript database

Mountain Gem Russet is a medium to late maturing variety with both high early and full season yields of oblong-long, medium-russeted tubers having higher protein content than those of standard potato varieties. Mountain Gem Russet has greater resistance to tuber late blight, tuber malformations and ...

Development, characterization and qualification of first GEM foils produced in India

NASA Astrophysics Data System (ADS)

Shah, Aashaq; Ahmed, Asar; Gola, Mohit; Sharma, Ram Krishna; Malhotra, Shivali; Kumar, Ashok; Naimuddin, Md.; Menon, Pradeep; Srinivasan, K.

2018-06-01

The increasing demand for Gas Electron Multiplier (GEM) foils has been driven by their application in many current and proposed high-energy physics experiments. Micropack, a Bengaluru-based company, has established and commercialized GEM foils for the first time in India. Micropack used the double-mask etching technique to successfully produce 10 cm × 10 cm GEM foil. In this paper, we report on the development as well as the geometrical and electrical properties of these foils, including the size uniformity of the holes and leakage current measurements. Our characterization studies show that the foils are of good quality and satisfy all the necessary quality control criteria.

Gemcitabine inhibits proliferation and induces apoptosis in human pancreatic cancer PANC-1 cells.

PubMed

Yong-Xian, Gui; Xiao-Huan, Li; Fan, Zhang; Guo-Fang, Tian

2016-10-01

The aim of the study is to investigate the underlying molecular mechanisms by which gemcitabine (gem) inhibits proliferation and induces apoptosis in human pancreatic cancer PANC-1 cells in vitro. After PANC-1 cells had been treated by indicated concentration (0, 5, and 25 mg/L) of gem for 48 h, cell proliferation was evaluated by 3'-(4, 5 dimethyl-thiazol-2-yl)-2, 5-diphenyl tetrazolium bromide assay; cell morphology was observed by transmission electron microscopy; Expression of c-IAP2 and Bcl-2 proteins was analyzed by Western blot; the activity of caspase-3 and -9 was detected by spectrophotometry. Gem significantly inhibited cell proliferation and could induce apoptosis of human pancreatic cancer PANC-1 cells, with a dose-dependent manner. Western blot analysis showed that gem significantly reduced c-IAP2 and Bcl-2 proteins expression level (P < 0.05). Spectrophotometric assay showed that gem significantly increased caspase-3 and -9 activity in PANC-1 cells. Gem could induce apoptosis of human pancreatic cancer PANC-1 cells, probably through downregulating c-IAP2 and Bcl-2 expression levels, and at the same time activating caspase-3 and -9.

Creation of a genetic calcium channel blocker by targeted gem gene transfer in the heart.

PubMed

Murata, Mitsushige; Cingolani, Eugenio; McDonald, Amy D; Donahue, J Kevin; Marbán, Eduardo

2004-08-20

Calcium channel blockers are among the most commonly used therapeutic drugs. Nevertheless, the utility of calcium channel blockers for heart disease is limited because of the potent vasodilatory effect that causes hypotension, and other side effects attributable to blockade of noncardiac channels. Therefore, focal calcium channel blockade by gene transfer is highly desirable. With a view to creating a focally applicable genetic calcium channel blocker, we overexpressed the ras-related small G-protein Gem in the heart by somatic gene transfer. Adenovirus-mediated delivery of Gem markedly decreased L-type calcium current density in ventricular myocytes, resulting in the abbreviation of action potential duration. Furthermore, transduction of Gem resulted in a significant shortening of the electrocardiographic QTc interval and reduction of left ventricular systolic function. Focal delivery of Gem to the atrioventricular (AV) node significantly slowed AV nodal conduction (prolongation of PR and AH intervals), which was effective in the reduction of heart rate during atrial fibrillation. Thus, these results indicate that gene transfer of Gem functions as a genetic calcium channel blocker, the local application of which can effectively modulate cardiac electrical and contractile function.

Does Comet WILD-2 contain Gems?

NASA Technical Reports Server (NTRS)

Chi, M.; Ishii, H.; Dai, Z. R.; Toppani, A.; Joswiak, D. J.; Leroux, H.; Zolensky, M.; Keller, L. P.; Browning, N. D.

2007-01-01

It is expected that Comet Wild-2 dust should resemble anhydrous carbon-rich, chondritic porous (CP) interplanetary dust particles (IDPs) collected in the stratosphere because some CP IDPs are suspected to be from comets. The rarity of carbonaceous grains and presolar silicates, as well as the presence of high-temperature inner solar nebula minerals in the Wild-2 sample (e.g. osbornite and melilite), appear incompatible with most CP IDPs. However, it is premature to draw firm conclusions about the mineralogy of comet Wild-2 because only approx. 1% of the sample has been examined. The most abundant silicates in CP IDPs are GEMS (glass with embedded metal and sulfides). Nonsolar O isotopic compositions confirm that at least some GEMS in IDPs are presolar amorphous silicates. The presence or absence of GEMS in the Wild-2 sample is important because it addresses, (a) the relationship between CP IDPs and comets, and (b) the hypothesis that other GEMS in IDPs formed in the solar nebula. Here we show that most of the GEMSlike materials so far identified in Stardust aerogel were likely impact generated during collection. At the nanometer scale, they are compositionally and crystallographically distinct from GEMS in IDPs.

A review of current challenges for the identification of gemstones

NASA Astrophysics Data System (ADS)

Shigley, James E.

2008-01-01

A variety of treated and synthetic gem materials are encountered today in the jewelry marketplace in increasing quantities. Although normally entering into the market with correct information, in some cases these materials are sold with incorrect or inaccurate information on their identity. In some cases, they exhibit appearances that correspond closely to those of valuable untreated, natural gemstones. Although they can display certain distinctive gemological characteristics, some treated and synthetic gem materials can be difficult for jewelers to recognize, especially when these individuals lack gemological training and access to standard gem-testing methods and equipment. In such instances, testing by a professional gemological laboratory may be required. Accurate gem identification and complete information disclosure are essential in the jewelry trade to maintain both the commercial value of natural gemstones and the confidence among consumers who are considering gemstone purchases. The goal of most current gemological research is to provide practical means of gem identification for jewelers and gemologists to help insure integrity in the international gemstone trade. To support this goal, research on gem materials increasingly relies upon characterization with modern analytical tools such as chemical analysis, various spectroscopy methods, and other scientific techniques.

Integrated Farm System Model Version 4.3 and Dairy Gas Emissions Model Version 3.3 Software development and distribution

USDA-ARS?s Scientific Manuscript database

Modeling routines of the Integrated Farm System Model (IFSM version 4.2) and Dairy Gas Emission Model (DairyGEM version 3.2), two whole-farm simulation models developed and maintained by USDA-ARS, were revised with new components for: (1) simulation of ammonia (NH3) and greenhouse gas emissions gene...

A Study of Spatio-Temporal Variability in Future Wind Energy over the Korean Peninsula Using Regional Climate Model Ensemble Projections

NASA Astrophysics Data System (ADS)

KIM, Y.; Lim, Y. J.; Kim, Y. H.; Kim, B. J.

2015-12-01

The impacts of climate change on wind speed, wind energy density (WED), and potential electronic production (PEP) over the Korean peninsula have been investigated by using five regional climate models (HadGEM3-RA, RegCM, WRF, GRIMs and MM5) ensemble projection data. HadGEM2-AO based two RCP scenarios (RCP4.5/8.5) data have been used for initial and boundary condition to all RCMs. Wind energy density and its annual and seasonal variability have been estimated based on monthly near-surface wind speeds, and the potential electronic production and its change have been also analyzed. As a result of comparison ensemble models based annual mean wind speed for 25-yr historical period (1981-2005) to the ERA-interim, it is shown that all RCMs overestimate near-surface wind speed compared to the reanalysis data but the results of HadGEM3-RA are most comparable. The changes annual and seasonal mean of WED and PEP for the historical period and comparison results to future projection (2021-2050) will be presented in this poster session. We also scrutinize the changes in mean sea level pressure and mean sea level pressure gradient in driving GCM/RCM as a factor inducing the variations. Our results can be used as a background data for devising a plan to develop and operate wind farm over the Korean Peninsula.

Tropospheric Enhancement of Ozone over the UAE

NASA Astrophysics Data System (ADS)

Abbasi, Naveed Ali; Majeed, Tariq; Iqbal, Mazhar; Kaminski, Jacek; Struzewska, Joanna; Durka, Pawel; Tarasick, David; Davies, Jonathan

2015-04-01

We use the Global Environmental Multiscale - Air Quality (GEM-AQ) model to interpret the vertical profiles of ozone acquired with ozone sounding experiments at the meteorological site located at the Abu Dhabi airport. The purpose of this study is to gain insight into the chemical and dynamical structures in the atmosphere of this unique subtropical location (latitude 24.45N; longitude 54.22E). Ozone observations for years 2012 - 2013 reveal elevated ozone abundances in the range from 70 ppbv to 120 ppbv near 500-400 hPa during summer. The ozone abundances in other seasons are much lower than these values. The preliminary results indicate that summertime enhancement in ozone is associated with the Arabian anticyclones centered over the Zagros Mountains in Iran and the Asir and Hijaz Mountain ranges in Saudi Arabia, and is consistent with TES observations of deuterated water. The model also shows considerable seasonal variation in the tropospheric ozone which is transported from the stratosphere by dynamical processes. The domestic production of ozone in the middle troposphere is estimated and compared GEM-AQ model. It is estimated that about 40-50% of ozone in the UAE is transported from the neighbouring petrochemical industries in the Gulf region. We will present ozone sounding data and GEM-AQ results including a discussion on the high levels of the tropospheric ozone responsible for contaminating the air quality in the UAE. This work is supported by National Research Foundation, UAE.

Coordinated X-ray, ultraviolet and optical observations of AM Herculis, U Geminorum, and SS Cygni

NASA Technical Reports Server (NTRS)

Fabbiano, G.; Hartmann, L.; Raymond, J.; Branduardi-Raymont, G.; Matilsky, T.; Steiner, J.

1981-01-01

Simultaneous and quasi-simultaneous optical, UV and X-ray observations of the accreting degenerate dwarf stars AM Herculis, U Geminorum and SS Cygni are reported. The observations were obtained in March 1979, by instruments on board the Einstein Observatory and the IUE satellite, and optical properties were monitored on the ground. AM Her was found to be in a high state at the time of the observations, while SS Cyg and U Gem appeared to be in the optical low state. The presence of a strong UV excess is found in SS Cyg, U Gem and AM Her, which most likely originates from the boundary of the accretion disk in U Gem. The observed excess, with a blackbody component greater than 10 eV, is noted to be inconsistent with standard accretion disk and column models. It is suggested that nuclear burning at the surface of the white dwarf may be responsible for the excess UV flux in the three systems, with differences in spectral distributions resulting from different levels of magnetic field intensity and accretion rate.

Precision GPS ephemerides and baselines

NASA Technical Reports Server (NTRS)

1992-01-01

The required knowledge of the Global Positioning System (GPS) satellite position accuracy can vary depending on a particular application. Application to relative positioning of receiver locations on the ground to infer Earth's tectonic plate motion requires the most accurate knowledge of the GPS satellite orbits. Research directed towards improving and evaluating the accuracy of GPS satellite orbits was conducted at the University of Texas Center for Space Research (CSR). Understanding and modeling the forces acting on the satellites was a major focus of the research. Other aspects of orbit determination, such as the reference frame, time system, measurement modeling, and parameterization, were also investigated. Gravitational forces were modeled by truncated versions of extant gravity fields such as, Goddard Earth Model (GEM-L2), GEM-T1, TEG-2, and third body perturbations due to the Sun and Moon. Nongravitational forces considered were the solar radiation pressure, and perturbations due to thermal venting and thermal imbalance. At the GPS satellite orbit accuracy level required for crustal dynamic applications, models for the nongravitational perturbation play a critical role, since the gravitational forces are well understood and are modeled adequately for GPS satellite orbits.

WW Geminorum: An early B-type eclipsing binary evolving into the contact phase

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yang, Y.-G.; Dai, H.-F.; Yin, X.-G.

2014-11-01

WW Gem is a B-type eclipsing binary with a period of 1.2378 days. The CCD photometry of this binary was performed in 2013 December using the 85 cm telescope at the Xinglong Stations of the National Astronomical Observatories of China. Using the updated W-D program, the photometric model was deduced from the VRI light curves. The results imply that WW Gem is a near-contact eclipsing binary whose primary component almost fills its Roche lobe. The photometric mass ratio is q {sub ph} = 0.48(± 0.05). All collected times of minimum light, including two new ones, were used for the periodmore » studies. The orbital period changes of WW Gem could be described by an upward parabola, possibly overlaid by a light-time orbit with a period of P {sub mod} = 7.41(± 0.04) yr and a semi-amplitude of A = 0.0079 days(± 0.0005 days), respectively. This kind of cyclic oscillation may be attributed to the light-travel time effect via the third body. The long-term period increases at a rate of dP/dt = +3.47(±0.04) × 10{sup –8} day yr{sup –1}, which may be explained by the conserved mass transfer from the less massive component to the more massive one. With mass transfer, the massive binary WW Gem may be evolving into a contact binary.« less

ULTRAVIOLET SPECTROSCOPY OF PQ Gem AND V405 Aur FROM THE HST AND IUE SATELLITES

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sanad, M. R., E-mail: mrsanad1@yahoo.com

Ultraviolet spectra of two intermediate polars (IPs), PQ Gem and V405 Aur, observed with Hubble Space Telescope (HST) Space Telescope Imaging Spectrograph and Faint Object Spectrograph and International Ultraviolet Explorer (IUE) satellites were analyzed during the period between 1994–2000. We estimated the reddening of the two systems from the 2200 Å feature. Six spectra of the two systems revealing modulations of line fluxes at different times are presented. PQ Gem and V405 Aur are featured by spectral lines in different ionization states. This paper focuses on the third ionized carbon emission line at 1550 Å and the first ionized heliummore » emission line at 1640 Å produced in the optically thin outer region of the accretion curtain for the two systems by calculating spectral line fluxes. From HST and IUE data, we deduced ultraviolet luminosities and ultraviolet accretion rates for the two binary stars. The average temperature of the accretion streams for PQ Gem and V405 Aur are ∼4500 K and 4100 K, respectively. The results reveal that there are modulations in fluxes of spectral lines, ultraviolet luminosities, and ultraviolet accretion rates with time for both systems. These modulations are referred to the changes of both density and temperature as a result of the variations of mass transfer rate from the secondary star to the primary star. The current results are consistent with an accretion curtain model for IPs.« less

Inherited genetic variants associated with occurrence of multiple primary melanoma.

PubMed

Gibbs, David C; Orlow, Irene; Kanetsky, Peter A; Luo, Li; Kricker, Anne; Armstrong, Bruce K; Anton-Culver, Hoda; Gruber, Stephen B; Marrett, Loraine D; Gallagher, Richard P; Zanetti, Roberto; Rosso, Stefano; Dwyer, Terence; Sharma, Ajay; La Pilla, Emily; From, Lynn; Busam, Klaus J; Cust, Anne E; Ollila, David W; Begg, Colin B; Berwick, Marianne; Thomas, Nancy E

2015-06-01

Recent studies, including genome-wide association studies, have identified several putative low-penetrance susceptibility loci for melanoma. We sought to determine their generalizability to genetic predisposition for multiple primary melanoma in the international population-based Genes, Environment, and Melanoma (GEM) Study. GEM is a case-control study of 1,206 incident cases of multiple primary melanoma and 2,469 incident first primary melanoma participants as the control group. We investigated the odds of developing multiple primary melanoma for 47 SNPs from 21 distinct genetic regions previously reported to be associated with melanoma. ORs and 95% confidence intervals were determined using logistic regression models adjusted for baseline features (age, sex, age by sex interaction, and study center). We investigated univariable models and built multivariable models to assess independent effects of SNPs. Eleven SNPs in 6 gene neighborhoods (TERT/CLPTM1L, TYRP1, MTAP, TYR, NCOA6, and MX2) and a PARP1 haplotype were associated with multiple primary melanoma. In a multivariable model that included only the most statistically significant findings from univariable modeling and adjusted for pigmentary phenotype, back nevi, and baseline features, we found TERT/CLPTM1L rs401681 (P = 0.004), TYRP1 rs2733832 (P = 0.006), MTAP rs1335510 (P = 0.0005), TYR rs10830253 (P = 0.003), and MX2 rs45430 (P = 0.008) to be significantly associated with multiple primary melanoma, while NCOA6 rs4911442 approached significance (P = 0.06). The GEM Study provides additional evidence for the relevance of these genetic regions to melanoma risk and estimates the magnitude of the observed genetic effect on development of subsequent primary melanoma. ©2015 American Association for Cancer Research.

Inherited genetic variants associated with occurrence of multiple primary melanoma

PubMed Central

Gibbs, David C.; Orlow, Irene; Kanetsky, Peter A.; Luo, Li; Kricker, Anne; Armstrong, Bruce K.; Anton-Culver, Hoda; Gruber, Stephen B.; Marrett, Loraine D.; Gallagher, Richard P.; Zanetti, Roberto; Rosso, Stefano; Dwyer, Terence; Sharma, Ajay; La Pilla, Emily; From, Lynn; Busam, Klaus J.; Cust, Anne E.; Ollila, David W.; Begg, Colin B.; Berwick, Marianne; Thomas, Nancy E.

2015-01-01

Recent studies including genome-wide association studies have identified several putative low-penetrance susceptibility loci for melanoma. We sought to determine their generalizability to genetic predisposition for multiple primary melanoma in the international population-based Genes, Environment, and Melanoma (GEM) Study. GEM is a case-control study of 1,206 incident cases of multiple primary melanoma and 2,469 incident first primary melanoma participants as the control group. We investigated the odds of developing multiple primary melanoma for 47 single nucleotide polymorphisms (SNP) from 21 distinct genetic regions previously reported to be associated with melanoma. ORs and 95% CIs were determined using logistic regression models adjusted for baseline features (age, sex, age by sex interaction, and study center). We investigated univariable models and built multivariable models to assess independent effects of SNPs. Eleven SNPs in 6 gene neighborhoods (TERT/CLPTM1L, TYRP1, MTAP, TYR, NCOA6, and MX2) and a PARP1 haplotype were associated with multiple primary melanoma. In a multivariable model that included only the most statistically significant findings from univariable modeling and adjusted for pigmentary phenotype, back nevi, and baseline features, we found TERT/CLPTM1L rs401681 (P = 0.004), TYRP1 rs2733832 (P = 0.006), MTAP rs1335510 (P = 0.0005), TYR rs10830253 (P = 0.003), and MX2 rs45430 (P = 0.008) to be significantly associated with multiple primary melanoma while NCOA6 rs4911442 approached significance (P = 0.06). The GEM study provides additional evidence for the relevance of these genetic regions to melanoma risk and estimates the magnitude of the observed genetic effect on development of subsequent primary melanoma. PMID:25837821

HEAVY-DUTY GREENHOUSE GAS EMISSIONS MODEL (GEM)

EPA Science Inventory

Class 2b-8 vocational truck manufacturers and Class 7/8 tractor manufacturers would be subject to vehicle-based fuel economy and emission standards that would use a truck simulation model to evaluate the impact of the truck tires and/or tractor cab design on vehicle compliance wi...

Integrated Farm System Model Version 4.1 and Dairy Gas Emissions Model Version 3.1 software release and distribution

USDA-ARS?s Scientific Manuscript database

Animal facilities are significant contributors of gaseous emissions including ammonia (NH3) and nitrous oxide (N2O). Previous versions of the Integrated Farm System Model (IFSM version 4.0) and Dairy Gas Emissions Model (DairyGEM version 3.0), two whole-farm simulation models developed by USDA-ARS, ...

16 CFR 23.25 - Misuse of the word “gem.”

Code of Federal Regulations, 2010 CFR

2010-01-01

... 16 Commercial Practices 1 2010-01-01 2010-01-01 false Misuse of the word âgem.â 23.25 Section 23... JEWELRY, PRECIOUS METALS, AND PEWTER INDUSTRIES § 23.25 Misuse of the word “gem.” (a) It is unfair or deceptive to use the word “gem” to describe, identify, or refer to a ruby, sapphire, emerald, topaz, or...

Comparison of the accuracy of hemoglobin point of care testing using HemoCue and GEM Premier 3000 with automated hematology analyzer in emergency room.

PubMed

Zatloukal, Jan; Pouska, Jiri; Kletecka, Jakub; Pradl, Richard; Benes, Jan

2016-12-01

The laboratory analysis provides accurate, but time consuming hemoglobin level estimation especially in the emergency setting. The reliability of time-sparing point of care devices (POCT) remains uncertain. We tested two POCT devices accuracy (HemoCue ® 201 + and Gem ® Premier™3000) in routine emergency department workflow. Blood samples taken from patients admitted to the emergency department were analyzed for hemoglobin concentration using a laboratory reference Beckman Coulter LH 750 (HB LAB ), the HemoCue (HB HC ) and the Gem Premier 3000 (HB GEM ). Pairwise comparison for each device and Hb LAB was performed using correlation and the Bland-Altman methods. The reliability of transfusion decision was assessed using three-zone error grid. A total of 292 measurements were performed in 99 patients. Mean hemoglobin level were 115 ± 33, 110 ± 28 and 111 ± 30 g/l for Hb HC , Hb GEM and Hb LAB respectively. A significant correlation was observed for both devices: Hb HC versus Hb LAB (r 2  = 0.93, p < 0.001) and HB GEM versus HB LAB (r 2  = 0.86, p < 0.001). The Bland-Altman method revealed bias of -3.7 g/l (limits of agreement -20.9 to 13.5) for HB HC and HB LAB and 2.5 g/l (-18.6 to 23.5) for HB GEM and HB LAB , which significantly differed between POCT devices (p < 0.001). Using the error grid methodology: 94 or 91 % of values (Hb HC and Hb GEM ) fell in the zone of acceptable difference (A), whereas 0 and 1 % (Hb HC and Hb GEM ) were unacceptable (zone C). The absolute accuracy of tested POCT devices was low though reaching a high level of correlation with laboratory measurement. The results of the Morey´s error grid were unfavorable for both POCT devices.

Zooming in on star formation in the brightest galaxies of the early Universe discovered with the Planck and Herschel satellites

NASA Astrophysics Data System (ADS)

Canameras, Raoul

2016-09-01

Strongly gravitationally lensed galaxies offer an outstanding opportunity to characterize the most intensely star-forming galaxies in the high-redshift universe. In the most extreme cases, one can probe the mechanisms that underlie the intense star formation on the scales of individual star-forming regions. This requires very fortuitous gravitational lensing configurations offering magnification factors >>10, which are particularly rare toward the high-redshift dusty star-forming galaxies. The Planck's Dusty GEMS (Gravitationally Enhanced subMillimeter Sources) sample contains eleven of the brightest high-redshift galaxies discovered with the Planck submillimeter all-sky survey, with flux densities between 300 and 1000 mJy at 350 microns, factors of a few brighter than the majority of lensed sources previously discovered with other surveys. Six of them are above the 90% completeness limit of the Planck Catalog of Compact Sources (PCCS), suggesting that they are among the brightest high-redshift sources on the sky selected by their active star formation. This thesis comes within the framework of the extensive multi-wavelength follow-up programme designed to determine the overall properties of the high-redshift sources and to probe the lensing configurations. Firstly, to characterize the intervening lensing structures and calculate lensing models, I use optical and near/mid-infrared imaging and spectroscopy. I deduce that our eleven GEMS are aligned with intervening matter overdensities at intermediate redshift, either massive isolated galaxies or galaxy groups and clusters. The foreground sources exhibit evolved stellar populations of a few giga years, characteristic of early-type galaxies. Moreover, the first detailed models of the light deflection toward the GEMS suggest magnification factors systematically >10, and >20 for some lines-of-sight. Secondly, we observe the GEMS in the far-infrared and sub-millimeter domains in order to characterize the background sources. The sub-arcsec resolution IRAM and SMA interferometry shows distorded morphologies which definitively confirm that the eleven sources are strongly lensed. I obtain dust temperatures between 33 and 50 K, and outstanding far-infrared luminosities of up to 2x1014 solar luminosities before correcting for the gravitational magnification. The relationship between dust temperatures and far-infrared luminosities also confirms that the GEMS are brighter than field galaxies at a given dust temperature. I conclude that dust heating seems to be strongly dominated by the star formation activity with an AGN contamination systematically below 30%. We find secure spectroscopic redshifts between 2.2 and 3.6 for the eleven targets thanks to the detection of at least two CO emission lines per source. Finally, I focus on the three gravitationally lensed sources showing the most remarkable properties including the brightest GEMS, a maximal starburst with star formation surface densities near the Eddington limit.

JPL Developments in Retrieval Algorithms for Geostationary Observations - Applications to H2CO

NASA Technical Reports Server (NTRS)

Kurosu, Thomas P.; Kulawik, Susan; Natraj, Vijay

2012-01-01

JPL has strong expertise in atmospheric retrievals from UV and thermal IR, and a wide range of tools to apply to observations and instrument characterization. Radiative Transfer, AMF, Inversion, Fitting, Assimilation. Tools were applied for a preliminary study of H2CO sensitivities from GEO. Results show promise for moderate/strong H2CO lading but also that low background conditions will prove a challenge. H2CO DOF are not too strongly dependent on FWHM. GEMS (Geostationary Environmental Monitoring Spectrometer) choice of 0.6 nm FWHM (?) spectral resolution is adequate for H2CO retrievals. Case study can easily be adapted to GEMS observations/instrument model for more in-depth sensitivity characterization.

Prediction of Exploration Target Areas for GEM Deposits in Mogok Stone Tract, Northern Myanmar by Integrating Remote Sensing and Geoscience Data

NASA Astrophysics Data System (ADS)

Oo, Tin Ko

2011-07-01

The Mogok Stone Tract area has long been known for world famous finest ruby since 1597. The Mogok area lies in northern Myanmar and is located at about 205.99km northeast from Mandalay, the second largest city of Myanmar. The Mogok Group of metasedimentary rocks is divided into four units: (1) Wabyudaung Marble, (2) Ayenyeinchantha Calc-silicate, (3) Gwebin Quartzite, and (4) Kabe Gneiss. Igneous rocks in the Mogok area are classified into two units: (1) Kabaing Granite and (2) Pingutaung Leucogranite. The Mogok area has a complex structure involving several folds and faults. Using marbles and calc-silicates as marker horizons, a series of anticline and syncline can be identified such as Mogok syncline, Ongaing anticline, Bawpadan syncline, and Kyatpyin anticline. All the foldings show a low-angle plunge to the south. The main precious stones of the Mogok area are ruby and sapphire; and the other important semi-precious stones are spinel, topaz, peridot, garnet, apatite, beryl, tourmaline (rubellite), quartz, diopside, fluorite, and enstatite. Geological and remote sensing data are processed to extract the indicative features of gem mineralized areas: lithology, structure, and hydrothermal alteration. Density slice version of Landsat ETM band ratios 5/7 is used to map clay alterations. Filtering Landsat ETM band 5 by using edge detection filter is applied for lineament mapping. Spatial integration of various geoscience and remote sensing data sets such as geological maps, Landsat ETM images, and the location map of gem mines show the distribution of alteration zones associated with the gem mineralization in the study area. Geographic Information System (GIS) model has been designed and implemented by ARCVIEW software package based on the overlay of lithologic, lineament, and alteration vector maps. This process has resulted in delineation of most promising areas of probable gem mineralized zones as on the output map.

Changes in Nutritional and Functional Status in Longer Stay Patients Admitted to a Geriatric Evaluation and Management Unit.

PubMed

Whitley, A; Skliros, E; Graven, C; McIntosh, R; Lasry, C; Newsome, C; Bowie, A

2017-01-01

Malnutrition and functional decline are common in older inpatients admitted to subacute care settings. However the association between changes in nutritional status and relevant functional outcomes remains under-researched. This study examined changes in nutritional status, function and mobility in patients admitted to a Geriatric Evaluation and Management (GEM) unit who had a length of stay (LOS) longer than 21 days. A prospective, observational study. Two GEM units at St Vincent's Hospital Melbourne, Australia. Patients admitted to the GEM units who stayed longer than 21 days were included in the study. Patients were assessed on admission and prior to discharge using the Subjective Global Assessment (SGA), Functional Independence Measure (FIM) motor domain and the Modified Elderly Mobility Scale (MEMS). Fifty-nine patients (Mean age 84.0 ± 7 years) met the required length of stay and were included in the study. Fifty-four per cent (n=32) were malnourished on admission (SGA B/C) and 44% (n=26) were malnourished on discharge. Twenty-two per cent (n=13) improved SGA category, 75% remained stable (n=44) and 3% deteriorated (n=2) from admission to discharge. Total Motor FIM scores significantly increased from admission to discharge in both the improved (p<0.001) and stable or deteriorated (p<0.001) nutritional status groups. Subjects who improved in nutritional status had a significantly higher MEMS score at discharge (p<0.001). On admission to the GEM unit, just over half the included patients were rated as malnourished defined by SGA category. Nearly one quarter of the sample had improved their nutritional status at the time of discharge. Improvement in nutritional status was associated with greater improvement in mobility scores. Further studies are required to investigate the effectiveness of nutrition interventions, which will inform models of care aiming to optimise nutritional, functional, and associated clinical outcomes in patients admitted to GEM units.

The Gemin associates of survival motor neuron are required for motor function in Drosophila.

PubMed

Borg, Rebecca; Cauchi, Ruben J

2013-01-01

Membership of the survival motor neuron (SMN) complex extends to nine factors, including the SMN protein, the product of the spinal muscular atrophy (SMA) disease gene, Gemins 2-8 and Unrip. The best-characterised function of this macromolecular machine is the assembly of the Sm-class of uridine-rich small nuclear ribonucleoprotein (snRNP) particles and each SMN complex member has a key role during this process. So far, however, only little is known about the function of the individual Gemin components in vivo. Here, we make use of the Drosophila model organism to uncover loss-of-function phenotypes of Gemin2, Gemin3 and Gemin5, which together with SMN form the minimalistic fly SMN complex. We show that ectopic overexpression of the dead helicase Gem3(ΔN) mutant or knockdown of Gemin3 result in similar motor phenotypes, when restricted to muscle, and in combination cause lethality, hence suggesting that Gem3(ΔN) overexpression mimics a loss-of-function. Based on the localisation pattern of Gem3(ΔN), we predict that the nucleus is the primary site of the antimorphic or dominant-negative mechanism of Gem3(ΔN)-mediated interference. Interestingly, phenotypes induced by human SMN overexpression in Drosophila exhibit similarities to those induced by overexpression of Gem3(ΔN). Through enhanced knockdown we also uncover a requirement of Gemin2, Gemin3 and Gemin5 for viability and motor behaviour, including locomotion as well as flight, in muscle. Notably, in the case of Gemin3 and Gemin5, such function also depends on adequate levels of the respective protein in neurons. Overall, these findings lead us to speculate that absence of any one member is sufficient to arrest the SMN-Gemins complex function in a nucleocentric pathway, which is critical for motor function in vivo.

Evaluation of a GEM and CAT-based detector for radiation therapy beam monitoring

NASA Astrophysics Data System (ADS)

Brahme, A.; Danielsson, M.; Iacobaeus, C.; Ostling, J.; Peskov, V.; Wallmark, M.

2000-11-01

We are developing a radiation therapy beam monitor for the Karolinska Institute. This monitor will consist of two consecutive detectors confined in one gas chamber: a "keV-photon detector", which will allow diagnostic quality visualization of the patient, and a "MeV-photon detector", that will measure the absolute intensity of the therapy beam and its position with respect to the patient. Both detectors are based on highly radiation resistant gas and solid photon to electron converters, combined with GEMs and a CAT as amplification structures. We have performed systematic studies of the high-rate characteristics of the GEM and the CAT, as well as tested the electron transfer through these electron multipliers and various types of converters. The tests show that the GEM and the CAT satisfy all requirements for the beam monitoring system. As a result of these studies we successfully developed and tested a full section of the beam monitor equipped with a MeV-photon converter placed between the GEM and the CAT.

MeerLICHT and BlackGEM: custom-built telescopes to detect faint optical transients

NASA Astrophysics Data System (ADS)

Bloemen, Steven; Groot, Paul; Woudt, Patrick; Klein Wolt, Marc; McBride, Vanessa; Nelemans, Gijs; Körding, Elmar; Pretorius, Margaretha L.; Roelfsema, Ronald; Bettonvil, Felix; Balster, Harry; Bakker, Roy; Dolron, Peter; van Elteren, Arjen; Elswijk, Eddy; Engels, Arno; Fender, Rob; Fokker, Marc; de Haan, Menno; Hagoort, Klaas; de Hoog, Jasper; ter Horst, Rik; van der Kevie, Giel; Kozłowski, Stanisław; Kragt, Jan; Lech, Grzegorz; Le Poole, Rudolf; Lesman, Dirk; Morren, Johan; Navarro, Ramon; Paalberends, Willem-Jelle; Paterson, Kerry; Pawłaszek, Rafal; Pessemier, Wim; Raskin, Gert; Rutten, Harrie; Scheers, Bart; Schuil, Menno; Sybilski, Piotr W.

2016-07-01

We present the MeerLICHT and BlackGEM telescopes, which are wide-field optical telescopes that are currently being built to study transient phenomena, gravitational wave counterparts and variable stars. The telescopes have 65 cm primary mirrors and a 2.7 square degree field-of-view. The MeerLICHT and BlackGEM projects have different science goals, but will use identical telescopes. The first telescope, MeerLICHT, will be commissioned at Sutherland (South Africa) in the first quarter of 2017. It will co-point with MeerKAT to collect optical data commensurate with the radio observations. After careful analysis of MeerLICHT's performance, three telescopes of the same type will be commissioned in La Silla (Chile) in 2018 to form phase I of the BlackGEM array. BlackGEM aims at detecting and characterizing optical counterparts of gravitational wave events detected by Advanced LIGO and Virgo. In this contribution we present an overview of the science goals, the design and the status of the two projects.

Implementation of the P barANDA Planar-GEM tracking detector in Monte Carlo simulations

NASA Astrophysics Data System (ADS)

Divani Veis, Nazila; Ehret, Andre; Firoozabadi, Mohammad M.; Karabowicz, Radoslaw; Maas, Frank; Saito, Nami; Saito, Takehiko R.; Voss, Bernd; PANDA Gem-Tracker Subgroup

2018-02-01

The P barANDA experiment at FAIR will be performed to investigate different aspects of hadron physics using anti-proton beams interacting with a fixed nuclear target. The experimental setup consists of a complex series of detector components covering a large solid angle. A detector with a gaseous active media equipped with gas electron multiplier (GEM) technique will be employed to measure tracks of charged particles at forward direction in order to achieve a high momentum resolution. In this work, a full setup of the GEM tracking detector has been implemented in the P barANDA Monte Carlo simulation package (PandaRoot) based on the current technical and conceptual design, and the expected performance of the P barANDA GEM-tracking detector has been investigated. Furthermore, material-budget studies in terms of the radiation length of the P barANDA GEM-tracking detector have been made in order to investigate the effect of the detector materials and its associated structures to particle measurements.

Assimilation and High Resolution Forecasts of Surface and Near Surface Conditions for the 2010 Vancouver Winter Olympic and Paralympic Games

NASA Astrophysics Data System (ADS)

Bernier, Natacha B.; Bélair, Stéphane; Bilodeau, Bernard; Tong, Linying

2014-01-01

A dynamical model was experimentally implemented to provide high resolution forecasts at points of interests in the 2010 Vancouver Olympics and Paralympics Region. In a first experiment, GEM-Surf, the near surface and land surface modeling system, is driven by operational atmospheric forecasts and used to refine the surface forecasts according to local surface conditions such as elevation and vegetation type. In this simple form, temperature and snow depth forecasts are improved mainly as a result of the better representation of real elevation. In a second experiment, screen level observations and operational atmospheric forecasts are blended to drive a continuous cycle of near surface and land surface hindcasts. Hindcasts of the previous day conditions are then regarded as today's optimized initial conditions. Hence, in this experiment, given observations are available, observation driven hindcasts continuously ensure that daily forecasts are issued from improved initial conditions. GEM-Surf forecasts obtained from improved short-range hindcasts produced using these better conditions result in improved snow depth forecasts. In a third experiment, assimilation of snow depth data is applied to further optimize GEM-Surf's initial conditions, in addition to the use of blended observations and forecasts for forcing. Results show that snow depth and summer temperature forecasts are further improved by the addition of snow depth data assimilation.

Anti-tumor immune response correlates with neurological symptoms in a dog with spontaneous astrocytoma treated by gene and vaccine therapy.

PubMed

Pluhar, G Elizabeth; Grogan, Patrick T; Seiler, Charlie; Goulart, Michelle; Santacruz, Karen S; Carlson, Cathy; Chen, Wei; Olin, Mike R; Lowenstein, Pedro R; Castro, Maria G; Haines, Stephen J; Ohlfest, John R

2010-04-26

Gene therapy and vaccination have been tested in malignant glioma patients with modest, albeit encouraging results. The combination of these therapies has demonstrated synergistic efficacy in murine models but has not been reported in large animals. Gemistocytic astrocytoma (GemA) is a low-grade glioma that typically progresses to lethal malignancy despite conventional therapies. Until now there has been no useful animal model of GemA. Here we report the treatment of a dog with spontaneous GemA using the combination of surgery, intracavitary adenoviral interferon gamma (IFNgamma) gene transfer, and vaccination with glioma cell lysates mixed with CpG oligodeoxynucleotides. Surgical tumor debulking and delivery of Ad-IFNgamma into the resection cavity were performed. Autologous tumor cells grew slowly in culture, necessitating vaccination with allogeneic tumor lysate in four of the five vaccinations. Transient left-sided blindness and hemiparesis occurred following the fourth and fifth vaccinations. These neurological symptoms correlated with a peak in the levels of tumor-reactive IgG and CD8(+) T cells measured in the blood. All symptoms resolved and this dog remains tumor-free over 450 days following surgery. This case report preliminarily demonstrates the feasibility of treating dogs with spontaneous glioma using immune-based therapy and warrants further study using this therapeutic approach. Copyright 2010 Elsevier Ltd. All rights reserved.

Identifying the Source of Gem Diamonds: Requirements for a Certification System

NASA Astrophysics Data System (ADS)

Shigley, J. E.

2002-05-01

Recent civil conflicts in several countries, in which profits from the sales of gem diamonds have supported the rival factions, have forced the jewelry industry to confront the need to certify the geographic sources of gem diamonds. The goals of this program are to prohibit the sale of so-called "conflict diamonds", and to prevent the loss of consumer confidence. Efforts to identify unique characteristics of gem diamonds have been hampered so far by the absence of chemical or physical features that are diagnostic of particular sources, and the lack of a representative collection of diamonds from major producing areas that would be required for a rigorous scientific study. The jewelry industry has therefore adopted plans to track gem diamonds from the mine through the manufacturing process to the consumer. Practical requirements for implementation of such a certification system will be summarized. Any proposed solutions for determining the sources of gem diamonds by some analytical technique, or for following diamonds from the mine, must take into account the annual production of several tens of millions of carats of rough diamonds, which are transformed during manufacturing into several hundreds of millions of polished gemstones (with an average weight of only about 0.03 carat, or 0.006 gram).

Electrochemical DNA biosensor based on poly(2,6-pyridinedicarboxylic acid) modified glassy carbon electrode for the determination of anticancer drug gemcitabine.

PubMed

Tığ, Gözde Aydoğdu; Zeybek, Bülent; Pekyardımcı, Şule

2016-07-01

In this study, a simple methodology was used to develop a new electrochemical DNA biosensor based on poly(2,6-pyridinedicarboxylic acid) (P(PDCA)) modified glassy carbon electrode (GCE). This modified electrode was used to monitor for the electrochemical interaction between the dsDNA and gemcitabine (GEM) for the first time. A decrease in oxidation signals of guanine after the interaction of the dsDNA with the GEM was used as an indicator for the selective determination of the GEM via differential pulse voltammetry (DPV). The guanine oxidation peak currents were linearly proportional to the concentrations of the GEM in the range of 1-30mgL(‒1). Limit of detection (LOD) and limit of quantification (LOQ) were found to be 0.276mgL(‒1) and 0.922mgL(‒1), respectively. The reproducibility, repeatability, and applicability of the analysis to pharmaceutical dosage forms and human serum samples were also examined. In addition to DPV method, UV-vis and viscosity measurements were utilized to propose the interaction mechanism between the GEM and the dsDNA. The novel DNA biosensor could serve for sensitive, accurate and rapid determination of the GEM. Copyright © 2016 Elsevier B.V. All rights reserved.

Use of quantitative molecular diagnostic methods to identify causes of diarrhoea in children: a reanalysis of the GEMS case-control study.

PubMed

Liu, Jie; Platts-Mills, James A; Juma, Jane; Kabir, Furqan; Nkeze, Joseph; Okoi, Catherine; Operario, Darwin J; Uddin, Jashim; Ahmed, Shahnawaz; Alonso, Pedro L; Antonio, Martin; Becker, Stephen M; Blackwelder, William C; Breiman, Robert F; Faruque, Abu S G; Fields, Barry; Gratz, Jean; Haque, Rashidul; Hossain, Anowar; Hossain, M Jahangir; Jarju, Sheikh; Qamar, Farah; Iqbal, Najeeha Talat; Kwambana, Brenda; Mandomando, Inacio; McMurry, Timothy L; Ochieng, Caroline; Ochieng, John B; Ochieng, Melvin; Onyango, Clayton; Panchalingam, Sandra; Kalam, Adil; Aziz, Fatima; Qureshi, Shahida; Ramamurthy, Thandavarayan; Roberts, James H; Saha, Debasish; Sow, Samba O; Stroup, Suzanne E; Sur, Dipika; Tamboura, Boubou; Taniuchi, Mami; Tennant, Sharon M; Toema, Deanna; Wu, Yukun; Zaidi, Anita; Nataro, James P; Kotloff, Karen L; Levine, Myron M; Houpt, Eric R

2016-09-24

Diarrhoea is the second leading cause of mortality in children worldwide, but establishing the cause can be complicated by diverse diagnostic approaches and varying test characteristics. We used quantitative molecular diagnostic methods to reassess causes of diarrhoea in the Global Enteric Multicenter Study (GEMS). GEMS was a study of moderate to severe diarrhoea in children younger than 5 years in Africa and Asia. We used quantitative real-time PCR (qPCR) to test for 32 enteropathogens in stool samples from cases and matched asymptomatic controls from GEMS, and compared pathogen-specific attributable incidences with those found with the original GEMS microbiological methods, including culture, EIA, and reverse-transcriptase PCR. We calculated revised pathogen-specific burdens of disease and assessed causes in individual children. We analysed 5304 sample pairs. For most pathogens, incidence was greater with qPCR than with the original methods, particularly for adenovirus 40/41 (around five times), Shigella spp or enteroinvasive Escherichia coli (EIEC) and Campylobactor jejuni o C coli (around two times), and heat-stable enterotoxin-producing E coli ([ST-ETEC] around 1·5 times). The six most attributable pathogens became, in descending order, Shigella spp, rotavirus, adenovirus 40/41, ST-ETEC, Cryptosporidium spp, and Campylobacter spp. Pathogen-attributable diarrhoeal burden was 89·3% (95% CI 83·2-96·0) at the population level, compared with 51·5% (48·0-55·0) in the original GEMS analysis. The top six pathogens accounted for 77·8% (74·6-80·9) of all attributable diarrhoea. With use of model-derived quantitative cutoffs to assess individual diarrhoeal cases, 2254 (42·5%) of 5304 cases had one diarrhoea-associated pathogen detected and 2063 (38·9%) had two or more, with Shigella spp and rotavirus being the pathogens most strongly associated with diarrhoea in children with mixed infections. A quantitative molecular diagnostic approach improved population-level and case-level characterisation of the causes of diarrhoea and indicated a high burden of disease associated with six pathogens, for which targeted treatment should be prioritised. Bill & Melinda Gates Foundation. Copyright © 2016 Elsevier Ltd. All rights reserved.

The fibrate drug gemfibrozil disrupts lipoprotein metabolism in rainbow trout

DOE Office of Scientific and Technical Information (OSTI.GOV)

Prindiville, John S., E-mail: jprin041@uottawa.ca; Mennigen, Jan A.; Zamora, Jake M.

2011-03-15

Gemfibrozil (GEM) is a fibrate drug consistently found in effluents from sewage treatment plants. This study characterizes the pharmacological effects of GEM on the plasma lipoproteins of rainbow trout (Oncorhynchus mykiss). Our goals were to quantify the impact of the drug on: 1) lipid constituents of lipoproteins (phospholipids (PL), triacylglycerol (TAG), and cholesterol), 2) lipoprotein classes (high, low and very low density lipoproteins), and 3) fatty acid composition of lipoproteins. Potential mechanisms of GEM action were investigated by measuring lipoprotein lipase activity (LPL) and the hepatic gene expression of LPL and of the peroxisome proliferator-activated receptor (PPAR) {alpha}, {beta}, andmore » {gamma} isoforms. GEM treatment resulted in decreased plasma lipoprotein levels (- 29%) and a reduced size of all lipoprotein classes (lower PL:TAG ratios). However, the increase in HDL-cholesterol elicited by GEM in humans failed to be observed in trout. Therefore, HDL-cholesterol cannot be used to assess the impact of the drug on fish. GEM also modified lipoprotein composition by reducing the abundance of long-chain n-3 fatty acids, thereby potentially reducing the nutritional quality of exposed fish. The relative gene expression of LPL was increased, but the activity of the enzyme was not, and we found no evidence for the activation of PPAR pathways. The depressing effects of GEM on fish lipoproteins demonstrated here may be a concern in view of the widespread presence of fibrates in aquatic environments. Work is needed to test whether exposure to environmental concentrations of these drugs jeopardizes the capacity of fish for reproduction, temperature acclimation or migratory behaviors.« less

A comparison of speciated atmospheric mercury at an urban center and an upwind rural location

USGS Publications Warehouse

Rutter, A.P.; Schauer, J.J.; Lough, G.C.; Snyder, D.C.; Kolb, C.J.; Von Klooster, S.; Rudolf, T.; Manolopoulos, H.; Olson, M.L.

2008-01-01

Gaseous elemental mercury (GEM), particulate mercury (PHg) and reactive gaseous mercury (RGM) were measured every other hour at a rural location in south central Wisconsin (Devil's Lake State Park, WI, USA) between April 2003 and March 2004, and at a predominantly downwind urban site in southeastern Wisconsin (Milwaukee, WI, USA) between June 2004 and May 2005. Annual averages of GEM, PHg, and RGM at the urban site were statistically higher than those measured at the rural site. Pollution roses of GEM and reactive mercury (RM; sum of PHg and RGM) at the rural and urban sites revealed the influences of point source emissions in surrounding counties that were consistent with the US EPA 1999 National Emission Inventory and the 2003-2005 US EPA Toxics Release Inventory. Source-receptor relationships at both sites were studied by quantifying the impacts of point sources on mercury concentrations. Time series of GEM, PHg, and RGM concentrations were sorted into two categories; time periods dominated by impacts from point sources, and time periods dominated by mercury from non-point sources. The analysis revealed average point source contributions to GEM, PHg, and RGM concentration measurements to be significant over the year long studies. At the rural site, contributions to annual average concentrations were: GEM (2%; 0.04 ng m-3); and, RM (48%; 5.7 pg m-3). At the urban site, contributions to annual average concentrations were: GEM (33%; 0.81 ng m-3); and, RM (64%; 13.8 pg m-3). ?? The Royal Society of Chemistry.

Gemstones

USGS Publications Warehouse

Olson, D.W.

2003-01-01

Part of the 2002 industrial minerals review. Statistics on gemstone production, processing, consumption, prices, and trade are provided. The outlook for gem diamonds and other precious gems is considered.

Depletion of pro-oncogenic RUNX2 enhances gemcitabine (GEM) sensitivity of p53-mutated pancreatic cancer Panc-1 cells through the induction of pro-apoptotic TAp63.

PubMed

Ozaki, Toshinori; Nakamura, Mizuyo; Ogata, Takehiro; Sang, Meijie; Yoda, Hiroyuki; Hiraoka, Kiriko; Sang, Meixiang; Shimozato, Osamu

2016-11-01

Recently, we have described that siRNA-mediated silencing of runt-related transcription factor 2 (RUNX2) improves anti-cancer drug gemcitabine (GEM) sensitivity of p53-deficient human pancreatic cancer AsPC-1 cells through the augmentation of p53 family TAp63-dependent cell death pathway. In this manuscript, we have extended our study to p53-mutated human pancreatic cancer Panc-1 cells. According to our present results, knockdown of mutant p53 alone had a marginal effect on GEM-mediated cell death of Panc-1 cells. We then sought to deplete RUNX2 using siRNA in Panc-1 cells and examined its effect on GEM sensitivity. Under our experimental conditions, RUNX2 knockdown caused a significant enhancement of GEM sensitivity of Panc-1 cells. Notably, GEM-mediated induction of TAp63 but not of TAp73 was further stimulated in RUNX2-depleted Panc-1 cells, indicating that, like AsPC-1 cells, TAp63 might play a pivotal role in the regulation of GEM sensitivity of Panc-1 cells. Consistent with this notion, forced expression of TAp63α in Panc-1 cells promoted cell cycle arrest and/or cell death, and massively increased luciferase activities driven by TAp63-target gene promoters such as p21WAF1 and NOXA. In addition, immunoprecipitation experiments indicated that RUNX2 forms a complex with TAp63 in Panc-1 cells. Taken together, our current observations strongly suggest that depletion of RUNX2 enhances the cytotoxic effect of GEM on p53-mutated Panc-1 cells through the stimulation of TAp63-dependent cell death pathway even in the presence of a large amount of pro-oncogenic mutant p53, and might provide an attractive strategy to treat pancreatic cancer patients with p53 mutations.

Depletion of pro-oncogenic RUNX2 enhances gemcitabine (GEM) sensitivity of p53-mutated pancreatic cancer Panc-1 cells through the induction of pro-apoptotic TAp63

PubMed Central

Ozaki, Toshinori; Nakamura, Mizuyo; Ogata, Takehiro; Sang, Meijie; Yoda, Hiroyuki; Hiraoka, Kiriko; Sang, Meixiang; Shimozato, Osamu

2016-01-01

Recently, we have described that siRNA-mediated silencing of runt-related transcription factor 2 (RUNX2) improves anti-cancer drug gemcitabine (GEM) sensitivity of p53-deficient human pancreatic cancer AsPC-1 cells through the augmentation of p53 family TAp63-dependent cell death pathway. In this manuscript, we have extended our study to p53-mutated human pancreatic cancer Panc-1 cells. According to our present results, knockdown of mutant p53 alone had a marginal effect on GEM-mediated cell death of Panc-1 cells. We then sought to deplete RUNX2 using siRNA in Panc-1 cells and examined its effect on GEM sensitivity. Under our experimental conditions, RUNX2 knockdown caused a significant enhancement of GEM sensitivity of Panc-1 cells. Notably, GEM-mediated induction of TAp63 but not of TAp73 was further stimulated in RUNX2-depleted Panc-1 cells, indicating that, like AsPC-1 cells, TAp63 might play a pivotal role in the regulation of GEM sensitivity of Panc-1 cells. Consistent with this notion, forced expression of TAp63α in Panc-1 cells promoted cell cycle arrest and/or cell death, and massively increased luciferase activities driven by TAp63-target gene promoters such as p21WAF1 and NOXA. In addition, immunoprecipitation experiments indicated that RUNX2 forms a complex with TAp63 in Panc-1 cells. Taken together, our current observations strongly suggest that depletion of RUNX2 enhances the cytotoxic effect of GEM on p53-mutated Panc-1 cells through the stimulation of TAp63-dependent cell death pathway even in the presence of a large amount of pro-oncogenic mutant p53, and might provide an attractive strategy to treat pancreatic cancer patients with p53 mutations. PMID:27713122

GEM-loaded magnetic albumin nanospheres modified with cetuximab for simultaneous targeting, magnetic resonance imaging, and double-targeted thermochemotherapy of pancreatic cancer cells.

PubMed

Wang, Ling; An, Yanli; Yuan, Chenyan; Zhang, Hao; Liang, Chen; Ding, Fengan; Gao, Qi; Zhang, Dongsheng

2015-01-01

Targeted delivery is a promising strategy to improve the diagnostic imaging and therapeutic effect of cancers. In this paper, novel cetuximab (C225)-conjugated, gemcitabine (GEM)-containing magnetic albumin nanospheres (C225-GEM/MANs) were fabricated and applied as a theranostic nanocarrier to conduct simultaneous targeting, magnetic resonance imaging (MRI), and double-targeted thermochemotherapy against pancreatic cancer cells. Fe3O4 nanoparticles (NPs) and GEM co-loaded albumin nanospheres (GEM/MANs) were prepared, and then C225 was further conjugated to synthesize C225-GEM/MANs. Their morphology, mean particle size, GEM encapsulation ratio, specific cell-binding ability, and thermal dynamic profiles were characterized. The effects of discriminating different EGFR-expressing pancreatic cancer cells (AsPC-1 and MIA PaCa-2) and monitoring cellular targeting effects were assessed by targeted MRI. Lastly, the antitumor efficiency of double/C225/magnetic-targeted and nontargeted thermochemotherapy was compared with chemotherapy alone using 3-(4, 5-dimethyl-2-thiazolyl)-2,5-diphenyl-2H-tetrazolium bromide (MTT) and flow cytometry (FCM) assay. When treated with targeted nanospheres, AsPC-1 cells showed a significantly less intense MRI T2 signal than MIA PaCa-2 cells, while both cells had similar signal strength when incubated with nontargeted nanospheres. T2 signal intensity was significantly lower when magnetic and C225 targeting were combined, rather than used alone. The inhibitory and apoptotic rates of each thermochemotherapy group were significantly higher than those of the chemotherapy-alone groups. Additionally, both MTT and FCM analysis verified that double-targeted thermochemotherapy had the highest targeted killing efficiency among all groups. The C225-GEM/MANs can distinguish various EGFR-expressing live pancreatic cancer cells, monitor diverse cellular targeting effects using targeted MRI imaging, and efficiently mediate double-targeted thermochemotherapy against pancreatic cancer cells.

Low-dose gemcitabine induces major histocompatibility complex class I-related chain A/B expression and enhances an antitumor innate immune response in pancreatic cancer.

PubMed

Miyashita, Tomoharu; Miki, Kenji; Kamigaki, Takashi; Makino, Isamu; Nakagawara, Hisatoshi; Tajima, Hidehiro; Takamura, Hiroyuki; Kitagawa, Hirohisa; Fushida, Sachio; Ahmed, Ali K; Duncan, Mark D; Harmon, John W; Ohta, Tetsuo

2017-02-01

We investigated the effect of gemcitabine (GEM), a key drug for pancreatic cancer treatment, on the expression of cell surface MICA/B in pancreatic cancer cells and resulting cytotoxicity of γδ T cells. We assessed the effect of GEM on the upregulation of cell surface MICA/B expression by flow cytometry, utilizing six pancreatic cancer cell lines. MICA and CD16 expressions from resected pancreatic cancer patient specimens, which received neoadjuvant chemotherapy (NAC) with GEM, were analyzed by immunohistochemistry. GEM could increase MICA/B expression on cell surface in pancreatic cancer cell lines (in 2 of 6 cell lines). This effect was most effectively at concentration not affecting cell growth of GEM (0.001 μM), because MICA/B negative population was appeared at concentration at cytostatic and cytotoxic effect to cell growth (0.1 and 10 μM). The cytotoxic activity of γδ T cells against PANC-1 was detected and functions through interactions between NKG2D and MICA/B. However, the enhancement of NKG2D-dependent cytotoxicity with increased MICA/B expression, by GEM treatment, was not observed. In addition, soluble MIC molecules were released from pancreatic cancer cell lines in culture supernatant with GEM treatment. Immunohistochemical staining demonstrated that MICA expression in tumor cells and CD16 positive cells surrounding tumors were significantly higher in the NAC group compared to that of the control group. There was a significant correlation between NAC and MICA expression, as well as NAC and CD16 positive cell expression. The present results indicate that low-dose GEM-induced MICA/B expression enhances innate immune function rather than cytotoxicity in pancreatic cancer. In addition, our result suggests that the inhibition of cleavage and release of MIC molecules from the tumor surface could potentially improve NKG2D-dependent cytotoxicity.

Extratropical Cyclones over Southwestern Atlantic Ocean: Present and Future Climates projected by RegCM4

NASA Astrophysics Data System (ADS)

Reboita, Michelle; Rodrigues, Marcelo; da Rocha, Rosmeri

2017-04-01

This study shows some of the climatological features of the extratropical cyclones in present and future climate over Southwestern Atlantic Ocean (SAO). The projections were carried out with Regional Climate Model (RegCM4) nested in HadGEM2-ES global model outputs and using representative concentration pathway 8.5 (RCP8.5) from the CMIP5. The simulations considered the South America domain suggested by CORDEX, horizontal grid spacing of 50 km, 18 sigma-pressure levels in the vertical. An objective tracking scheme based on cyclonic relative vorticity calculated using the wind at 925 hPa was used to identify the cyclones. All cyclones with relative vorticity lower than the -1.5 x 10-5 s-1 and with lifetime higher or equal 24 hours were included in the climatology. Considering the period from 1979 to 2098, RegCM4 and HadGEM2-ES project a negative trend in the frequency of the extratropical cyclones over SAO, with the biggest negative trend occuring in the latitudinal band between 40°S and 57.5°S. This result can be associated with the southward displacement of the baroclinic zone which contributes to the cyclones move to south leaving the region analyzed. The three subregions with largest cyclogenetic activity discussed in the literature (southeast coast of Brazil - RG1, coast of Uruguay and southern Brazil - RG2; east coast of Argentina - RG3) were better reproduced in RegCM4 than in HadGEM2-ES. Therefore, RegCM4 downscaling ads value in the HadGEM2-ES projections. The frequency of cyclones in present (1979-2005) and future climate (2070-2098) is higher in winter and lower in summer. Regarding the mean characteristics of the cyclones (life time, travel distance, velocity, initial relative vorticity and total average vorticity), both models successfully reproduced those obtained in the reanalysis (NCEP1, NCEP2, CFSR, ERA40 and ERA-Interim) and there are no significant differences in the future climate compared with the present.

Application of the GEM-T2 gravity field to altimetric satellite orbit computation

NASA Technical Reports Server (NTRS)

Haines, Bruce J.; Born, George H.; Williamson, Ronald G.; Koblinsky, Chester I.

1994-01-01

As part of a continuing effort to provide improved orbits for use with existing altimeter data, we have recomputed ephemerides for both the Seasat and Geosat Exact Repeat altimeter missions. The orbits were computed in a consistent fashion, using the Goddard Earth Model T2 (GEM-T2) gravity field along with available ground-based tracking data. Such an approach allows direct comparisons of sea level between the two altimeter systems. Evaluation of the resulting ephemerides indicates that root-mean-square accuracies of 30-50 cm have been achieved for the radial component of the orbits for both satellites. An exception occurs for the last year of the Geosat Exact Repeat Mission, when the rms radial orbit accuracy degrades to the 1-m level at times owing to the inability to adequately model the drag force arising from the increased solar activity.

Gains in the Education of Mathematics and Science GEMS: Teaching Robotics to High School Students

DTIC Science & Technology

2013-01-01

find amusing but that we find of less educational value, like having the robots say comical things. Those who have more teaching time would doubtless...Gains in the Education of Mathematics and Science GEMS: Teaching Robotics to High School Students by Edward M. Measure and Edward Creegan...TR-6220 January 2013 Gains in the Education of Mathematics and Science (GEMS): Teaching Robotics to High School Students Edward M

Python based integration of GEM detector electronics with JET data acquisition system

NASA Astrophysics Data System (ADS)

Zabołotny, Wojciech M.; Byszuk, Adrian; Chernyshova, Maryna; Cieszewski, Radosław; Czarski, Tomasz; Dalley, Simon; Hogben, Colin; Jakubowska, Katarzyna L.; Kasprowicz, Grzegorz; Poźniak, Krzysztof; Rzadkiewicz, Jacek; Scholz, Marek; Shumack, Amy

2014-11-01

This paper presents the system integrating the dedicated measurement and control electronic systems for Gas Electron Multiplier (GEM) detectors with the Control and Data Acquisition system (CODAS) in the JET facility in Culham, England. The presented system performs the high level procedures necessary to calibrate the GEM detector and to protect it against possible malfunctions or dangerous changes in operating conditions. The system also allows control of the GEM detectors from CODAS, setting of their parameters, checking their state, starting the plasma measurement and to reading the results. The system has been implemented using the Python language, using the advanced libraries for implementation of network communication protocols, for object based hardware management and for data processing.

Comparative genome-scale modelling of Staphylococcus aureus strains identifies strain-specific metabolic capabilities linked to pathogenicity

PubMed Central

Bosi, Emanuele; Monk, Jonathan M.; Aziz, Ramy K.; Fondi, Marco; Nizet, Victor; Palsson, Bernhard Ø.

2016-01-01

Staphylococcus aureus is a preeminent bacterial pathogen capable of colonizing diverse ecological niches within its human host. We describe here the pangenome of S. aureus based on analysis of genome sequences from 64 strains of S. aureus spanning a range of ecological niches, host types, and antibiotic resistance profiles. Based on this set, S. aureus is expected to have an open pangenome composed of 7,411 genes and a core genome composed of 1,441 genes. Metabolism was highly conserved in this core genome; however, differences were identified in amino acid and nucleotide biosynthesis pathways between the strains. Genome-scale models (GEMs) of metabolism were constructed for the 64 strains of S. aureus. These GEMs enabled a systems approach to characterizing the core metabolic and panmetabolic capabilities of the S. aureus species. All models were predicted to be auxotrophic for the vitamins niacin (vitamin B3) and thiamin (vitamin B1), whereas strain-specific auxotrophies were predicted for riboflavin (vitamin B2), guanosine, leucine, methionine, and cysteine, among others. GEMs were used to systematically analyze growth capabilities in more than 300 different growth-supporting environments. The results identified metabolic capabilities linked to pathogenic traits and virulence acquisitions. Such traits can be used to differentiate strains responsible for mild vs. severe infections and preference for hosts (e.g., animals vs. humans). Genome-scale analysis of multiple strains of a species can thus be used to identify metabolic determinants of virulence and increase our understanding of why certain strains of this deadly pathogen have spread rapidly throughout the world. PMID:27286824

Photometric Properties for Selected Algol-type Binaries. VIII. The Triple Systems DI Peg and AF Gem Revisited

NASA Astrophysics Data System (ADS)

Yang, Yuan-Gui; Yang, Ying; Li, Shu-Zheng

2014-06-01

New extensive photometry for two triple binary stars, DI Peg and AF Gem, was performed from 2012 October to 2013 January, with two small telescopes at Xinglong station (XLs) of NAOC. From new multi-color observations and previously published ones in literature, the photometric models were (re)deduced using the updated Wilson-Devinney code. The results indicated that the low third lights exist in two classic Algol-type binaries, whose fill-out factors for the more massive components are fp = 78.2(± 0.4)% for DI Peg, and fp = 69.0(± 0.3)% for AF Gem, respectively. Through analyzing the O-C curves, the orbital periods for two binaries change in the complicated mode. The period of DI Peg possibly appears to show two light-time orbits, whose modulated periods are P 3 = 54.6(± 0.5) yr and P 4 = 23.0(± 0.6) yr, respectively. The inferred minimum masses for the inner and outer sub-stellar companions are M in = 0.095 M ⊙ and M out = 0.170 M ⊙, respectively. Therefore, DI Peg may be a quadruple star. The orbital period of AF Gem appears to show a continuous period decrease or a cyclic variation; the latter may be preferable. The cyclic oscillation, with a period of 120.3(± 2.5) yr, may be attributed to the light-time effect due to the third body. This kind of additional companion may extract angular momentum from the central system, which may play a key role in the evolution of the binary.

FPGA-based GEM detector signal acquisition for SXR spectroscopy system

NASA Astrophysics Data System (ADS)

Wojenski, A.; Pozniak, K. T.; Kasprowicz, G.; Kolasinski, P.; Krawczyk, R.; Zabolotny, W.; Chernyshova, M.; Czarski, T.; Malinowski, K.

2016-11-01

The presented work is related to the Gas Electron Multiplier (GEM) detector soft X-ray spectroscopy system for tokamak applications. The used GEM detector has one-dimensional, 128 channel readout structure. The channels are connected to the radiation-hard electronics with configurable analog stage and fast ADCs, supporting speeds of 125 MSPS for each channel. The digitalized data is sent directly to the FPGAs using fast serial links. The preprocessing algorithms are implemented in the FPGAs, with the data buffering made in the on-board 2Gb DDR3 memory chips. After the algorithmic stage, the data is sent to the Intel Xeon-based PC for further postprocessing using PCI-Express link Gen 2. For connection of multiple FPGAs, PCI-Express switch 8-to-1 was designed. The whole system can support up to 2048 analog channels. The scope of the work is an FPGA-based implementation of the recorder of the raw signal from GEM detector. Since the system will work in a very challenging environment (neutron radiation, intense electro-magnetic fields), the registered signals from the GEM detector can be corrupted. In the case of the very intense hot plasma radiation (e.g. laser generated plasma), the registered signals can overlap. Therefore, it is valuable to register the raw signals from the GEM detector with high number of events during soft X-ray radiation. The signal analysis will have the direct impact on the implementation of photon energy computation algorithms. As the result, the system will produce energy spectra and topological distribution of soft X-ray radiation. The advanced software was developed in order to perform complex system startup and monitoring of hardware units. Using the array of two one-dimensional GEM detectors it will be possible to perform tomographic reconstruction of plasma impurities radiation in the SXR region.

High levels of reactive gaseous mercury observed at a high elevation research laboratory in the Rocky Mountains

NASA Astrophysics Data System (ADS)

Faïn, X.; Obrist, D.; Hallar, A. G.; McCubbin, I.; Rahn, T.

2009-07-01

The chemical cycling and spatiotemporal distribution of mercury in the troposphere is poorly understood. We measured gaseous elemental mercury (GEM), reactive gaseous mercury (RGM) and particulate mercury (HgP) along with CO, ozone, aerosols, and meteorological variables at Storm Peak Laboratory at an elevation of 3200 m a.s.l., in Colorado, from 28 April to 1 July 2008. The mean mercury concentrations were 1.6 ng m-3 (GEM), 20 pg m-3 (RGM) and 9 pg m-3 (HgP). We observed eight events of strongly enhanced atmospheric RGM levels with maximum concentrations up to 135 pg m-3. RGM enhancement events were unrelated to daytime/nighttime patterns and lasted for long time periods of 2 to 6 days. During seven of these events, RGM was inversely correlated to GEM (RGM/GEM regression slope ~ -0.1), but did not exhibit correlations with ozone, carbon monoxide, or aerosol concentrations. Relative humidity was the dominant factor affecting RGM levels with high RGM levels always present whenever relative humidity was below 40 to 50%. We conclude that RGM enhancements observed at Storm Peak Laboratory were not induced by pollution events and were related to oxidation of tropospheric GEM, but the mechanism remain unclear. Based on backtrajectory analysis and a lack of mass balance between RGM and GEM, we propose that in situ production of RGM may have occurred in some distance allowing for scavenging and/or deposition of some RGM prior to reaching the laboratory, and that GEM oxidation is an important tropospheric Hg sink. Our observations provide evidence that the tropospheric pool of mercury is frequently enriched in divalent mercury and that high RGM levels are not limited to the upper troposphere.

Preparation, Optimization and Toxicity Evaluation of (SPION-PLGA) ±PEG Nanoparticles Loaded with Gemcitabine as a Multifunctional Nanoparticle for Therapeutic and Diagnostic Applications.

PubMed

Hamzian, Nima; Hashemi, Maryam; Ghorbani, Mahdi; Bahreyni Toosi, Mohammad Hossein; Ramezani, Mohammad

2017-01-01

The aim of this study was to develop a novel multifunctional nanoparticle, which encapsulates SPION and Gemcitabine in PLGA ± PEG to form multifunctional drug delivery system. For this aim, super paramagnetic iron oxide nanoparticles (SPIONs) were simultaneously synthesized and encapsulated with Gemcitabine (Gem) in PLGA ± PEG copolymers via W/O/W double emulsification method. Optimum size and encapsulation efficiency for radiosensitization, hyperthermia and diagnostic applications were considered and the preparation parameters systematically were investigated and physicochemical characteristics of optimized nanoparticle were studied. Then SPION-PLGA and PLGA-Gem nanoparticles were prepared with the same optimized parameters and the toxicity of these nanoparticles was compared with Gemcitabine in human breast cancer cell line (MCF-7). The optimum preparation parameters were obtained with Gem/polymer equal to 0.04, SPION/polymer equal to 0.8 and 1% sucrose per 20 mg of polymer. The hydrodynamic diameters of all nanoparticles were under 200 nm. Encapsulation efficiency was adjusted between 13.2% to 16.1% for Gemcitabine and 48.2% to 50.1% for SPION. In-vitro Gemcitabine release kinetics had controlled behavior. Enhancement ratios for PLGA-Gem and SPION-PLGA-Gem at concentration of nanoparticles equal to IC50 of Gemcitabine were 1.53 and 1.89 respectively. The statistical difference was significant ( p -value = 0.006 for SPION-PLGA-Gem and p -value = 0.015 for PLGA-Gem compared with Gemcitabine). In conclusion, we have successfully developed a Gemcitabine loaded super paramagnetic PLGA-Iron Oxide multifunctional drag delivery system. Future work includes in-vitro and in-vivo investigation of radiosensitization and other application of these nanoparticles.

Gaseous Electron Multiplier (GEM) Detectors

NASA Astrophysics Data System (ADS)

Gnanvo, Kondo

2017-09-01

Gaseous detectors have played a pivotal role as tracking devices in the field of particle physics experiments for the last fifty years. Recent advances in photolithography and micro processing techniques have enabled the transition from Multi Wire Proportional Chambers (MWPCs) and Drift Chambers to a new family of gaseous detectors refer to as Micro Pattern Gaseous Detectors (MPGDs). MPGDs combine the basic gas amplification principle with micro-structure printed circuits to provide detectors with excellent spatial and time resolution, high rate capability, low material budget and high radiation tolerance. Gas Electron Multiplier (GEMs) is a well-established MPGD technology invented by F. Sauli at CERN in 1997 and deployed various high energy physics (HEP) and nuclear NP experiment for tracking systems of current and future NP experiments. GEM detector combines an exceptional high rate capability (1 MHz / mm2) and robustness against harsh radiation environment with excellent position and timing resolution performances. Recent breakthroughs over the past decade have allowed the possibility for large area GEMs, making them cost effective and high-performance detector candidates to play pivotal role in current and future particle physics experiments. After a brief introduction of the basic principle of GEM technology, I will give a brief overview of the GEM detectors used in particle physics experiments over the past decades and especially in the NP community at Thomas Jefferson National Laboratory (JLab) and Brookhaven National Laboratory (BNL). I will follow by a review of state of the art of the new GEM development for the next generation of colliders such as Electron Ion Collider (EIC) or High Luminosity LHC and future Nuclear Physics experiments. I will conclude with a presentation of the CERN-based RD51 collaboration established in 2008 and its major achievements regarding technological developments and applications of MPGDs.

Fluoropyrimidines plus cisplatin versus gemcitabine/gemcitabine plus cisplatin in locally advanced and metastatic biliary tract carcinoma - a retrospective study.

PubMed

Croitoru, Adina; Gramaticu, Iulia; Dinu, Ioana; Gheorghe, Liana; Alexandrescu, Sorin; Buica, Florina; Luca, Ioana; Becheanu, Gabriel; Herlea, Vlad; Simionov, Iulia; Hrehoret, Doina; Lupescu, Ioana; Popescu, Irinel; Diculescu, Mircea

2012-09-01

This is a retrospective study of patients with advanced biliary tract carcinoma (BTC), who were treated with different regimens of chemotherapy. We studied patients with advanced BTC registered at the Department of Oncology at the Fundeni Clinical Institute between 2004 and 2008. The following data were analyzed: rate of response, progression free survival (PFS) to first and second line of chemotherapy, overall survival (OS) and drug toxicity. Ninety-six patients were eligible having either advanced intra or extrahepatic cholangiocarcinoma, or gallbladder cancer with no prior chemotherapy. Out of 96 patients, 57 (59.4%) received fluoropyrimidines (FP)+cisplatin and 39 (40.6%) gemcitabine (Gem)+/-cisplatin. The median PFS for FP+cisplatin was 5.9 months (95%CI 5-6.9) and for Gem+/-cisplatin 6.3 months (95%CI 5.4-7.1), p=0.661. Median OS for FP+cisplatin was 10.3 months (95%CI 7.5-13.1) and for Gem+/-cisplatin 9.1 months (95%CI 7.0-11.2), p=0.098. On disease progression, 46 patients received second line CT (Gem or FP+/-platinum compounds). Median OS for patients with FP based first line and Gem+/-cisplatin in second line was 19 months (95%CI 8.9-29) higher than for the reverse sequence: 13.2 months (95%CI 12-14.4), but not statistically significant (p=0.830). All patients were evaluated for toxicities. Most patients (75.5%) reported at least one adverse event. Our results through direct comparison of FP+cisplatin with Gem+/-cisplatin as first line treatment did not show any statistical differences in terms of rate of response, PFS and OS. However, our study showed that FP+cisplatin as first line and Gem based second line therapy gave a better OS rate.

New ShakeMaps for Georgia Resulting from Collaboration with EMME

NASA Astrophysics Data System (ADS)

Kvavadze, N.; Tsereteli, N. S.; Varazanashvili, O.; Alania, V.

2015-12-01

Correct assessment of probabilistic seismic hazard and risks maps are first step for advance planning and action to reduce seismic risk. Seismic hazard maps for Georgia were calculated based on modern approach that was developed in the frame of EMME (Earthquake Modl for Middle east region) project. EMME was one of GEM's successful endeavors at regional level. With EMME and GEM assistance, regional models were analyzed to identify the information and additional work needed for the preparation national hazard models. Probabilistic seismic hazard map (PSH) provides the critical bases for improved building code and construction. The most serious deficiency in PSH assessment for the territory of Georgia is the lack of high-quality ground motion data. Due to this an initial hybrid empirical ground motion model is developed for PGA and SA at selected periods. An application of these coefficients for ground motion models have been used in probabilistic seismic hazard assessment. Obtained results of seismic hazard maps show evidence that there were gaps in seismic hazard assessment and the present normative seismic hazard map needed a careful recalculation.

The application of a monolithic triphenylphosphine reagent for conducting Ramirez gem-dibromoolefination reactions in flow.

PubMed

Roper, Kimberley A; Berry, Malcolm B; Ley, Steven V

2013-01-01

The application of a monolithic form of triphenylphosphine to the Ramirez gem-dibromoolefination reaction using flow chemistry techniques is reported. A variety of gem-dibromides were synthesised in high purity and excellent yield following only removal of solvent and no further off-line purification. It is also possible to perform the Appel reaction using the same monolith and the relationship between the mechanisms of the two reactions is discussed.

The application of a monolithic triphenylphosphine reagent for conducting Ramirez gem-dibromoolefination reactions in flow

PubMed Central

Roper, Kimberley A; Berry, Malcolm B

2013-01-01

Summary The application of a monolithic form of triphenylphosphine to the Ramirez gem-dibromoolefination reaction using flow chemistry techniques is reported. A variety of gem-dibromides were synthesised in high purity and excellent yield following only removal of solvent and no further off-line purification. It is also possible to perform the Appel reaction using the same monolith and the relationship between the mechanisms of the two reactions is discussed. PMID:24062843

Design and Pilot Study of a Gait Enhancing Mobile Shoe.

PubMed

Handzic, Ismet; Barno, Eileen M; Vasudevan, Erin V; Reed, Kyle B

2011-12-01

Hemiparesis is a frequent and disabling consequence of stroke and can lead to asymmetric and inefficient walking patterns. Training on a split-belt treadmill, which has two separate treads driving each leg at a different speed, can correct such asymmetries post-stroke. However, the effects of split-belt treadmill training only partially transfer to everyday walking over ground and extended training sessions are required to achieve long-lasting effects. Our aim is to develop an alternative device, the Gait Enhancing Mobile Shoe (GEMS), that mimics the actions of the split-belt treadmill, but can be used during overground walking and in one's own home, thus enabling long-term training. The GEMS does not require any external power and is completely passive; all necessary forces are redirected from the natural forces present during walking. Three healthy subjects walked on the shoes for twenty minutes during which one GEMS generated a backward motion and the other GEMS generated a forward motion. Our preliminary experiments suggest that wearing the GEMS did cause subjects to modify coordination between the legs and these changes persisted when subjects returned to normal over-ground walking. The largest effects were observed in measures of temporal coordination (e.g., duration of double-support). These results suggest that the GEMS is capable of altering overground walking coordination in healthy controls and could potentially be used to correct gait asymmetries post-stroke.

The Gemini-South MCAO operational model: insights on a new era of telescope operation

NASA Astrophysics Data System (ADS)

Trancho, Gelys; Bec, Matthieu; Artigau, Etienne; d'Orgeville, Celine; Gratadour, Damien; Rigaut, Francois J.; Walls, Brian

2008-07-01

The Gemini Observatory is implementing a Multi-Conjugate Adaptive Optics (MCAO) system as a facility instrument for the Gemini South telescope (GeMS). The system will include 5 Laser Guide Stars, 3 Natural Guide Stars, and 3 deformable mirrors, optically conjugated at different altitudes, to achieve near-uniform atmospheric compensation over a one arc minute square field of view. This setup implies some level of operational complexity. In this paper we describe how GeMS will be integrated into the flow of Gemini operations, from the observing procedures necessary to execute the programs in the queue (telescope control software, observing tools, sequence executor) to the safety implementation needed such as spotters/ASCAM, space command and laser traffic control software.

Open Science and eGEMs: Our Role in Supporting a Culture of Collaboration in Learning Health Systems.

PubMed

Holve, Erin

2016-01-01

"Open science" includes a variety of approaches to facilitate greater access to data and the information produced by processes of scientific inquiry. Recently, the health sciences community has been grappling with the issue of potential pathways and models to achieve the goals of open science-namely, to create and rapidly share reproducible health research. eGEMs' continued dedication to and milestones regarding the publication of innovative, useful, and timely research to help contribute to the push towards open science is discussed, as well as the EDM Forum's new data sharing platform, CIELO. Although strides have been made, there is still more work to be done to help health sciences community truly embrace open science.

Proteome- and transcriptome-driven reconstruction of the human myocyte metabolic network and its use for identification of markers for diabetes.

PubMed

Väremo, Leif; Scheele, Camilla; Broholm, Christa; Mardinoglu, Adil; Kampf, Caroline; Asplund, Anna; Nookaew, Intawat; Uhlén, Mathias; Pedersen, Bente Klarlund; Nielsen, Jens

2015-05-12

Skeletal myocytes are metabolically active and susceptible to insulin resistance and are thus implicated in type 2 diabetes (T2D). This complex disease involves systemic metabolic changes, and their elucidation at the systems level requires genome-wide data and biological networks. Genome-scale metabolic models (GEMs) provide a network context for the integration of high-throughput data. We generated myocyte-specific RNA-sequencing data and investigated their correlation with proteome data. These data were then used to reconstruct a comprehensive myocyte GEM. Next, we performed a meta-analysis of six studies comparing muscle transcription in T2D versus healthy subjects. Transcriptional changes were mapped on the myocyte GEM, revealing extensive transcriptional regulation in T2D, particularly around pyruvate oxidation, branched-chain amino acid catabolism, and tetrahydrofolate metabolism, connected through the downregulated dihydrolipoamide dehydrogenase. Strikingly, the gene signature underlying this metabolic regulation successfully classifies the disease state of individual samples, suggesting that regulation of these pathways is a ubiquitous feature of myocytes in response to T2D. Copyright © 2015 The Authors. Published by Elsevier Inc. All rights reserved.

Combined Gemcitabine and Metronidazole Is a Promising Therapeutic Strategy for Cancer Stem-like Cholangiocarcinoma.

PubMed

Kawamoto, Makoto; Umebayashi, Masayo; Tanaka, Hiroto; Koya, Norihiro; Nakagawa, Sinichiro; Kawabe, Ken; Onishi, Hideya; Nakamura, Masafumi; Morisaki, Takashi

2018-05-01

Metronidazole (MNZ) is a common antibiotic that exerts disulfiram-like effects when taken together with alcohol. However, the relationship between MNZ and aldehyde dehydrogenase (ALDH) activity remains unclear. This study investigated whether MNZ reduces cancer stemness by suppressing ALDH activity and accordingly reducing the malignancy of cholangiocarcinoma (CCA). We developed gemcitabine (GEM)-resistant TFK-1 cells and originally established CCA cell line from a patient with GEM-resistant CCA. Using these cell lines, we analyzed the impacts of MNZ for cancer stem cell markers, invasiveness, and chemosensitivity. MNZ reduced ALDH activity in GEM-resistant CCA cells, leading to decreased invasiveness and enhanced chemosensitivity. MNZ diminished the invasiveness by inducing mesenchymal-epithelial transition and enhancing chemosensitivity by increasing ENT1 (equilibrative nucleoside transporter 1) and reducing RRM1 (ribonucleotide reductase M1). MNZ reduced cancer stemness in GEM-resistant CCA cells. Combined GEM and MNZ would be a promising therapeutic strategy for cancer stem-like CAA. Copyright© 2018, International Institute of Anticancer Research (Dr. George J. Delinasios), All rights reserved.

Gem1 and ERMES Do Not Directly Affect Phosphatidylserine Transport from ER to Mitochondria or Mitochondrial Inheritance

PubMed Central

Nguyen, Tammy T; Lewandowska, Agnieszka; Choi, Jae-Yeon; Markgraf, Daniel F; Junker, Mirco; Bilgin, Mesut; Ejsing, Christer S; Voelker, Dennis R; Rapoport, Tom A; Shaw, Janet M

2012-01-01

In yeast, a protein complex termed the ER-Mitochondria Encounter Structure (ERMES) tethers mitochondria to the endoplasmic reticulum. ERMES proteins are implicated in a variety of cellular functions including phospholipid synthesis, mitochondrial protein import, mitochondrial attachment to actin, polarized mitochondrial movement into daughter cells during division, and maintenance of mitochondrial DNA (mtDNA). The mitochondrial-anchored Gem1 GTPase has been proposed to regulate ERMES functions. Here, we show that ERMES and Gem1 have no direct role in the transport of phosphatidylserine (PS) from the ER to mitochondria during the synthesis of phosphatidylethanolamine (PE), as PS to PE conversion is not affected in ERMES or gem1 mutants. In addition, we report that mitochondrial inheritance defects in ERMES mutants are a secondary consequence of mitochondrial morphology defects, arguing against a primary role for ERMES in mitochondrial association with actin and mitochondrial movement. Finally, we show that ERMES complexes are long-lived, and do not depend on the presence of Gem1. Our findings suggest that the ERMES complex may have primarily a structural role in maintaining mitochondrial morphology. PMID:22409400

Differential role of glycolipid-enriched membrane domains in glycoprotein VI- and integrin-mediated phospholipase Cgamma2 regulation in platelets.

PubMed Central

Wonerow, Peter; Obergfell, Achim; Wilde, Jonathan I; Bobe, Régis; Asazuma, Naoki; Brdicka, Tomás; Leo, Albrecht; Schraven, Burkhart; Horejsí, Václav; Shattil, Sanford J; Watson, Steve P

2002-01-01

The platelet collagen receptor glycoprotein VI (GPVI) and the fibrinogen receptor integrin alphaIIbbeta3 trigger intracellular signalling cascades involving the tyrosine kinase Syk, the adapter SLP-76 and phospholipase Cgamma2 (PLCgamma2). Similar pathways are activated downstream of immune receptors in lymphocytes, where they have been localized in part to glycolipid-enriched membrane domains (GEMs). Here we provide several lines of evidence that GPVI-mediated tyrosine phosphorylation of PLCgamma2 in platelets is dependent on GEM-organized signalling and utilizes the GEM resident adapter protein LAT (linker for activation of T cells). In sharp contrast, although fibrinogen binding to platelets stimulates alphaIIbbeta3-dependent activation of Syk and tyrosine phosphorylation of SLP-76 and PLCgamma2, it does not utilize GEMs to promote these responses or to support platelet aggregation. These results establish that GPVI and alphaIIbbeta3 trigger distinct patterns of receptor signalling in platelets, leading to tyrosine phosphorylation of PLCgamma2, and they highlight the role of GEMs in compartmentalizing signalling reactions involved in haemostasis. PMID:12049640

Applications of Raman spectroscopy to gemology.

PubMed

Bersani, Danilo; Lottici, Pier Paolo

2010-08-01

Being nondestructive and requiring short measurement times, a low amount of material, and no sample preparation, Raman spectroscopy is used for routine investigation in the study of gemstone inclusions and treatments and for the characterization of mounted gems. In this work, a review of the use of laboratory Raman and micro-Raman spectrometers and of portable Raman systems in the gemology field is given, focusing on gem identification and on the evaluation of the composition, provenance, and genesis of gems. Many examples are shown of the use of Raman spectroscopy as a tool for the identification of imitations, synthetic gems, and enhancement treatments in natural gemstones. Some recent developments are described, with particular attention being given to the semiprecious stone jade and to two important organic materials used in jewelry, i.e., pearls and corals.

Modular projects and 'mean questions': best practices for advising an International Genetically Engineered Machines team.

PubMed

Tsui, Jennifer; Meyer, Anne S

2016-07-01

In the yearly Internationally Genetically Engineered Machines (iGEM) competition, teams of Bachelor's and Master's students design and build an engineered biological system using DNA technologies. Advising an iGEM team poses unique challenges due to the inherent difficulties of mounting and completing a new biological project from scratch over the course of a single academic year; the challenges in obtaining financial and structural resources for a project that will likely not be fully realized; and conflicts between educational and competition-based goals. This article shares tips and best practices for iGEM team advisors, from two team advisors with very different experiences with the iGEM competition. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

The GEM Theory of the Unification of Gravitation and Electro-Magnetism

NASA Astrophysics Data System (ADS)

Brandenburg, J. E.

2012-01-01

The GEM (Gravity Electro-Magnetism), theory is presented as an alloy of Sakharov and Kaluza-Klein approaches to field unification. GEM uses the concept of gravity fields as Poynting fields to postulate that the non-metric portion of the EM stress tensor becomes the metric tensor in strong fields leading to "self-censorship". Covariant formulation of the GEM theory is accomplished through definition of the spacetime metric tensor as a portion of the EM stress tensor normalized by its own trace: gab = 4(FcaFcb )/(FabFab), it is found that this results in a massless ground state vacuum and a Newtonian gravitation potential f=1/2 E2/B2 =GM/r , where E, B and F are part of the vacuum Zero Point Fluctuation (ZPF) and M and r are the mass and distance from the center of a gravitating body and G is the Newton gravitation constant. It is found that a Lorentz flat-space metric is recovered in the limit of a vacuum full spectrum ZPF. The vacuum ZPF energy and vacuum quantities G, h, c, gives birth to particles quantities mp, me, e,-e in a process triggered by the appearance of the Kaluza-Klein fifth dimension, where also the EM and gravity forces split from each other in a process correlated to the splitting apart of protons and electrons. The separate appearance of the proton and electron occurs as the splitting of a light-like spacetime interval of zero-length into a finite space-like portion containing three subdimensions identified with the quarks and a time-like portion identified with the electron. The separation of mass with charge for the electron and proton pair comes about from a U(1) symmetry with a rotation in imaginary angle. A logarithmic variation of charge with mass for the proton-electron pair results and leads to the formula ln(ro/rp) = s, where s = (mp/me)1/2 , where mp and me are the electron and proton masses respectively and where ro =e2/moc2 , and where mo = (mpme)1/2 and where rp is the Planck length . This leads to the formula G=e2/mo2aexp(-2s)=6.6684x10-11 dynes-cm2/g2 , without free parameters, which is within 1 part per thousand of the measured value. We also have from the mass model, where q'/e = a-1/2 is the normalized Planck charge, and where MP is the Planck mass, a formula for the proton mass : mp=MP sq'/e = 1.71 x10-24g and thus is accurate to 2.5% , also without free parameters. GEM theory is now validated through the the Standard Model of physics. Derivation of the value of the Gravitation constant based on the observed variation of a with energy: results in the formula G @ hc/Mhc2 exp ( -1/(1.61a)), where a is the fine structure constant, h, is Plancks constant, c, is the speed of light, and Mhc is the mass of the hcc Charmonium meson and is shown to be identical to that derived from GEM postulates. GEM is thus consistent with quantum renormalization with an ultraviolet cutoff at the Planck length. More accurate values of G me and mp are found by perturbation theory.

Predicting nitrate discharge dynamics in mesoscale catchments using the lumped StreamGEM model and Bayesian parameter inference

NASA Astrophysics Data System (ADS)

Woodward, Simon James Roy; Wöhling, Thomas; Rode, Michael; Stenger, Roland

2017-09-01

The common practice of infrequent (e.g., monthly) stream water quality sampling for state of the environment monitoring may, when combined with high resolution stream flow data, provide sufficient information to accurately characterise the dominant nutrient transfer pathways and predict annual catchment yields. In the proposed approach, we use the spatially lumped catchment model StreamGEM to predict daily stream flow and nitrate concentration (mg L-1 NO3-N) in four contrasting mesoscale headwater catchments based on four years of daily rainfall, potential evapotranspiration, and stream flow measurements, and monthly or daily nitrate concentrations. Posterior model parameter distributions were estimated using the Markov Chain Monte Carlo sampling code DREAMZS and a log-likelihood function assuming heteroscedastic, t-distributed residuals. Despite high uncertainty in some model parameters, the flow and nitrate calibration data was well reproduced across all catchments (Nash-Sutcliffe efficiency against Log transformed data, NSL, in the range 0.62-0.83 for daily flow and 0.17-0.88 for nitrate concentration). The slight increase in the size of the residuals for a separate validation period was considered acceptable (NSL in the range 0.60-0.89 for daily flow and 0.10-0.74 for nitrate concentration, excluding one data set with limited validation data). Proportions of flow and nitrate discharge attributed to near-surface, fast seasonal groundwater and slow deeper groundwater were consistent with expectations based on catchment geology. The results for the Weida Stream in Thuringia, Germany, using monthly as opposed to daily nitrate data were, for all intents and purposes, identical, suggesting that four years of monthly nitrate sampling provides sufficient information for calibration of the StreamGEM model and prediction of catchment dynamics. This study highlights the remarkable effectiveness of process based, spatially lumped modelling with commonly available monthly stream sample data, to elucidate high resolution catchment function, when appropriate calibration methods are used that correctly handle the inherent uncertainties.

Development of Greenhouse Gas Emissions Model (GEM) for Heavy- & Medium-Duty Vehicle Compliance

EPA Science Inventory

A regulatory vehicle simulation program was designed for determining greenhouse gas (GHG) emissions and fuel consumption by estimating the performance of technologies, verifying compliance with the regulatory standards and estimating the overall benefits of the program.

Readout electronics for the GEM detector

NASA Astrophysics Data System (ADS)

Kasprowicz, G.; Czarski, T.; Chernyshova, M.; Czyrkowski, H.; Dabrowski, R.; Dominik, W.; Jakubowska, K.; Karpinski, L.; Kierzkowski, K.; Kudla, I. M.; Pozniak, K.; Rzadkiewicz, J.; Salapa, Z.; Scholz, M.; Zabolotny, W.

2011-10-01

A novel approach to the Gas Electron Multiplier (GEM) detector readout is presented. Unlike commonly used methods, based on discriminators[2],[3] and analogue FIFOs[1], the method developed uses simultaneously sampling high speed ADCs and advanced FPGA-based processing logic to estimate the energy of every single photon. Such method is applied to every GEM strip signal. It is especially useful in case of crystal-based spectrometers for soft X-rays, where higher order reflections need to be identified and rejected[5].

FPGA based charge fast histogramming for GEM detector

NASA Astrophysics Data System (ADS)

Poźniak, Krzysztof T.; Byszuk, A.; Chernyshova, M.; Cieszewski, R.; Czarski, T.; Dominik, W.; Jakubowska, K.; Kasprowicz, G.; Rzadkiewicz, J.; Scholz, M.; Zabolotny, W.

2013-10-01

This article presents a fast charge histogramming method for the position sensitive X-ray GEM detector. The energy resolved measurements are carried out simultaneously for 256 channels of the GEM detector. The whole process of histogramming is performed in 21 FPGA chips (Spartan-6 series from Xilinx) . The results of the histogramming process are stored in an external DDR3 memory. The structure of an electronic measuring equipment and a firmware functionality implemented in the FPGAs is described. Examples of test measurements are presented.

Measurements of Atmospheric Mercury at a High Elevation Site (Lulin Atmospheric Background Station, LABS) in Taiwan

NASA Astrophysics Data System (ADS)

Sheu, G.; Lee, C.; Lin, N.

2007-12-01

Taiwan is located on the edge of the west Pacific Ocean and to the downwind side of East Asia, which is the largest anthropogenic mercury (Hg) emitting region globally. It has been demonstrated that the environmental quality of Taiwan can be influenced by regional Asian atmospheric pollution events, such as acid deposition, dust storm, and biomass burning. Therefore, Taiwan could also be under the influence of the East Asian Hg emissions. As a result, continuous atmospheric Hg measurements have been conducted at Lulin Atmospheric Background Station (LABS, 2862 m a.s.l.) since April 13, 2006 to study the long-range transport and transformation of atmospheric Hg. Three types of atmospheric Hg, including gaseous elemental Hg (GEM), reactive gaseous Hg (RGM), and particulate Hg (PHg), are measured using the Tekran 2537A/1130/1135 speciation system. Here we report the atmospheric Hg data collected between April, 2006 and April, 2007. The average GEM, RGM, and PHg concentrations were 1.83(±0.65) ng m-3, 17.85(±18.70) pg m- 3, and 6.12(±7.36) pg m-3, respectively. Seasonal variability in GEM concentration was evident with higher GEM concentrations between fall and spring. The highest monthly GEM average of 2.43 ng m-3 was observed in October, 2006. GEM concentrations were usually low in summer months with the lowest monthly average of 1.10 ng m-3 in July, 2006. Backward trajectory analysis indicated change in air mass origins among seasons. In summer (May ~ July), air masses were mainly from the Pacific Ocean with minimal land influence. On the other hand, between fall and spring, air masses were more or less under the influence of East Asia continent. These results suggested that Taiwan could be impacted by East Asia Hg emissions between fall and spring. Also, spikes of RGM were frequently detected between midnight and early morning with concurrent decreases in GEM and relative humidity and increases in ozone concentrations, suggesting the oxidation of GEM and formation of RGM in free troposphere.

Influence of the erineum strain of Colomerus vitis (Acari: Eriophyidae) on grape (Vitis vinifera) defense mechanisms.

PubMed

Javadi Khederi, Saeid; Khanjani, Mohammad; Gholami, Mansur; Panzarino, Onofrio; de Lillo, Enrico

2018-05-01

Grape (Vitis vinifera) is commonly affected by the erineum strain of Colomerus vitis (GEM) in Iran and the susceptibility of grape cultivars to GEM is poorly understood. In order to evaluate the impact of GEM on grape and its defense mechanisms against the mite, an exploratory study was carried out on 19 cultivars (18 Iranian and the non-native Muscat Gordo). The differential susceptibility of cultivars to GEM was compared on the basis of the area of leaf damage induced by GEM. The cultivars White Thompson seedless of Bovanat, Atabaki Zarghan, Koladari Ghoochan and Sahebi Uroomie were less susceptible to GEM, whereas Ghalati Dodaj, Rishbaba, Muscat Gordo and Neyshaboori Birjand appeared to be the most affected by the mite. In a no-choice setup, plants of selected cultivars of these two groups were infested by GEM and assayed for 10 biomarkers usually related to plant stress mechanisms against plant feeders: the activity of defense enzymes-peroxidase (POX), polyphenol oxidase (PPO), superoxide dismutase (SOD), phenylalanine ammonia-lyase (PAL), catalase (CAT), the amount of total polyphenolics, total flavonoids, total soluble carbohydrates, hydrogen peroxide (H 2 O 2 ), and malondialdehyde (MDA) expressing lipid peroxidation. The biomarkers were assessed in grape leaves 7 days before releasing the mites, as well as 7, 14 and 28 days after infestation (DAI). The activity of the enzymes and the amount of the compounds usually increased in percentage after mite infestation. A significant negative correlation was found between the area of leaf damage and PPO, POX, SOD, MDA and H 2 O 2 for all sampling dates. The area of leaf damage showed a significant positive correlation with total soluble carbohydrates at 28 DAI, and significant negative correlations with CAT (at 14 and 28 DAI), PAL and total flavonoids (at 7 DAI). No correlation was observed between area of leaf damage and total polyphenolics. The biomarkers PPO, SOD, CAT activity and H 2 O 2 provided the best explanation for the response of grape cultivars to GEM infestation.

Use of circulation types classifications to evaluate AR4 climate models over the Euro-Atlantic region

NASA Astrophysics Data System (ADS)

Pastor, M. A.; Casado, M. J.

2012-10-01

This paper presents an evaluation of the multi-model simulations for the 4th Assessment Report of the Intergovernmental Panel on Climate Change (IPCC) in terms of their ability to simulate the ERA40 circulation types over the Euro-Atlantic region in winter season. Two classification schemes, k-means and SANDRA, have been considered to test the sensitivity of the evaluation results to the classification procedure. The assessment allows establishing different rankings attending spatial and temporal features of the circulation types. Regarding temporal characteristics, in general, all AR4 models tend to underestimate the frequency of occurrence. The best model simulating spatial characteristics is the UKMO-HadGEM1 whereas CCSM3, UKMO-HadGEM1 and CGCM3.1(T63) are the best simulating the temporal features, for both classification schemes. This result agrees with the AR4 models ranking obtained when having analysed the ability of the same AR4 models to simulate Euro-Atlantic variability modes. This study has proved the utility of applying such a synoptic climatology approach as a diagnostic tool for models' assessment. The ability of the models to properly reproduce the position of ridges and troughs and the frequency of synoptic patterns, will therefore improve our confidence in the response of models to future climate changes.

Reframed Genome-Scale Metabolic Model to Facilitate Genetic Design and Integration with Expression Data.

PubMed

Gu, Deqing; Jian, Xingxing; Zhang, Cheng; Hua, Qiang

2017-01-01

Genome-scale metabolic network models (GEMs) have played important roles in the design of genetically engineered strains and helped biologists to decipher metabolism. However, due to the complex gene-reaction relationships that exist in model systems, most algorithms have limited capabilities with respect to directly predicting accurate genetic design for metabolic engineering. In particular, methods that predict reaction knockout strategies leading to overproduction are often impractical in terms of gene manipulations. Recently, we proposed a method named logical transformation of model (LTM) to simplify the gene-reaction associations by introducing intermediate pseudo reactions, which makes it possible to generate genetic design. Here, we propose an alternative method to relieve researchers from deciphering complex gene-reactions by adding pseudo gene controlling reactions. In comparison to LTM, this new method introduces fewer pseudo reactions and generates a much smaller model system named as gModel. We showed that gModel allows two seldom reported applications: identification of minimal genomes and design of minimal cell factories within a modified OptKnock framework. In addition, gModel could be used to integrate expression data directly and improve the performance of the E-Fmin method for predicting fluxes. In conclusion, the model transformation procedure will facilitate genetic research based on GEMs, extending their applications.

OSG-GEM: Gene Expression Matrix Construction Using the Open Science Grid.

PubMed

Poehlman, William L; Rynge, Mats; Branton, Chris; Balamurugan, D; Feltus, Frank A

2016-01-01

High-throughput DNA sequencing technology has revolutionized the study of gene expression while introducing significant computational challenges for biologists. These computational challenges include access to sufficient computer hardware and functional data processing workflows. Both these challenges are addressed with our scalable, open-source Pegasus workflow for processing high-throughput DNA sequence datasets into a gene expression matrix (GEM) using computational resources available to U.S.-based researchers on the Open Science Grid (OSG). We describe the usage of the workflow (OSG-GEM), discuss workflow design, inspect performance data, and assess accuracy in mapping paired-end sequencing reads to a reference genome. A target OSG-GEM user is proficient with the Linux command line and possesses basic bioinformatics experience. The user may run this workflow directly on the OSG or adapt it to novel computing environments.

OSG-GEM: Gene Expression Matrix Construction Using the Open Science Grid

PubMed Central

Poehlman, William L.; Rynge, Mats; Branton, Chris; Balamurugan, D.; Feltus, Frank A.

2016-01-01

High-throughput DNA sequencing technology has revolutionized the study of gene expression while introducing significant computational challenges for biologists. These computational challenges include access to sufficient computer hardware and functional data processing workflows. Both these challenges are addressed with our scalable, open-source Pegasus workflow for processing high-throughput DNA sequence datasets into a gene expression matrix (GEM) using computational resources available to U.S.-based researchers on the Open Science Grid (OSG). We describe the usage of the workflow (OSG-GEM), discuss workflow design, inspect performance data, and assess accuracy in mapping paired-end sequencing reads to a reference genome. A target OSG-GEM user is proficient with the Linux command line and possesses basic bioinformatics experience. The user may run this workflow directly on the OSG or adapt it to novel computing environments. PMID:27499617

Operating range of a gas electron multiplier for portal imaging

NASA Astrophysics Data System (ADS)

Wallmark, M.; Brahme, A.; Danielsson, M.; Fonte, P.; Iacobaeus, C.; Peskov, V.; Östling, J.

2001-09-01

At the Karolinska Institute in Stockholm, Sweden a new detector for portal imaging is under development, which could greatly improve the alignment of the radiation beam with respect to the tumor during radiation treatment. The detector is based on solid converters combined with gas electron multipliers (GEMs) as an amplification structure. The detector has a large area and will be operated in a very high rate environment in the presence of heavy ionizing particles. As was discovered recently high rates and alpha particles could cause discharges in GEM and discharge propagation from GEM to GEM and to the readout electronics. Since reliability is one of the main requirements for the portal imaging device, we performed systematic studies to find a safe operating range of the device, free from typical high rate problems, such as discharges.

The cylindrical GEM detector of the KLOE-2 experiment

NASA Astrophysics Data System (ADS)

Bencivenni, G.; Branchini, P.; Ciambrone, P.; Czerwinski, E.; De Lucia, E.; Di Cicco, A.; Domenici, D.; Felici, G.; Fermani, P.; Morello, G.

2017-07-01

The KLOE-2 experiment started its data taking campaign in November 2014 with an upgraded tracking system at the DAΦNE electron-positron collider at the Frascati National Laboratory of INFN. The new tracking device, the Inner Tracker, operated together with the KLOE-2 Drift Chamber, has been installed to improve track and vertex reconstruction capabilities of the experimental apparatus. The Inner Tracker is a cylindrical GEM detector composed of four cylindrical triple-GEM detectors, each provided with an X-V strips-pads stereo readout. Although GEM detectors are already used in high energy physics experiments, this device is considered a frontier detector due to its fully-cylindrical geometry: KLOE-2 is the first experiment benefiting of this novel detector technology. Alignment and calibration of this detector will be presented together with its operating performance and reconstruction capabilities.

Clinical evaluation of GEM 21S® and a collagen membrane with a coronally advanced flap as a root coverage procedure in the treatment of gingival recession defects: A comparative study

PubMed Central

Singh, Preetinder; Suresh, D. K.

2012-01-01

Aim: Clinical evaluation of efficacy of rhPDGF-BB plus beta tricalcium phosphate (GEM 21S®) along with a collagen membrane in root coverage using a coronally advanced flap. Materials and Methods: This human case series evaluated the clinical outcome of rhPDGF-BB with beta-tricalcium phosphate (GEM 21S®) and a collagen membrane in the treatment of recession defects using a coronally advanced flap. Patients were followed postoperatively, and healing was evaluated at 1, 3, and 6 months, with recession depth as the primary outcome measure. Results: This pioneer case series revealed a favorable tissue response to GEM 21S® and collagen membrane from both clinical and esthetic point of view in regenerative periodontal surgery. PMID:23493720

A New Era of Air Quality Monitoring from Space in East Asia: Korea's Geostationary Environmental Monitoring Spectrometer (GEMS) and an Integrated Korea-US Air Quality (KORUS-AQ) Study

NASA Astrophysics Data System (ADS)

Hong, J.; Hong, Y.; Song, C. K.; Kim, S. K.; Chang, L. S.; Lim, J.; Ahn, J.; Park, J. H.; Kim, J. Y.; Han, Y. J.; Kim, J.; Park, R.; Lee, G.; Lefer, B. L.; Al-Saadi, J. A.; Crawford, J. H.

2015-12-01

Due to remarkable economic growth over the last two decades, East Asia has become a region experiencing some of the poorest air quality in the world. In addition to local sources of pollution, the Korea peninsula is downwind of the largest emission sources in East Asia, complicating the understanding of air quality over Korea. Thus, knowing the factors controlling changes in air pollution across urban-rural and marine-continental interfaces, in addition to the contributions from local emissions and transboundary transport, is important for building effective management strategies and improving air quality in East Asia. GEMS (Geostationary Environmental Monitoring Spectrometer) is a satellite instrument planned for launch in 2019 by the Republic of Korea. The instrument will observe East Asia and the western Pacific region, providing real-time monitoring of air quality (e.g. O3, NO2, SO2, HCHO, AOD, etc.) and enabling better scientific understanding of the transboundary transport of air pollutants. The KORUS-AQ (the Korea and U.S. Air Quality) field campaign will take place in May - June 2016 and will employ an integrated observing strategy including multiplatform observations (i.e. ground stations, aircraft, ships, and satellites) and chemical transport models. This mission aims to not only strengthen our knowledge of atmospheric chemistry but also provide important data sets for validating GEMS retrieval algorithms. In preparation for KORUS-AQ, a pre-campaign has been successfully conducted in Korea during early summer 2015 with observations from multiple ground sites and a small aircraft. A brief summary of pre-field campaign results will be presented. Moving forward, the GEMS mission and KORUS-AQ study will lead to a new era of air quality monitoring in East Asia. GEMS will also make critical contributions to the global air quality perspective working in concert with geostationary missions launched by the U.S. (TEMPO: Tropospheric Emissions: Monitoring of Pollution) and Europe (Sentinel-4) and low-Earth orbit missions including the European Sentinel-5 Precursor.

High-resolution projections of mean and extreme precipitations over China through PRECIS under RCPs

NASA Astrophysics Data System (ADS)

Zhu, Jinxin; Huang, Gordon; Wang, Xiuquan; Cheng, Guanhui; Wu, Yinghui

2018-06-01

The impact of global warming on the characteristics of mean and extreme precipitations over China is investigated by using the Providing REgional Climate Impacts for Studies (PRECIS) model. The PRECIS model was driven by the Hadley Centre Global Environment Model version 2 with Earth System components and coupling (HadGEM2-ES). The results of both models are analyzed in terms of mean precipitation and indices of precipitation extremes (R95p, R99p, SDII, WDF, and CWD) over China at the resolution of 25 km under the Representative Concentration Pathways 4.5 and 8.5 (RCP4.5 and RCP8.5) scenarios for the baseline period (1976-2005) and two future periods (2036-2065 and 2070-2099). With improved resolution, the PRECIS model is able to better represent the fine-scale physical process than HadGEM2-ES. It can provide reliable spatial patterns of precipitation and its related extremes with high correlations to observations. Moreover, there is a notable improvement in temporal patterns simulation through the PRECIS model. The PRECIS model better reproduces the regional annual cycle and frequencies of daily precipitation intensity than its driving GCM. Under RCP4.5 and RCP8.5, both the HadGEM2-ES and the precis project increasing annual precipitation over the entire country for two future periods. Precipitation increase in winter is greater than the increase in summer. The results suggest that increased radiative forcing from RCP4.5 to RCP8.5 would further intensify the magnitude of projected precipitation changes by both PRECIS and HadGEM2-ES. For example, some parts of south China with decreased precipitation under RCP4.5 would expect even less precipitation under RCP8.5; regions (northwest, northcentral and northeast China) with increased precipitation under RCP4.5 would expect more precipitation under RCP8.5. Apart from the projected increase in annual total precipitation, the results also suggest that there will be an increase in the days with precipitation higher than 15 mm and a decrease in the days with precipitation less than 5 mm. Under both RCPs, there would be an increasing trend in the magnitude of changes in precipitation extremes indices (R95p, R99p, and SDII) over China, while an opposite trend is projected for CWD and no apparent trend is projected for WDF from 2036-2065 to 2070-2099. Increased extreme precipitation amounts accompanied with decreased frequencies of extreme precipitation suggest that the future daily extreme precipitation intensity is likely to become large in northeast China and south China.

Towards systematic evaluation of crop model outputs for global land-use models

NASA Astrophysics Data System (ADS)

Leclere, David; Azevedo, Ligia B.; Skalský, Rastislav; Balkovič, Juraj; Havlík, Petr

2016-04-01

Land provides vital socioeconomic resources to the society, however at the cost of large environmental degradations. Global integrated models combining high resolution global gridded crop models (GGCMs) and global economic models (GEMs) are increasingly being used to inform sustainable solution for agricultural land-use. However, little effort has yet been done to evaluate and compare the accuracy of GGCM outputs. In addition, GGCM datasets require a large amount of parameters whose values and their variability across space are weakly constrained: increasing the accuracy of such dataset has a very high computing cost. Innovative evaluation methods are required both to ground credibility to the global integrated models, and to allow efficient parameter specification of GGCMs. We propose an evaluation strategy for GGCM datasets in the perspective of use in GEMs, illustrated with preliminary results from a novel dataset (the Hypercube) generated by the EPIC GGCM and used in the GLOBIOM land use GEM to inform on present-day crop yield, water and nutrient input needs for 16 crops x 15 management intensities, at a spatial resolution of 5 arc-minutes. We adopt the following principle: evaluation should provide a transparent diagnosis of model adequacy for its intended use. We briefly describe how the Hypercube data is generated and how it articulates with GLOBIOM in order to transparently identify the performances to be evaluated, as well as the main assumptions and data processing involved. Expected performances include adequately representing the sub-national heterogeneity in crop yield and input needs: i) in space, ii) across crop species, and iii) across management intensities. We will present and discuss measures of these expected performances and weight the relative contribution of crop model, input data and data processing steps in performances. We will also compare obtained yield gaps and main yield-limiting factors against the M3 dataset. Next steps include iterative improvement of parameter assumptions and evaluation of implications of GGCM performances for intended use in the IIASA EPIC-GLOBIOM model cluster. Our approach helps targeting future efforts at improving GGCM accuracy and would achieve highest efficiency if combined with traditional field-scale evaluation and sensitivity analysis.

Attribution of the 1995 and 2006 storm surge events in the southern Baltic Sea

NASA Astrophysics Data System (ADS)

Klehmet, K.; Rockel, B.; von Storch, H.

2016-12-01

In November 1995 and 2006, the German Baltic Sea coast experienced severe storm surge conditions. Exceptional water level heights of about 1.8m above mean sea level were measured at German tide gauges. Extreme event attribution poses unique challenges trying to distinguish the role of anthropogenic influence, as e.g. greenhouse gas emissions or land-use changes, from natural variability. This study, which is part of the EUCLEIA project (EUropean CLimate and weather Events: Interpretation and Attribution, www. eucleia.eu), aims to estimate how the contribution of anthropogenic drivers has altered the probability of single extreme events such as the 1995 and 2006 storm surge events. We explore these aspects using two 7-member ensembles of Hadley Centre Global Environmental Model version 3-A (HadGEM3-A), the atmosphere only component of the HadGEM3, provided by the Met Office Hadley Centre. The ensemble of HadGEM3-A consists of two multi-decadal experiments from 1960-2013 - one with anthropogenic forcing factors and natural forcings representing the actual climate. The second experiment represents the natural climate including only natural forcing factors. These two 7-member ensembles of about 60km spatial resolution are used as atmospheric forcing data to drive the regional ocean model TRIM-NP in order to calculate water level in the Baltic Sea in 12.8km spatial resolution. Findings indicate some limitations of the regional model ensemble to reproduce the magnitude of extreme water levels well. It is tested whether increased spatial resolution of atmospheric forcing fields can improve the representation of Baltic Sea extreme water levels along the coast and thus add value in the attribution analysis.

Quantitative Rationalization of Gemfibrozil Drug Interactions: Consideration of Transporters-Enzyme Interplay and the Role of Circulating Metabolite Gemfibrozil 1-O-β-Glucuronide.

PubMed

Varma, Manthena V S; Lin, Jian; Bi, Yi-an; Kimoto, Emi; Rodrigues, A David

2015-07-01

Gemfibrozil has been suggested as a sensitive cytochrome P450 2C8 (CYP2C8) inhibitor for clinical investigation by the U.S. Food and Drug Administration and the European Medicines Agency. However, gemfibrozil drug-drug interactions (DDIs) are complex; its major circulating metabolite, gemfibrozil 1-O-β-glucuronide (Gem-Glu), exhibits time-dependent inhibition of CYP2C8, and both parent and metabolite also behave as moderate inhibitors of organic anion transporting polypeptide 1B1 (OATP1B1) in vitro. Additionally, parent and metabolite also inhibit renal transport mediated by OAT3. Here, in vitro inhibition data for gemfibrozil and Gem-Glu were used to assess their impact on the pharmacokinetics of several victim drugs (including rosiglitazone, pioglitazone, cerivastatin, and repaglinide) by employing both static mechanistic and dynamic physiologically based pharmacokinetic (PBPK) models. Of the 48 cases evaluated using the static models, about 75% and 98% of the DDIs were predicted within 1.5- and 2-fold of the observed values, respectively, when incorporating the interaction potential of both gemfibrozil and its 1-O-β-glucuronide. Moreover, the PBPK model was able to recover the plasma profiles of rosiglitazone, pioglitazone, cerivastatin, and repaglinide under control and gemfibrozil treatment conditions. Analyses suggest that Gem-Glu is the major contributor to the DDIs, and its exposure needed to bring about complete inactivation of CYP2C8 is only a fraction of that achieved in the clinic after a therapeutic gemfibrozil dose. Overall, the complex interactions of gemfibrozil can be quantitatively rationalized, and the learnings from this analysis can be applied in support of future predictions of gemfibrozil DDIs. Copyright © 2015 by The American Society for Pharmacology and Experimental Therapeutics.

Development of On-line Wildfire Emissions for the Operational Canadian Air Quality Forecast System

NASA Astrophysics Data System (ADS)

Pavlovic, R.; Menard, S.; Chen, J.; Anselmo, D.; Paul-Andre, B.; Gravel, S.; Moran, M. D.; Davignon, D.

2013-12-01

An emissions processing system has been developed to incorporate near-real-time emissions from wildfires and large prescribed burns into Environment Canada's real-time GEM-MACH air quality (AQ) forecast system. Since the GEM-MACH forecast domain covers Canada and most of the USA, including Alaska, fire location information is needed for both of these large countries. Near-real-time satellite data are obtained and processed separately for the two countries for organizational reasons. Fire location and fuel consumption data for Canada are provided by the Canadian Forest Service's Canadian Wild Fire Information System (CWFIS) while fire location and emissions data for the U.S. are provided by the SMARTFIRE (Satellite Mapping Automated Reanalysis Tool for Fire Incident Reconciliation) system via the on-line BlueSky Gateway. During AQ model runs, emissions from individual fire sources are injected into elevated model layers based on plume-rise calculations and then transport and chemistry calculations are performed. This 'on the fly' approach to the insertion of emissions provides greater flexibility since on-line meteorology is used and reduces computational overhead in emission pre-processing. An experimental wildfire version of GEM-MACH was run in real-time mode for the summers of 2012 and 2013. 48-hour forecasts were generated every 12 hours (at 00 and 12 UTC). Noticeable improvements in the AQ forecasts for PM2.5 were seen in numerous regions where fire activity was high. Case studies evaluating model performance for specific regions, computed objective scores, and subjective evaluations by AQ forecasters will be included in this presentation. Using the lessons learned from the last two summers, Environment Canada will continue to work towards the goal of incorporating near-real-time intermittent wildfire emissions within the operational air quality forecast system.

Photometric properties for selected algol-type binaries. VIII. The triple systems DI Peg and AF Gem revisited

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yang, Yuan-Gui; Li, Shu-Zheng; Yang, Ying, E-mail: yygcn@163.com, E-mail: yangyg@chnu.edu.cn, E-mail: yangy818@yeah.net

2014-06-01

New extensive photometry for two triple binary stars, DI Peg and AF Gem, was performed from 2012 October to 2013 January, with two small telescopes at Xinglong station (XLs) of NAOC. From new multi-color observations and previously published ones in literature, the photometric models were (re)deduced using the updated Wilson-Devinney code. The results indicated that the low third lights exist in two classic Algol-type binaries, whose fill-out factors for the more massive components are f{sub p} = 78.2(± 0.4)% for DI Peg, and f{sub p} = 69.0(± 0.3)% for AF Gem, respectively. Through analyzing the O–C curves, the orbital periodsmore » for two binaries change in the complicated mode. The period of DI Peg possibly appears to show two light-time orbits, whose modulated periods are P {sub 3} = 54.6(± 0.5) yr and P {sub 4} = 23.0(± 0.6) yr, respectively. The inferred minimum masses for the inner and outer sub-stellar companions are M {sub in} = 0.095 M {sub ☉} and M {sub out} = 0.170 M {sub ☉}, respectively. Therefore, DI Peg may be a quadruple star. The orbital period of AF Gem appears to show a continuous period decrease or a cyclic variation; the latter may be preferable. The cyclic oscillation, with a period of 120.3(± 2.5) yr, may be attributed to the light-time effect due to the third body. This kind of additional companion may extract angular momentum from the central system, which may play a key role in the evolution of the binary.« less

Oxygen isotopic composition of chondritic interplanetary dust particles: A genetic link between carbonaceous chondrites and comets

NASA Astrophysics Data System (ADS)

Aléon, J.; Engrand, C.; Leshin, L. A.; McKeegan, K. D.

2009-08-01

Oxygen isotopes were measured in four chondritic hydrated interplanetary dust particles (IDPs) and five chondritic anhydrous IDPs including two GEMS-rich particles (Glass embedded with metal and sulfides) by a combination of high precision and high lateral resolution ion microprobe techniques. All IDPs have isotopic compositions tightly clustered around that of solar system planetary materials. Hydrated IDPs have mass-fractionated oxygen isotopic compositions similar to those of CI and CM carbonaceous chondrites, consistent with hydration of initially anhydrous protosolar dust. Anhydrous IDPs have small 16O excesses and depletions similar to those of carbonaceous chondrites, the largest 16O variations being hosted by the two GEMS-rich IDPs. Coarse-grained forsteritic olivine and enstatite in anhydrous IDPs are isotopically similar to their counterparts in comet Wild 2 and in chondrules suggesting a high temperature inner solar system origin. The small variations in the 16O content of GEMS-rich IDPs suggest that most GEMS either do not preserve a record of interstellar processes or the initial interstellar dust is not 16O-rich as expected by self-shielding models, although a larger dataset is required to verify these conclusions. Together with other chemical and mineralogical indicators, O isotopes show that the parent-bodies of carbonaceous chondrites, of chondritic IDPs, of most Antarctic micrometeorites, and comet Wild 2 belong to a single family of objects of carbonaceous chondrite chemical affinity as distinct from ordinary, enstatite, K- and R-chondrites. Comparison with astronomical observations thus suggests a chemical continuum of objects including main belt and outer solar system asteroids such as C-type, P-type and D-type asteroids, Trojans and Centaurs as well as short-period comets and other Kuiper Belt Objects.

Binarity and Accretion in AGB Stars: HST/STIS Observations of UV Flickering in Y Gem

NASA Astrophysics Data System (ADS)

Sahai, R.; Sánchez Contreras, C.; Mangan, A. S.; Sanz-Forcada, J.; Muthumariappan, C.; Claussen, M. J.

2018-06-01

Binarity is believed to dramatically affect the history and geometry of mass loss in AGB and post-AGB stars, but observational evidence of binarity is sorely lacking. As part of a project to search for hot binary companions to cool AGB stars using the GALEX archive, we discovered a late-M star, Y Gem, to be a source of strong and variable UV and X-ray emission. Here we report UV spectroscopic observations of Y Gem obtained with the Hubble Space Telescope that show strong flickering in the UV continuum on timescales of ≲20 s, characteristic of an active accretion disk. Several UV lines with P-Cygni-type profiles from species such as Si IV and C IV are also observed, with emission and absorption features that are red- and blueshifted by velocities of ∼500 {km} {{{s}}}-1 from the systemic velocity. Our model for these (and previous) observations is that material from the primary star is gravitationally captured by a companion, producing a hot accretion disk. The latter powers a fast outflow that produces blueshifted features due to the absorption of UV continuum emitted by the disk, whereas the redshifted emission features arise in heated infalling material from the primary. The outflow velocities support a previous inference by Sahai et al. that Y Gem’s companion is a low-mass main-sequence star. Blackbody fitting of the UV continuum implies an accretion luminosity of about 13 L ⊙, and thus a mass-accretion rate >5 × 10‑7 M ⊙ yr‑1 we infer that Roche-lobe overflow is the most likely binary accretion mode for Y Gem.

IUE observations of two late-type stars Bx Mon (M + pec) and TV Gem (M1 Iab)

NASA Technical Reports Server (NTRS)

Michalitsianos, A. G.; Hobbs, R. W.; Kafatos, M.

1981-01-01

The IUE observations of two late type stars BX Mon and TV Gem that reveal the emission properties in the ultraviolet of subluminous companions are discussed. Analysis of the continuum emission observed from BX Mon suggests the companion, is a middle A III star. High excitation emission lines observed between 1200 A and 2000 A that generally do not typify emission observed in either late M type variables or A type stars are also detected. It is suggested that these strong high excitation lines arise in a large volume of gas heated by nonradiation processes that could be the result of tidal interaction and mass exchange in the binary system. In contrast to stars such as BX Mon, the luminous M1 supergiant TV Gem shows unexpected intense UV continuum throughout the sensitivity range of IUE. The UV spectrum of TV Gem is characterized by intense continuum with broad absorption features detected in the short wavelength range. The analysis shows that the companion could be a B9 or A1 III-IV star. Alternate suggestions are presented for explaining the UV continuum in terms of an accretion disk in association with TV Gem.

Simulation and Digitization of a Gas Electron Multiplier Detector Using Geant4 and an Object-Oriented Digitization Program

NASA Astrophysics Data System (ADS)

McMullen, Timothy; Liyanage, Nilanga; Xiong, Weizhi; Zhao, Zhiwen

2017-01-01

Our research has focused on simulating the response of a Gas Electron Multiplier (GEM) detector using computational methods. GEM detectors provide a cost effective solution for radiation detection in high rate environments. A detailed simulation of GEM detector response to radiation is essential for the successful adaption of these detectors to different applications. Using Geant4 Monte Carlo (GEMC), a wrapper around Geant4 which has been successfully used to simulate the Solenoidal Large Intensity Device (SoLID) at Jefferson Lab, we are developing a simulation of a GEM chamber similar to the detectors currently used in our lab. We are also refining an object-oriented digitization program, which translates energy deposition information from GEMC into electronic readout which resembles the readout from our physical detectors. We have run the simulation with beta particles produced by the simulated decay of a 90Sr source, as well as with a simulated bremsstrahlung spectrum. Comparing the simulation data with real GEM data taken under similar conditions is used to refine the simulation parameters. Comparisons between results from the simulations and results from detector tests will be presented.

GEM detector performance and efficiency in Proton Charge Radius (PRad) Experiment

NASA Astrophysics Data System (ADS)

Bai, Xinzhan; PRad Collaboration

2017-09-01

The PRad experiment (E12-11-106) was performed in 2016 at Jefferson Lab in Hall B. It aims to investigate the proton charge radius puzzle through electron proton elastic scattering process. The experiment used a non-magnetic spectrometer method, and reached a very small ep scattering angle and thus an unprecedented small four-momentum transfer squared region, Q2 from 2 ×10-4 to 0.06(GeV / c) 2 . PRad experiment was designed to measure the proton charge radius within a sub-percent precision. Gas Electron Multiplier (GEM) detectors have contributed to reach the experimental goal. A pair of large area GEM detectors, and a large acceptance, high resolution calorimeter(HyCal) were utilized in the experiment to detect the scattered electrons. The precision requirements of the experiment demands a highly accurate understanding of efficiency and stability of GEM detectors. In this talk, we will present the preliminary results on the performance and efficiency of GEM detectors. This work is supported in part by NSF MRI award PHY-1229153, the U.S. Department of Energy under Contract No. DE-FG02-07ER41528, No. DE-FG02-03ER41240 and Thomas Jefferson National Laboratory.

Data Quality Monitoring System for New GEM Muon Detectors for the CMS Experiment Upgrade

NASA Astrophysics Data System (ADS)

King, Robert; CMS Muon Group Team

2017-01-01

The Gas Electron Multiplier (GEM) detectors are novel detectors designed to improve the muon trigger and tracking performance in CMS experiment for the high luminosity upgrade of the LHC. Partial installation of GEM detectors is planned during the 2016-2017 technical stop. Before the GEM system is installed underground, its data acquisition (DAQ) electronics must be thoroughly tested. The DAQ system includes several commercial and custom-built electronic boards running custom firmware. The front-end electronics are radiation-hard and communicate via optical fibers. The data quality monitoring (DQM) software framework has been designed to provide online verification of the integrity of the data produced by the detector electronics, and to promptly identify potential hardware or firmware malfunctions in the system. Local hits reconstruction and clustering algorithms allow quality control of the data produced by each GEM chamber. Once the new detectors are installed, the DQM will monitor the stability and performance of the system during normal data-taking operations. We discuss the design of the DQM system, the software being developed to read out and process the detector data, and the methods used to identify and report hardware and firmware malfunctions of the system.

GenomeGems: evaluation of genetic variability from deep sequencing data

PubMed Central

2012-01-01

Background Detection of disease-causing mutations using Deep Sequencing technologies possesses great challenges. In particular, organizing the great amount of sequences generated so that mutations, which might possibly be biologically relevant, are easily identified is a difficult task. Yet, for this assignment only limited automatic accessible tools exist. Findings We developed GenomeGems to gap this need by enabling the user to view and compare Single Nucleotide Polymorphisms (SNPs) from multiple datasets and to load the data onto the UCSC Genome Browser for an expanded and familiar visualization. As such, via automatic, clear and accessible presentation of processed Deep Sequencing data, our tool aims to facilitate ranking of genomic SNP calling. GenomeGems runs on a local Personal Computer (PC) and is freely available at http://www.tau.ac.il/~nshomron/GenomeGems. Conclusions GenomeGems enables researchers to identify potential disease-causing SNPs in an efficient manner. This enables rapid turnover of information and leads to further experimental SNP validation. The tool allows the user to compare and visualize SNPs from multiple experiments and to easily load SNP data onto the UCSC Genome browser for further detailed information. PMID:22748151

Evolution in boron-based GEM detectors for diffraction measurements: from planar to 3D converters

NASA Astrophysics Data System (ADS)

Albani, Giorgia; Perelli Cippo, Enrico; Croci, Gabriele; Muraro, Andrea; Schooneveld, Erik; Scherillo, Antonella; Hall-Wilton, Richard; Kanaki, Kalliopi; Höglund, Carina; Hultman, Lars; Birch, Jens; Claps, Gerardo; Murtas, Fabrizio; Rebai, Marica; Tardocchi, Marco; Gorini, Giuseppe

2016-11-01

The so-called ‘3He-crisis’ has motivated the neutron detector community to undertake an intense R&D programme in order to develop technologies alternative to standard 3He tubes and suitable for neutron detection systems in future spallation sources such as the European spallation source (ESS). Boron-based GEM (gas electron multiplier) detectors are a promising ‘3He-free’ technology for thermal neutron detection in neutron scattering experiments. In this paper the evolution of boron-based GEM detectors from planar to 3D converters with an application in diffraction measurements is presented. The use of 3D converters coupled with GEMs allows for an optimization of the detector performances. Three different detectors were used for diffraction measurements on the INES instrument at the ISIS spallation source. The performances of the GEM-detectors are compared with those of conventional 3He tubes installed on the INES instrument. The conceptual detector with the 3D converter used in this paper reached a count rate per unit area of about 25% relative to the currently installed 3He tube. Its timing resolution is similar and the signal-to-background ratio (S/B) is 2 times lower.

Cosmic Ray Tests of Gas Electron Multipliers

NASA Astrophysics Data System (ADS)

Harris, Letrell; Kohl, Michael; Super Bigbite Spectrometer Collaboration; MUSE Collaboration; Hampton University Collaboration; DarkLight Collaboration

2017-09-01

The Super Bigbite Spectrometer (SBS) collaboration at Jefferson Laboratory (Jlab) is conducting an experimental program to measure the elastic form factors of nucleons. In association with Jlab, SBS Gas Electron Multipliers (GEMs) have been constructed by the University of Virginia (back trackers) and INFN in Italy (front trackers). The SBS GEMs measuring 40 × 150 cm2 (front trackers) and 60 × 200 cm2 (back trackers) in surface area are in the process of being conditioned and analyzed for tracking efficiency using cosmic rays in a clean room test lab before further assembly in the fall. These GEMs will be used to track the path of particles scattered off nuclear targets. Scintillators are placed both above and below GEM stacks to trigger a readout. In addition, Hampton University has also constructed a set of 10 × 10 cm2 GEMs originally for the OLYMPUS experiment at DESY in Germany, which are now being used for both the MUSE experiment at Paul Scherrer Institute (PSI) in Switzerland and the DarkLight experiment at Jlab's Low Energy Recirculatory Facility (LERF), where they are in the process of being characterized with cosmic rays. Jefferson Laboratory. This work has been supported by Jefferson Laboratory.

Summertime elemental mercury exchange of temperate grasslands on an ecosystem-scale

PubMed Central

Fritsche, J.; Wohlfahrt, G.; Ammann, C.; Zeeman, M.; Hammerle, A.; Obrist, D.; Alewell, C.

2013-01-01

In order to estimate the air-surface mercury exchange of grasslands in temperate climate regions, fluxes of gaseous elemental mercury (GEM) were measured at two sites in Switzerland and one in Austria during summer 2006. Two classic micrometeorological methods (aerodynamic and modified Bowen ratio) have been applied to estimate net GEM exchange rates and to determine the response of the GEM flux to changes in environmental conditions (e.g. heavy rain, summer ozone) on an ecosystem-scale. Both methods proved to be appropriate to estimate fluxes on time scales of a few hours and longer. Average dry deposition rates up to 4.3 ng m−2 h−1 and mean deposition velocities up to 0.10 cm s−1 were measured, which indicates that during the active vegetation period temperate grasslands are a small net sink for atmospheric mercury. With increasing ozone concentrations depletion of GEM was observed, but could not be quantified from the flux signal. Night-time deposition fluxes of GEM were measured and seem to be the result of mercury co-deposition with condensing water. Effects of grass cuts could also be observed, but were of minor magnitude. PMID:24348525

Spatial-mode storage in a gradient-echo memory

NASA Astrophysics Data System (ADS)

Higginbottom, D. B.; Sparkes, B. M.; Rancic, M.; Pinel, O.; Hosseini, M.; Lam, P. K.; Buchler, B. C.

2012-08-01

Three-level atomic gradient echo memory (Λ-GEM) is a proposed candidate for efficient quantum storage and for linear optical quantum computation with time-bin multiplexing [Hosseini , Nature (London)NATUAS0028-083610.1038/nature08325 461, 241 (2009)]. In this paper we investigate the spatial multimode properties of a Λ-GEM system. Using a high-speed triggered CCD, we demonstrate the storage of complex spatial modes and images. We also present an in-principle demonstration of spatial multiplexing by showing selective recall of spatial elements of a stored spin wave. Using our measurements, we consider the effect of diffusion within the atomic vapor and investigate its role in spatial decoherence. Our measurements allow us to quantify the spatial distortion due to both diffusion and inhomogeneous control field scattering and compare these to theoretical models.

Development of the GEM-TPC X-ray Polarimeter with the Scalable Readout System

NASA Astrophysics Data System (ADS)

Kitaguchi, Takao; Hayato, Asami; Iwakiri, Wataru; Takeuchi, Yoko; Kubota, Megu; Nishida, Kazuki; Enoto, Teruaki; Tamagawa, Toru

2018-02-01

We have developed a gaseous Time Projection Chamber (TPC) containing a single-layered foil of a gas electron multiplier (GEM) to open up a new window on cosmic X-ray polarimetry in the 2-10 keV band. The micro-pattern TPC polarimeter in combination with the Scalable Readout System produced by the RD51 collaboration has been built as an engineering model to optimize detector parameters and improve polarimeter sensitivity. The polarimeter was characterized with unpolarized X-rays from an X-ray generator in a laboratory and polarized X-rays on the BL32B2 beamline at the SPring-8 synchrotron radiation facility. Preliminary results show that the polarimeter has a comparable modulation factor to a prototype of the flight one.

Reconstructing spatial organizations of chromosomes through manifold learning

PubMed Central

Deng, Wenxuan; Hu, Hailin; Ma, Rui; Zhang, Sai; Yang, Jinglin; Peng, Jian; Kaplan, Tommy; Zeng, Jianyang

2018-01-01

Abstract Decoding the spatial organizations of chromosomes has crucial implications for studying eukaryotic gene regulation. Recently, chromosomal conformation capture based technologies, such as Hi-C, have been widely used to uncover the interaction frequencies of genomic loci in a high-throughput and genome-wide manner and provide new insights into the folding of three-dimensional (3D) genome structure. In this paper, we develop a novel manifold learning based framework, called GEM (Genomic organization reconstructor based on conformational Energy and Manifold learning), to reconstruct the three-dimensional organizations of chromosomes by integrating Hi-C data with biophysical feasibility. Unlike previous methods, which explicitly assume specific relationships between Hi-C interaction frequencies and spatial distances, our model directly embeds the neighboring affinities from Hi-C space into 3D Euclidean space. Extensive validations demonstrated that GEM not only greatly outperformed other state-of-art modeling methods but also provided a physically and physiologically valid 3D representations of the organizations of chromosomes. Furthermore, we for the first time apply the modeled chromatin structures to recover long-range genomic interactions missing from original Hi-C data. PMID:29408992

Reconstructing spatial organizations of chromosomes through manifold learning.

PubMed

Zhu, Guangxiang; Deng, Wenxuan; Hu, Hailin; Ma, Rui; Zhang, Sai; Yang, Jinglin; Peng, Jian; Kaplan, Tommy; Zeng, Jianyang

2018-05-04

Decoding the spatial organizations of chromosomes has crucial implications for studying eukaryotic gene regulation. Recently, chromosomal conformation capture based technologies, such as Hi-C, have been widely used to uncover the interaction frequencies of genomic loci in a high-throughput and genome-wide manner and provide new insights into the folding of three-dimensional (3D) genome structure. In this paper, we develop a novel manifold learning based framework, called GEM (Genomic organization reconstructor based on conformational Energy and Manifold learning), to reconstruct the three-dimensional organizations of chromosomes by integrating Hi-C data with biophysical feasibility. Unlike previous methods, which explicitly assume specific relationships between Hi-C interaction frequencies and spatial distances, our model directly embeds the neighboring affinities from Hi-C space into 3D Euclidean space. Extensive validations demonstrated that GEM not only greatly outperformed other state-of-art modeling methods but also provided a physically and physiologically valid 3D representations of the organizations of chromosomes. Furthermore, we for the first time apply the modeled chromatin structures to recover long-range genomic interactions missing from original Hi-C data.

Evaluation and application of site-specific data to revise the first-order decay model for estimating landfill gas generation and emissions at Danish landfills.

PubMed

Mou, Zishen; Scheutz, Charlotte; Kjeldsen, Peter

2015-06-01

Methane (CH₄) generated from low-organic waste degradation at four Danish landfills was estimated by three first-order decay (FOD) landfill gas (LFG) generation models (LandGEM, IPCC, and Afvalzorg). Actual waste data from Danish landfills were applied to fit model (IPCC and Afvalzorg) required categories. In general, the single-phase model, LandGEM, significantly overestimated CH₄generation, because it applied too high default values for key parameters to handle low-organic waste scenarios. The key parameters were biochemical CH₄potential (BMP) and CH₄generation rate constant (k-value). In comparison to the IPCC model, the Afvalzorg model was more suitable for estimating CH₄generation at Danish landfills, because it defined more proper waste categories rather than traditional municipal solid waste (MSW) fractions. Moreover, the Afvalzorg model could better show the influence of not only the total disposed waste amount, but also various waste categories. By using laboratory-determined BMPs and k-values for shredder, sludge, mixed bulky waste, and street-cleaning waste, the Afvalzorg model was revised. The revised model estimated smaller cumulative CH₄generation results at the four Danish landfills (from the start of disposal until 2020 and until 2100). Through a CH₄mass balance approach, fugitive CH₄emissions from whole sites and a specific cell for shredder waste were aggregated based on the revised Afvalzorg model outcomes. Aggregated results were in good agreement with field measurements, indicating that the revised Afvalzorg model could provide practical and accurate estimation for Danish LFG emissions. This study is valuable for both researchers and engineers aiming to predict, control, and mitigate fugitive CH₄emissions from landfills receiving low-organic waste. Landfill operators use the first-order decay (FOD) models to estimate methane (CH₄) generation. A single-phase model (LandGEM) and a traditional model (IPCC) could result in overestimation when handling a low-organic waste scenario. Site-specific data were important and capable of calibrating key parameter values in FOD models. The comparison study of the revised Afvalzorg model outcomes and field measurements at four Danish landfills provided a guideline for revising the Pollutants Release and Transfer Registers (PRTR) model, as well as indicating noteworthy waste fractions that could emit CH₄at modern landfills.

Design of T-GEM detectors for X-ray diagnostics on JET

NASA Astrophysics Data System (ADS)

Rzadkiewicz, J.; Dominik, W.; Scholz, M.; Chernyshova, M.; Czarski, T.; Czyrkowski, H.; Dabrowski, R.; Jakubowska, K.; Karpinski, L.; Kasprowicz, G.; Kierzkowski, K.; Pozniak, K.; Salapa, Z.; Zabolotny, W.; Blanchard, P.; Tyrrell, S.; Zastrow, K.-D.; JET EFDA Contributors

2013-08-01

Upgraded high-resolution X-ray diagnostics on JET is expected to monitor the plasma radiation emitted by W46+ and Ni26+ ions at 2.4 keV and 7.8 keV photon energies, respectively. Both X-ray lines will be monitored by new generation energy-resolved micropattern gas detectors with 1-D position reconstruction capability. The detection structure is based on triple GEM (T-GEM) amplification structure followed by the strip readout electrode. This article presents a design of new detectors and prototype detector tests.

Construction of the TH-GEM detector components for metrology of low energy ionizing radiation

NASA Astrophysics Data System (ADS)

Silva, N. F.; Silva, T. F.; Castro, M. C.; Natal da Luz, H.; Caldas, L. V. E.

2018-03-01

The Gas Electron Multiplier (GEM) detector was originally proposed as a position sensitive detector to determine trajectories of particles prevenient from high-energy collisions. In order to study the potential of TH-GEM type detectors in dosimetric applications for low energy X-rays, specifically for the mammography standard qualities, it was proposed to construct a prototype with characteristics suitable for such use. In this work the general, structural and material parameters applicable to the necessary conditions were defined, establishing the process of construction of the components of a prototype.

High Performance, Mission Critical Applications for the War-fighter: Solutions to Network Challenges and Today’s Fluid Combat Environment

DTIC Science & Technology

2010-04-01

ADDRESS(ES) GemStone ,1260 NW Waterhouse Ave., Suite 200,Beaverton,OR,97006 8. PERFORMING ORGANIZATION REPORT NUMBER 9. SPONSORING/MONITORING AGENCY...rates as needed, in massively distributed environments. Such a type of software, a “Data Fabric” is available today from GemStone Systems. It is...Plaza, 23rd Floor New York, NY 10001 | Phone: 646.530.8458 Washington D.C. | Phone: 301.564.0550 Copyright© 2008 by GemStone Systems, Inc. All rights

Tunable Cascade Reaction of Aryl Diazonium Salts and Trialkylamine: Synthesis of Monofluorinated Arylhydrazones and gem-Difluorinated Azo Compounds.

PubMed

Guo, Rui; Zhang, Zhengjuan; Shi, Feng; Tang, Pingping

2016-03-04

The first example of a mild and tunable cascade reaction of aryl diazonium salts and trialkylamine in the presence of Selectfluor to prepare monofluorinated arylhydrazones and gem-difluorinated azo compounds without metal has been explored. In the presence of H2O, the monofluorinated arylhydrazones were observed in moderate to good yield. In the absence of H2O, the gem-difluorinated azo compounds were obtained. The fluorinated arylhydrazones were utilized to synthesize fluorinated pyrazoles and other nitrogen-containing compounds.

High-Performance Data Analytics Beyond the Relational and Graph Data Models with GEMS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Castellana, Vito G.; Minutoli, Marco; Bhatt, Shreyansh

Graphs represent an increasingly popular data model for data-analytics, since they can naturally represent relationships and interactions between entities. Relational databases and their pure table-based data model are not well suitable to store and process sparse data. Consequently, graph databases have gained interest in the last few years and the Resource Description Framework (RDF) became the standard data model for graph data. Nevertheless, while RDF is well suited to analyze the relationships between the entities, it is not efficient in representing their attributes and properties. In this work we propose the adoption of a new hybrid data model, based onmore » attributed graphs, that aims at overcoming the limitations of the pure relational and graph data models. We present how we have re-designed the GEMS data-analytics framework to fully take advantage of the proposed hybrid data model. To improve analysts productivity, in addition to a C++ API for applications development, we adopt GraQL as input query language. We validate our approach implementing a set of queries on net-flow data and we compare our framework performance against Neo4j. Experimental results show significant performance improvement over Neo4j, up to several orders of magnitude when increasing the size of the input data.« less

UTMD-Promoted Co-Delivery of Gemcitabine and miR-21 Inhibitor by Dendrimer-Entrapped Gold Nanoparticles for Pancreatic Cancer Therapy

PubMed Central

Lin, Lizhou; Fan, Yu; Gao, Feng; Jin, Lifang; Li, Dan; Sun, Wenjie; Li, Fan; Qin, Peng; Shi, Qiusheng; Shi, Xiangyang; Du, Lianfang

2018-01-01

Conventional chemotherapy of pancreatic cancer (PaCa) suffers the problems of low drug permeability and inherent or acquired drug resistance. Development of new strategies for enhanced therapy still remains a great challenge. Herein, we report a new ultrasound-targeted microbubble destruction (UTMD)-promoted delivery system based on dendrimer-entrapped gold nanoparticles (Au DENPs) for co-delivery of gemcitabine (Gem) and miR-21 inhibitor (miR-21i). Methods: In this study, Gem-Au DENPs/miR-21i was designed and synthesized. The designed polyplexes were characterized via transmission electron microscopy (TEM), Gel retardation assay and dynamic light scattering (DLS). Then, the optimum exposure parameters were examined by an ultrasound exposure platform. The cellular uptake, cytotoxicity and anticancer effects in vitro were analyzed by confocal laser microscopy, spectra microplate reader, flow cytometry and a chemiluminescence imaging system. Lastly, the anticancer effects in vivo were evaluated by contrast-enhanced ultrasound (CEUS), hematoxylin and eosin (H&E) staining, TUNEL staining and comparison of tumor volume. Results: The results showed that the Gem-Au DENPs/miR-21i can be uptake by cancer cells and the cellular uptake was further facilitated by UTMD with an ultrasound power of 0.4 W/cm2 to enhance the cell permeability. Further, the co-delivery of Gem and miR-21i with or without UTMD treatment displayed 82-fold and 13-fold lower IC50 values than the free Gem, respectively. The UTMD-promoted co-delivery of Gem and miR-21i was further validated by in vivo treatment and showed a significant tumor volume reduction and an increase in blood perfusion of xenografted pancreatic tumors. Conclusion: The co-delivery of Gem and miR-21i using Au DENPs can be significantly promoted by UTMD technology, hence providing a promising strategy for effective pancreatic cancer treatments. PMID:29556365

Secondary scintillation yield from GEM and THGEM gaseous electron multipliers for direct dark matter search

NASA Astrophysics Data System (ADS)

Monteiro, C. M. B.; Fernandes, L. M. P.; Veloso, J. F. C. A.; Oliveira, C. A. B.; dos Santos, J. M. F.

2012-07-01

The search for alternatives to PMTs as photosensors in optical TPCs for rare event detection has significantly increased in the last few years. In particular, in view of the next generation large volume detectors, the use of photosensors with lower natural radioactivity, such as large area APDs or GM-APDs, with the additional possibility of sparse surface coverage, triggered the intense study of secondary scintillation production in micropattern electron multipliers, such as GEMs and THGEMs, as alternatives to the commonly used uniform electric field region between two parallel meshes. The much higher scintillation output obtained from the electron avalanches in such microstructures presents an advantage in those situations. The accurate knowledge of the amount of such scintillation is important for correct detector simulation and optimization. It will also serve as a benchmark for software tools developed and/or under development for the calculation of the amount of such scintillation.The secondary scintillation yield, or electroluminescence yield, in the electron avalanches of GEMs and THGEMs operating in gaseous xenon and argon has been determined for different gas pressures. At 1 bar, THGEMs deliver electroluminescence yields that are more than one order of magnitude higher when compared to those achieved in GEMs and two orders of magnitude when compared to those achieved in a uniform field gap. The THGEM electroluminescence yield presents a faster decrease with pressure when comparing to the GEM electroluminescence yield, reaching similar values to what is achieved in GEMs for xenon pressures of 2.5 bar, but still one order of magnitude higher than that produced in a uniform field gap. Another exception is the GEM operating in argon, which presents an electroluminescence yield similar to that produced in a uniform electric field gap, while the THGEM achieves yields that are more than one order of magnitude higher.

Efficacy and Factors Affecting Outcome of Gemcitabine Concurrent Chemoradiotherapy in Patients With Locally Advanced Pancreatic Cancer

DOE Office of Scientific and Technical Information (OSTI.GOV)

Huang, P.-I.; National Yang-Ming University School of Medicine, Taipei, Taiwan; Chao, Yee

Purpose: To evaluate the efficacy and prognostic factors of gemcitabine (GEM) concurrent chemoradiotherapy (CCRT) in patients with locally advanced pancreatic cancer. Methods and Materials: Between January 2002 and December 2005, 55 patients with locally advanced pancreatic cancer treated with GEM (400 mg/m{sup 2}/wk) concurrently with radiotherapy (median dose, 50.4 Gy; range, 26-61.2) at Taipei Veterans General Hospital were enrolled. GEM (1,000 mg/m{sup 2}) was continued after CCRT as maintenance therapy once weekly for 3 weeks and repeated every 4 weeks. The response, survival, toxicity, and prognostic factors were evaluated. Results: With a median follow-up of 10.8 months, the 1- andmore » 2-year survival rate was 52% and 19%, respectively. The median overall survival (OS) and median time to progression (TTP) was 12.4 and 5.9 months, respectively. The response rate was 42% (2 complete responses and 21 partial responses). The major Grade 3-4 toxicities were neutropenia (22%) and anorexia (19%). The median OS and TTP was 15.8 and 9.5 months in the GEM CCRT responders compared with 7.5 and 3.5 months in the nonresponders, respectively (both p < 0.001). The responders had a better Karnofsky performance status (KPS) (86 {+-} 2 vs. 77 {+-} 2, p = 0.002) and had received a greater GEM dose intensity (347 {+-} 13 mg/m{sup 2}/wk vs. 296 {+-} 15 mg/m{sup 2}/wk, p = 0.02) than the nonresponders. KPS and serum carbohydrate antigen 19-9 were the most significant prognostic factors of OS and TTP. Conclusion: The results of our study have shown that GEM CCRT is effective and tolerable for patients with locally advanced pancreatic cancer. The KPS and GEM dose correlated with response. Also, the KPS and CA 19-9 level were the most important factors affecting OS and TTP.« less

Computational Methods to Assess the Production Potential of Bio-Based Chemicals.

PubMed

Campodonico, Miguel A; Sukumara, Sumesh; Feist, Adam M; Herrgård, Markus J

2018-01-01

Elevated costs and long implementation times of bio-based processes for producing chemicals represent a bottleneck for moving to a bio-based economy. A prospective analysis able to elucidate economically and technically feasible product targets at early research phases is mandatory. Computational tools can be implemented to explore the biological and technical spectrum of feasibility, while constraining the operational space for desired chemicals. In this chapter, two different computational tools for assessing potential for bio-based production of chemicals from different perspectives are described in detail. The first tool is GEM-Path: an algorithm to compute all structurally possible pathways from one target molecule to the host metabolome. The second tool is a framework for Modeling Sustainable Industrial Chemicals production (MuSIC), which integrates modeling approaches for cellular metabolism, bioreactor design, upstream/downstream processes, and economic impact assessment. Integrating GEM-Path and MuSIC will play a vital role in supporting early phases of research efforts and guide the policy makers with decisions, as we progress toward planning a sustainable chemical industry.

Experimental and Theoretical Progress on the GEM Theory

NASA Astrophysics Data System (ADS)

Brandenburg, J. E.

This paper reports experimental and theoretical progress on the GEM unification theory. In theoretical progress, the derivation of the GEM theory using it in a fully covariant form is achieved based on the principle of self-cancellation of the ZPF EM stress-momentum tensor. This derivation reveals that the final Gravity-EM system obeys a Helmholtz-like equation resembling that governing sound propagation. Finally an improved derivation of the formula for the Newton Gravitation constant is shown, qresulting in the formula G = e2/(4πɛ0 me mp) α exp (-2 (α-.86/σ2…) = 6.673443 x10-11 N-m2 kg-2 that agrees with experimental values to 3 parts per 100,000. Experiments have found parity violating weight reductions in gyroscopes driven by rotating EM fields. These experiments appear to confirm gravity modification using electromagnetism predicted by the GEM theory through the Vacuum Bernoulli Equation.

Optical characterization of synthetic faceted gem materials grown from hydrothermal solutions

NASA Astrophysics Data System (ADS)

Lu, Taijin; Shigley, James E.

1998-10-01

Various non-destructive optical characterization techniques have been used to characterize and identify synthetic gem materials grown from hydrothermal solutions, to include ruby, sapphire, emerald, amethyst and ametrine (amethyst-citrine), from their natural counterparts. The ability to observe internal features, such as inclusions, dislocations, twins, color bands, and growth zoning in gem materials is strongly dependent on the observation techniques and conditions, since faceted gemstones have many polished surfaces which can reflect and scatter light in various directions which can make observation difficult. However, diagnostic gemological properties of these faceted synthetic gem materials can be obtained by choosing effective optical characterization methods, and by modifying optical instruments. Examples of some of the distinctive features of synthetic amethyst, ametrine, pink quartz, ruby and emerald are presented to illustrate means of optical characterization of gemstones. The ability to observe defects by light scattering techniques is discussed.

A new design using GEM-based technology for the CMS experiment

NASA Astrophysics Data System (ADS)

Ressegotti, M.

2017-07-01

The muon system of the Compact Muon Solenoid (CMS) experiment at the LHC is currently not instrumented for pseudorapidity higher than |η|> 2.4. The main challenges to the installation of a detector in that position are the high particle flux to be sustained, a high level of radiation, and the ability to accomodate a multilevel detector into the small available space (less than 30 cm). A new back-to-back configuration of a Gas Electron Multiplier (GEM) detector is presented with the aim of developing a compact, multi-layer GEM detector. It is composed of two independent stacked triple-GEM detectors, positioned with the anodes toward the outside and sharing the same cathode plane, which is located at the center of the chamber, to reduce the total detector's thickness. A first prototype has been produced and tested with an X-Ray source and muon beam. First results on its performance are presented.

Prospects and Techniques for Eddy-Resolving Acoustic Tomography in the Eastern Gulf of Mexico

NASA Astrophysics Data System (ADS)

Caruthers, J. W.; Nechaev, D.; Roman, D. A.; Sidorovskaia, N. A.; Ioup, G. E.; Ioup, J.; Yaremchuk, M.

2007-05-01

For several decades monitoring and modeling the dynamics and physical structure of the Gulf of Mexico have been major efforts undertaken by oceanographers of the United States and other American countries. There are very interesting physical oceanographic features in the Gulf, not the least of which are the Gulf Loop Current and the eddies it spawns. Satellite sensing of IR and altimeter imagery has been a major input to modeling those features. Such efforts are very important to the economy and well being of much of the United States and Mexico, including fisheries, mineral economies, hurricane strengths and paths in the summer, and severe snow storms in the eastern US in the winter. A major shortcoming of the present monitoring of the Gulf is the lack of subsurface input to the dynamic models of the Gulf. Acoustic tomography is a viable means of providing that missing input. Several universities have come together to investigate the prospects for establishing a Gulf Eddy Monitoring System (GEMS) for the deep eastern half of the Gulf using acoustic tomography. The group has conducted several acoustics experiments and propagation studies to determine the feasibility of long-range propagation in the eastern Gulf and the mitigation of adverse effects on marine mammal populations in that region under the Office of Naval Research project entitled the Littoral Acoustic Demonstration Center (LADC). The group has also convened an invited session for the 9th World Multiconference on Systemics, Cybernetics and Informatics (WMSCI 2005) Orlando, FL, July 2005. This paper discusses prospects for establishing the GEMS tomographic system, its technical characteristics, and its contributions to advancing the knowledge of the dynamics of the Gulf. This presentation will concentrate on the characteristics of a single-slice tomographic system, called GEMS Phase I, across the approaches to the DeSoto Canyon in the northeastern Gulf and its prospect for monitoring the movements of eddies into the canyon. It will also touch on the prospects for expanding the network to include the entire eastern Gulf with a moored system on the Campeche Bank and several along the US Gulf shelf. This projected tomographic system is called GEMS Phase II. The paper will invite the participation of Mexican organizations to help plan and develop this proposed extensive project.

Short-time variation of mercury speciation in the urban of Göteborg during GÖTE-2005

NASA Astrophysics Data System (ADS)

Li, Jing; Sommar, Jonas; Wängberg, Ingvar; Lindqvist, Oliver; Wei, Shi-qiang

Mercury species samples for gaseous elemental mercury (GEM) with a temporal resolution of 5 min, 5 h and 20 min integrated measurements of reactive gaseous mercury (RGM), and 24-h sampling of particulate mercury (HgP) at urban Femman and total gaseous mercury (TGM) at rural Rörvik were conducted during the measurement campaign GÖTE-2005 in Göteborg, Sweden. Results showed that average concentrations for GEM, RGM, HgP and TGM were 1.96 ± 0.38 ng m -3, 2.53 ± 4.09 pg m -3, 12.50 ± 5.88 pg m -3 and 1.63 ± 0.19 ng m -3, respectively. A reverse diurnal distribution pattern between GEM and RGM was observed, and early morning GEM concentration was elevated compared to daytime values which was likely due to activation of fossil fuel combustion, electric utilities, etc., by the formation of a nighttime inversion layer, less activity of GEM and reduced mixing. The subsequent decline and afternoon minimum were likely related to increase vertical mixing, photochemical reaction, and coupling with the coal combustion. However, the photochemical conversion from GEM during daytime and nocturnal behavior of "sticky" gases under higher relative humidity may result in strong diurnal cycles for RGM. Sampling site was heavily affected by anthropogenic sources from two distinguished wind sectors. One was ESE-SSW sector which was likely impacted by long distance transport from south highly industrialized region; the other was likely tied with local sources from N-NE sector.

Impacts of large-scale circulation on urban ambient concentrations of gaseous elemental mercury in New York, USA

NASA Astrophysics Data System (ADS)

Mao, Huiting; Hall, Dolly; Ye, Zhuyun; Zhou, Ying; Felton, Dirk; Zhang, Leiming

2017-09-01

The impact of large-scale circulation on urban gaseous elemental mercury (GEM) was investigated through analysis of 2008-2015 measurement data from an urban site in New York City (NYC), New York, USA. Distinct annual cycles were observed in 2009-2010 with mixing ratios in warm seasons (i.e., spring-summer) 10-20 ppqv ( ˜ 10-25 %) higher than in cool seasons (i.e., fall-winter). This annual cycle was disrupted in 2011 by an anomalously strong influence of the US East Coast trough in that warm season and was reproduced in 2014 associated with a particularly strong Bermuda High. The US East Coast trough axis index (TAI) and intensity index (TII) were used to characterize the effect of the US East Coast trough on NYC GEM, especially in winter and summer. The intensity and position of the Bermuda High appeared to have a significant impact on GEM in warm seasons. Regional influence on NYC GEM was supported by the GEM-carbon monoxide (CO) correlation with r of 0.17-0.69 (p ˜ 0) in most seasons. Simulated regional and local anthropogenic contributions to wintertime NYC anthropogenically induced GEM concentrations were averaged at ˜ 75 % and 25 %, with interannual variation ranging over 67 %-83 % and 17 %-33 %, respectively. Results from this study suggest the possibility that the increasingly strong Bermuda High over the past decades could dominate over anthropogenic mercury emission control in affecting ambient concentrations of mercury via regional buildup and possibly enhancing natural and legacy emissions.

Application of the GEM Inventory Data Capture Tools for Dynamic Vulnerability Assessment and Recovery Modelling

NASA Astrophysics Data System (ADS)

Verrucci, Enrica; Bevington, John; Vicini, Alessandro

2014-05-01

A set of open-source tools to create building exposure datasets for seismic risk assessment was developed from 2010-13 by the Inventory Data Capture Tools (IDCT) Risk Global Component of the Global Earthquake Model (GEM). The tools were designed to integrate data derived from remotely-sensed imagery, statistically-sampled in-situ field data of buildings to generate per-building and regional exposure data. A number of software tools were created to aid the development of these data, including mobile data capture tools for in-field structural assessment, and the Spatial Inventory Data Developer (SIDD) for creating "mapping schemes" - statistically-inferred distributions of building stock applied to areas of homogeneous urban land use. These tools were made publically available in January 2014. Exemplar implementations in Europe and Central Asia during the IDCT project highlighted several potential application areas beyond the original scope of the project. These are investigated here. We describe and demonstrate how the GEM-IDCT suite can be used extensively within the framework proposed by the EC-FP7 project SENSUM (Framework to integrate Space-based and in-situ sENSing for dynamic vUlnerability and recovery Monitoring). Specifically, applications in the areas of 1) dynamic vulnerability assessment (pre-event), and 2) recovery monitoring and evaluation (post-event) are discussed. Strategies for using the IDC Tools for these purposes are discussed. The results demonstrate the benefits of using advanced technology tools for data capture, especially in a systematic fashion using the taxonomic standards set by GEM. Originally designed for seismic risk assessment, it is clear the IDCT tools have relevance for multi-hazard risk assessment. When combined with a suitable sampling framework and applied to multi-temporal recovery monitoring, data generated from the tools can reveal spatio-temporal patterns in the quality of recovery activities and resilience trends can be inferred. Lastly, this work draws attention to the use of the IDCT suite as an education resource for inspiring and training new students and engineers in the field of disaster risk reduction.

Automatic tracking of dynamical evolutions of oceanic mesoscale eddies with satellite observation data

NASA Astrophysics Data System (ADS)

Sun, Liang; Li, Qiu-Yang

2017-04-01

The oceanic mesoscale eddies play a major role in ocean climate system. To analyse spatiotemporal dynamics of oceanic mesoscale eddies, the Genealogical Evolution Model (GEM) based on satellite data is developed, which is an efficient logical model used to track dynamic evolution of mesoscale eddies in the ocean. It can distinguish different dynamic processes (e.g., merging and splitting) within a dynamic evolution pattern, which is difficult to accomplish using other tracking methods. To this end, a mononuclear eddy detection method was firstly developed with simple segmentation strategies, e.g. watershed algorithm. The algorithm is very fast by searching the steepest descent path. Second, the GEM uses a two-dimensional similarity vector (i.e. a pair of ratios of overlap area between two eddies to the area of each eddy) rather than a scalar to measure the similarity between eddies, which effectively solves the ''missing eddy" problem (temporarily lost eddy in tracking). Third, for tracking when an eddy splits, GEM uses both "parent" (the original eddy) and "child" (eddy split from parent) and the dynamic processes are described as birth and death of different generations. Additionally, a new look-ahead approach with selection rules effectively simplifies computation and recording. All of the computational steps are linear and do not include iteration. Given the pixel number of the target region L, the maximum number of eddies M, the number N of look-ahead time steps, and the total number of time steps T, the total computer time is O (LM(N+1)T). The tracking of each eddy is very smooth because we require that the snapshots of each eddy on adjacent days overlap one another. Although eddy splitting or merging is ubiquitous in the ocean, they have different geographic distribution in the Northern Pacific Ocean. Both the merging and splitting rates of the eddies are high, especially at the western boundary, in currents and in "eddy deserts". GEM is useful not only for satellite-based observational data but also for numerical simulation outputs. It is potentially useful for studying dynamic processes in other related fields, e.g., the dynamics of cyclones in meteorology.

New Gem-Dicyanocyclobutane-Containing Hydroxyesters

DTIC Science & Technology

1989-04-01

polar saponification conditions, the cyclobutanes underwent ring opening to unidentified products. When in one case we obtained a carboxylic acid, it...polar saponification conditions also favored ionization of the cyclobutane back to the tetramethylenes. We conclude that the proposed route to gem

How incense and joss paper burning during the worship activities influences ambient mercury concentrations in indoor and outdoor environments of an Asian temple?

PubMed

Shen, Huazhen; Tsai, Cheng-Mou; Yuan, Chung-Shin; Jen, Yi-Hsiu; Ie, Iau-Ren

2017-01-01

This study firstly investigated the species, concentration variation, and emission factors of mercury emitted from the burning of incenses and joss papers in an Asian temple. Both indoor and outdoor speciated mercury (GEM, GOM, and PHg) were sampled by manual samplers, while ambient GEM at an indoor site was in-situ monitored by a continuous GEM monitor. Field measurement results showed that the total atmospheric mercury (TAM) concentrations in indoor and outdoor environments were in the range of 8.03-35.72 and 6.03-31.35 ng/m 3 , respectively. The indoor and outdoor ratios (I/O) of TAM in the daytime and at nighttime were in the range of 0.64-0.90 and 1.50-2.04, respectively. The concentrations of GEM, GOM, and PHg during the holiday periods were approximately 1-4 times higher than those during the non-holiday periods. GEM was the dominant mercury species in the indoor and outdoor environments and accounted for 63-81% of TAM, while the oxidized mercury accounted for 19-37% of TAM. Burning incenses and joss papers in a combustion chamber showed that the concentration of GEM from joss paper burning ranged from 4.07 to 11.62 μg/m 3 , or about 13.97 times higher than that of incense burning, while the concentration of PHg from incense burning ranged from 95.91 to 135.07 ng/m 3 , or about 3.29 times higher than that of joss paper burning. The emission factors of incense burning were 10.39 ng/g of GEM and 1.40 ng/g of PHg, while those of joss paper burning were 12.65 ng/g of GEM and 1.27 ng/g of PHg, respectively. This study revealed that speciated mercury emitted from worship activities had significant influence on the indoor and outdoor mercury concentrations in an Asian temple. Higher intensity of worship activities during holidays resulted in a higher concentration of speciated mercury in indoor and outdoor air, which might cause health threats to worshipers, staffs, and surrounding inhabitants through long-term exposure. Copyright © 2016 Elsevier Ltd. All rights reserved.

Theranostic reduction-sensitive gemcitabine prodrug micelles for near-infrared imaging and pancreatic cancer therapy

NASA Astrophysics Data System (ADS)

Han, Haijie; Wang, Haibo; Chen, Yangjun; Li, Zuhong; Wang, Yin; Jin, Qiao; Ji, Jian

2015-12-01

A biodegradable and reduction-cleavable gemcitabine (GEM) polymeric prodrug with in vivo near-infrared (NIR) imaging ability was reported. This theranostic GEM prodrug PEG-b-[PLA-co-PMAC-graft-(IR820-co-GEM)] was synthesized by ring-opening polymerization and ``click'' reaction. The as-prepared reduction-sensitive prodrug could self-assemble into prodrug micelles in aqueous solution confirmed by dynamic light scattering (DLS) and transmission electron microscopy (TEM). In vitro drug release studies showed that these prodrug micelles were able to release GEM in an intracellular-mimicking reductive environment. These prodrug micelles could be effectively internalized by BxPC-3 pancreatic cancer cells, which were observed by confocal laser scanning microscopy (CLSM). Meanwhile, a methyl thiazolyl tetrazolium (MTT) assay demonstrated that this prodrug exhibited high cytotoxicity against BxPC-3 cells. The in vivo whole-animal near-infrared (NIR) imaging results showed that these prodrug micelles could be effectively accumulated in tumor tissue and had a longer blood circulation time than IR820-COOH. The endogenous reduction-sensitive gemcitabine prodrug micelles with the in vivo NIR imaging ability might have great potential in image-guided pancreatic cancer therapy.A biodegradable and reduction-cleavable gemcitabine (GEM) polymeric prodrug with in vivo near-infrared (NIR) imaging ability was reported. This theranostic GEM prodrug PEG-b-[PLA-co-PMAC-graft-(IR820-co-GEM)] was synthesized by ring-opening polymerization and ``click'' reaction. The as-prepared reduction-sensitive prodrug could self-assemble into prodrug micelles in aqueous solution confirmed by dynamic light scattering (DLS) and transmission electron microscopy (TEM). In vitro drug release studies showed that these prodrug micelles were able to release GEM in an intracellular-mimicking reductive environment. These prodrug micelles could be effectively internalized by BxPC-3 pancreatic cancer cells, which were observed by confocal laser scanning microscopy (CLSM). Meanwhile, a methyl thiazolyl tetrazolium (MTT) assay demonstrated that this prodrug exhibited high cytotoxicity against BxPC-3 cells. The in vivo whole-animal near-infrared (NIR) imaging results showed that these prodrug micelles could be effectively accumulated in tumor tissue and had a longer blood circulation time than IR820-COOH. The endogenous reduction-sensitive gemcitabine prodrug micelles with the in vivo NIR imaging ability might have great potential in image-guided pancreatic cancer therapy. Electronic supplementary information (ESI) available. See DOI: 10.1039/c5nr06734k

Information Technology Implementation and Sustainment Model: Data Collection Instrument

DTIC Science & Technology

2005-03-01

users (Wing and Bettinger , 2003). A GIS is a computerized system for spatial (geographically-referenced) data management (Davis and Schultz, 1990:3...AFIT/GEM/ENV/05M-15 Abstract The goal of this research was to develop a data collection instrument for an existing information technology...implementation and sustsinment model. In 2003, a unique system dynamics model was developed at the Air Force Institute of Technology to predict the

CHOP versus GEM-P in previously untreated patients with peripheral T-cell lymphoma (CHEMO-T): a phase 2, multicentre, randomised, open-label trial.

PubMed

Gleeson, Mary; Peckitt, Clare; To, Ye Mong; Edwards, Laurice; Oates, Jacqueline; Wotherspoon, Andrew; Attygalle, Ayoma D; Zerizer, Imene; Sharma, Bhupinder; Chua, Sue; Begum, Ruwaida; Chau, Ian; Johnson, Peter; Ardeshna, Kirit M; Hawkes, Eliza A; Macheta, Marian P; Collins, Graham P; Radford, John; Forbes, Adam; Hart, Alistair; Montoto, Silvia; McKay, Pamela; Benstead, Kim; Morley, Nicholas; Kalakonda, Nagesh; Hasan, Yasmin; Turner, Deborah; Cunningham, David

2018-05-01

Outcomes with CHOP (cyclophosphamide, doxorubicin, vincristine, and prednisolone) or CHOP-like chemotherapy in peripheral T-cell lymphoma are poor. We investigated whether the regimen of gemcitabine, cisplatin, and methylprednisolone (GEM-P) was superior to CHOP as front-line therapy in previously untreated patients. We did a phase 2, parallel-group, multicentre, open-label randomised trial in 47 hospitals: 46 in the UK and one in Australia. Participants were patients aged 18 years and older with bulky (tumour mass diameter >10 cm) stage I to stage IV disease (WHO performance status 0-3), previously untreated peripheral T-cell lymphoma not otherwise specified, angioimmunoblastic T-cell lymphoma, anaplastic lymphoma kinase-negative anaplastic large cell lymphoma, enteropathy-associated T-cell lymphoma, or hepatosplenic γδ T-cell lymphoma. We randomly assigned patients (1:1) stratified by subtype of peripheral T-cell lymphoma and international prognostic index to either CHOP (intravenous cyclophosphamide 750 mg/m 2 , doxorubicin 50 mg/m 2 , and vincristine 1·4 mg/m 2 [maximum 2 mg] on day 1, and oral prednisolone 100 mg on days 1-5) every 21 days for six cycles; or GEM-P (intravenous gemcitabine 1000 mg/m 2 on days 1, 8, and 15, cisplatin 100 mg/m 2 on day 15, and oral or intravenous methylprednisolone 1000 mg on days 1-5) every 28 days for four cycles. The primary endpoint was the proportion of patients with a CT-based complete response or unconfirmed complete response on completion of study chemotherapy, to detect a 20% superiority of GEM-P compared with CHOP, assessed in all patients who received at least one cycle of treatment and had an end-of-treatment CT scan or reported clinical progression as the reason for stopping trial treatment. Safety was assessed in all patients who received at least one dose of study medication. This trial is registered with ClinicalTrials.gov (NCT01719835) and the European Clinical Trials Database (EudraCT 2011-004146-18). Between June 18, 2012, and Nov 16, 2016, we randomly assigned 87 patients to treatment, 43 to CHOP and 44 to GEM-P. A planned unmasked review of efficacy data by the independent data monitoring committee in November, 2016, showed that the number of patients with a confirmed or unconfirmed complete response with GEM-P was non-significantly inferior compared with CHOP and the trial was closed early. At a median follow-up of 27·4 months (IQR 16·6-38·4), 23 patients (62%) of 37 assessable patients assigned to CHOP had achieved a complete response or unconfirmed complete response compared with 17 (46%) of 37 assigned to GEM-P (odds ratio 0·52, 95% CI 0·21-1·31; p=0·164). The most common adverse events of grade 3 or worse in both groups were neutropenia (17 [40%] with CHOP and nine [20%] with GEM-P), thrombocytopenia (4 [10%] with CHOP and 13 [30%] with GEM-P, and febrile neutropenia (12 [29%] with CHOP and 3 [7%] with GEM-P). Two patients (5%) died during the study, both in the GEM-P group, from lung infections. The number of patients with a complete response or unconfirmed complete response did not differ between the groups, indicating that GEM-P was not superior for this outcome. CHOP should therefore remain the reference regimen for previously untreated peripheral T-cell lymphoma. Bloodwise and the UK National Institute of Health Research. Copyright © 2018 The Author(s). Published by Elsevier Ltd. This is an Open Access article under the CC BY 4.0 license. Published by Elsevier Ltd.. All rights reserved.

Geospace environment modeling 2008--2009 challenge: Dst index

USGS Publications Warehouse

Rastätter, L.; Kuznetsova, M.M.; Glocer, A.; Welling, D.; Meng, X.; Raeder, J.; Wittberger, M.; Jordanova, V.K.; Yu, Y.; Zaharia, S.; Weigel, R.S.; Sazykin, S.; Boynton, R.; Wei, H.; Eccles, V.; Horton, W.; Mays, M.L.; Gannon, J.

2013-01-01

This paper reports the metrics-based results of the Dst index part of the 2008–2009 GEM Metrics Challenge. The 2008–2009 GEM Metrics Challenge asked modelers to submit results for four geomagnetic storm events and five different types of observations that can be modeled by statistical, climatological or physics-based models of the magnetosphere-ionosphere system. We present the results of 30 model settings that were run at the Community Coordinated Modeling Center and at the institutions of various modelers for these events. To measure the performance of each of the models against the observations, we use comparisons of 1 hour averaged model data with the Dst index issued by the World Data Center for Geomagnetism, Kyoto, Japan, and direct comparison of 1 minute model data with the 1 minute Dst index calculated by the United States Geological Survey. The latter index can be used to calculate spectral variability of model outputs in comparison to the index. We find that model rankings vary widely by skill score used. None of the models consistently perform best for all events. We find that empirical models perform well in general. Magnetohydrodynamics-based models of the global magnetosphere with inner magnetosphere physics (ring current model) included and stand-alone ring current models with properly defined boundary conditions perform well and are able to match or surpass results from empirical models. Unlike in similar studies, the statistical models used in this study found their challenge in the weakest events rather than the strongest events.

Further evaluation of wetland emission estimates from the JULES land surface model using SCIAMACHY and GOSAT atmospheric column methane measurements

NASA Astrophysics Data System (ADS)

Hayman, Garry; Comyn-Platt, Edward; McNorton, Joey; Chipperfield, Martyn; Gedney, Nicola

2016-04-01

The atmospheric concentration of methane began rising again in 2007 after a period of near-zero growth [1,2], with the largest increases observed over polar northern latitudes and the Southern Hemisphere in 2007 and in the tropics since then. The observed inter-annual variability in atmospheric methane concentrations and the associated changes in growth rates have variously been attributed to changes in different methane sources and sinks [2,3]. Wetlands are generally accepted as being the largest, but least well quantified, single natural source of CH4, with global emission estimates ranging from 142-284 Tg yr-1 [3]. The modelling of wetlands and their associated emissions of CH4 has become the subject of much current interest [4]. We have previously used the HadGEM2 chemistry-climate model to evaluate the wetland emission estimates derived using the UK community land surface model (JULES, the Joint UK Land Earth Simulator) against atmospheric observations of methane, including SCIAMACHY total methane columns [5] up to 2007. We have undertaken a series of new HadGEM2 runs using new JULES emission estimates extended in time to the end of 2012, thereby allowing comparison with both SCIAMACHY and GOSAT atmospheric column methane measurements. We will describe the results of these runs and the implications for methane wetland emissions. References [1] Rigby, M., et al.: Renewed growth of atmospheric methane. Geophys. Res. Lett., 35, L22805, 2008; [2] Nisbet, E.G., et al.: Methane on the Rise-Again, Science 343, 493, 2014; [3] Kirschke, S., et al.,: Three decades of global methane sources and sinks, Nature Geosciences, 6, 813-823, 2013; [4] Melton, J. R., et al.: Present state of global wetland extent and wetland methane modelling: conclusions from a model inter-comparison project (WETCHIMP), Biogeosciences, 10, 753-788, 2013; [5] Hayman, G.D., et al.: Comparison of the HadGEM2 climate-chemistry model against in situ and SCIAMACHY atmospheric methane data, Atmos. Chem. Phys., 14, 13257-13280, 2014.

Modelling carbon responses of tundra ecosystems to historical and projected climate: A comparison of a plot- and a global-scale ecosystem model to identify process-based uncertainties

USGS Publications Warehouse

Clein, Joy S.; Kwiatkowski, B.L.; McGuire, A.D.; Hobbie, J.E.; Rastetter, E.B.; Melillo, J.M.; Kicklighter, D.W.

2000-01-01

We are developing a process-based modelling approach to investigate how carbon (C) storage of tundra across the entire Arctic will respond to projected climate change. To implement the approach, the processes that are least understood, and thus have the most uncertainty, need to be identified and studied. In this paper, we identified a key uncertainty by comparing the responses of C storage in tussock tundra at one site between the simulations of two models - one a global-scale ecosystem model (Terrestrial Ecosystem Model, TEM) and one a plot-scale ecosystem model (General Ecosystem Model, GEM). The simulations spanned the historical period (1921-94) and the projected period (1995-2100). In the historical period, the model simulations of net primary production (NPP) differed in their sensitivity to variability in climate. However, the long-term changes in C storage were similar in both simulations, because the dynamics of heterotrophic respiration (RH) were similar in both models. In contrast, the responses of C storage in the two model simulations diverged during the projected period. In the GEM simulation for this period, increases in RH tracked increases in NPP, whereas in the TEM simulation increases in RH lagged increases in NPP. We were able to make the long-term C dynamics of the two simulations agree by parameterizing TEM to the fast soil C pools of GEM. We concluded that the differences between the long-term C dynamics of the two simulations lay in modelling the role of the recalcitrant soil C. These differences, which reflect an incomplete understanding of soil processes, lead to quite different projections of the response of pan-Arctic C storage to global change. For example, the reference parameterization of TEM resulted in an estimate of cumulative C storage of 2032 g C m-2 for moist tundra north of 50??N, which was substantially higher than the 463 g C m-2 estimated for a parameterization of fast soil C dynamics. This uncertainty in the depiction of the role of recalcitrant soil C in long-term ecosystem C dynamics resulted from our incomplete understanding of controls over C and N transformations in Arctic soils. Mechanistic studies of these issues are needed to improve our ability to model the response of Arctic ecosystems to global change.

Fast ADC based multichannel acquisition system for the GEM detector

NASA Astrophysics Data System (ADS)

Kasprowicz, G.; Czarski, T.; Chernyshova, M.; Dominik, W.; Jakubowska, K.; Karpinski, L.; Kierzkowski, K.; Pozniak, K.; Rzadkiewicz, J.; Scholz, M.; Zabolotny, W.

2012-05-01

A novel approach to the Gas Electron Multiplier1 (GEM) detector readout is presented. Unlike commonly used methods, based on discriminators, and analogue FIFOs,[ the method developed uses simultaneously sampling high speed ADCs and advanced FPGA-based processing logic to estimate the energy of every single photon. Such method is applied to every GEM strip signal. It is especially useful in case of crystal-based spectrometers for soft X-rays, where higher order reflections need to be identified and rejected. For the purpose of the detector readout, a novel conception of the measurement platform was developed.

GEM detectors for WEST and potential application for heavy impurity transport studies

NASA Astrophysics Data System (ADS)

Mazon, D.; Jardin, A.; Coston, C.; Faisse, F.; Chernyshova, M.; Czarski, T.; Kasprowicz, G.; Wojenski, A.

2016-08-01

In tokamaks equipped with metallic walls and in particular tungsten, the interplay between particle transport and MagnetoHydroDynamic (MHD) activity might lead to impurities accumulation and finally to sudden plasma termination called disruption. Studying such transport phenomena is thus essential if stationary discharges are to be achieved. On WEST a new SXR diagnostic is developed in collaboration with IPPLM (Poland) and the Warsaw University of Technology, based on a triple Gas Electron Multiplier (GEM) detector. Potential application of the WEST GEM detectors for tomographic reconstruction and subsequent transport analysis is presented.

NGS2: a focal plane array upgrade for the GeMS multiple tip-tilt wavefront sensor

NASA Astrophysics Data System (ADS)

Rigaut, François; Price, Ian; d'Orgeville, Céline; Bennet, Francis; Herrald, Nick; Paulin, Nicolas; Uhlendorf, Kristina; Garrel, Vincent; Sivo, Gaetano; Montes, Vanessa; Trujillo, Chad

2016-07-01

NGS2 is an upgrade for the multi-natural guide star tip-tilt & plate scale wavefront sensor for GeMS (Gemini Multi-Conjugate Adaptive Optics system). It uses a single Nüvü HNü-512 Electron-Multiplied CCD array that spans the entire GeMS wavefront sensor focal plane. Multiple small regions-of-interest are used to enable frame rates up to 800Hz. This set up will improve the optical throughput with respect to the current wavefront sensor, as well as streamline acquisition and allow for distortion compensation.

PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites.

PubMed

Schwach, Frank; Bushell, Ellen; Gomes, Ana Rita; Anar, Burcu; Girling, Gareth; Herd, Colin; Rayner, Julian C; Billker, Oliver

2015-01-01

The Plasmodium Genetic Modification (PlasmoGEM) database (http://plasmogem.sanger.ac.uk) provides access to a resource of modular, versatile and adaptable vectors for genome modification of Plasmodium spp. parasites. PlasmoGEM currently consists of >2000 plasmids designed to modify the genome of Plasmodium berghei, a malaria parasite of rodents, which can be requested by non-profit research organisations free of charge. PlasmoGEM vectors are designed with long homology arms for efficient genome integration and carry gene specific barcodes to identify individual mutants. They can be used for a wide array of applications, including protein localisation, gene interaction studies and high-throughput genetic screens. The vector production pipeline is supported by a custom software suite that automates both the vector design process and quality control by full-length sequencing of the finished vectors. The PlasmoGEM web interface allows users to search a database of finished knock-out and gene tagging vectors, view details of their designs, download vector sequence in different formats and view available quality control data as well as suggested genotyping strategies. We also make gDNA library clones and intermediate vectors available for researchers to produce vectors for themselves. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

Glycemic load, exercise, and monitoring blood glucose (GEM): A paradigm shift in the treatment of type 2 diabetes mellitus.

PubMed

Cox, Daniel J; Taylor, Ann G; Singh, Harsimran; Moncrief, Matthew; Diamond, Anne; Yancy, William S; Hegde, Shefali; McCall, Anthony L

2016-01-01

This preliminary RCT investigated whether an integrated lifestyle modification program that focuses on reducing postprandial blood glucose through replacing high with low glycemic load foods and increasing routine physical activities guided by systematic self-monitoring of blood glucose (GEM) could improve metabolic control of adults with type 2 diabetes mellitus, without compromising other physiological parameters. Forty-seven adults (mean age 55.3 years) who were diagnosed with type 2 diabetes mellitus for less than 5 years (mean 2.1 years), had HbA1c ≥ 7% (mean 8.4%) and were not taking blood glucose lowering medications, were randomized to routine care or five 1-h instructional sessions of GEM. Assessments at baseline and 6 months included a physical exam, metabolic and lipid panels, and psychological questionnaires. The GEM intervention led to significant improvements in HbA1c (decreasing from 8.4 to 7.4% [69-57 mmol/mol] compared with 8.3 to 8.3% [68-68 mmol/mol] for routine care; Interaction p<.01) and psychological functioning without compromising other physiological parameters. Consistent with a patient-centered approach, GEM appears to be an effective lifestyle modification option for adults recently diagnosed with type 2 diabetes mellitus. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Label-free Raman spectroscopy for accessing intracellular anticancer drug release on gold nanoparticles.

PubMed

Ock, Kwang-Su; Ganbold, Erdene Ochir; Park, Jin; Cho, Keunchang; Joo, Sang-Woo; Lee, So Yeong

2012-06-21

We investigated glutathione (GSH)-induced purine or pyrimidine anticancer drug release on gold nanoparticle (AuNP) surfaces by means of label-free Raman spectroscopy. GSH-triggered releases of 6-thioguanine (6TG), gemcitabine (GEM), acycloguanosine (ACY), and fadrozole (FAD) were examined in a comparative way by means of surface-enhanced Raman scattering (SERS). The GSH-induced dissociation constant of GEM (or ACY/FAD) from AuNPs was estimated to be larger by more than 38 times than that of 6TG from the kinetic relationship. Tripeptide control experiments were presented to check the turn-off Raman signalling mechanism. Dark-field microscopy (DFM) and transmission electron microscopy (TEM) indicated the intracellular AuNP loads. After their cellular uptake, GEM, ACY, and FAD would not show SERS intensities as strong as 6TG. This may be due to easier release of GEM, ACY, and FAD than 6TG by intracellular reducing species including GSH. We observed fairly strong SERS signals of GEM and 6TG in cell culture media solution. Our CCK-8 cytotoxicity assay data support that 6TG-AuNPs did not exhibit a substantial decrease in cell viability presumably due to strong binding. Label-free confocal Raman spectroscopy can be utilized as an effective tool to access intracellular anticancer drug release.

Evaluation of gemfibrozil effects on a marine fish (Sparus aurata) combining gene expression with conventional endocrine and biochemical endpoints.

PubMed

Teles, M; Fierro-Castro, C; Na-Phatthalung, P; Tvarijonaviciute, A; Soares, A M V M; Tort, L; Oliveira, M

2016-11-15

The information on the potential hazardous effects of gemfibrozil (GEM) on marine fish is extremely scarce. In the current study, molecular, endocrine and biochemical parameters were assessed in Sparus aurata after 96h waterborne exposure to a GEM concentration range. Hepatic mRNA levels of target genes known to be regulated via peroxisome proliferator-activated receptor α (pparα) in mammals, such as apolipoprotein AI (apoa1) and lipoprotein (lpl) were significantly increased, without a concomitant activation of the ppar pathways. GEM (15μgL(-1)) induced an upregulation in mRNA levels of interleukin 1β (il1β), tumour necrosis factor-α (tnfα) and caspase 3 (casp3), suggesting an activation of proinflammatory processes in S. aurata liver. However, mRNA levels of genes related with the antioxidant defence system and cell-tissue repair were unaltered under the tested experimental conditions. Higher levels of GEM induced a cortisol rise, an indication that it is recognized as a stressor by S. aurata. Cortisol levels and the mRNA levels of il1β, tnfα and casp3 may be suggested as potential biomarkers of GEM effects in marine fish. Copyright © 2016 Elsevier B.V. All rights reserved.

High-Dimensional Modeling for Cytometry: Building Rock Solid Models Using GemStone™ and Verity Cen-se'™ High-Definition t-SNE Mapping.

PubMed

Bruce Bagwell, C

2018-01-01

This chapter outlines how to approach the complex tasks associated with designing models for high-dimensional cytometry data. Unlike gating approaches, modeling lends itself to automation and accounts for measurement overlap among cellular populations. Designing these models is now easier because of a new technique called high-definition t-SNE mapping. Nontrivial examples are provided that serve as a guide to create models that are consistent with data.

PHYSICAL AND CHEMICAL CONTROL OF RELEASED MICROORGANISMS AT FIELD SITES

EPA Science Inventory

An important consideration in the environmental release of a genetically engineered microorganism (GEM) is the capability for reduction or elimination of GEM populations once their function is completed or if adverse environmental effects are observed. In this study the decontami...

Projections of Rainfall and Temperature from CMIP5 Models over BIMSTEC Countries

NASA Astrophysics Data System (ADS)

Pattnayak, K. C.; Kar, S. C.; Ragi, A. R.

2014-12-01

Rainfall and surface temperature are the most important climatic variables in the context of climate change. Thus, these variables simulated from fifth phase of the Climate Model Inter-comparison Project (CMIP5) models have been compared against Climatic Research Unit (CRU) observed data and projected for the twenty first century under the Representative Concentration Pathways (RCPs) 4.5 and 8.5 emission scenarios. Results for the seven countries under Bay of Bengal Initiative for Multi-Sectoral Technical and Economic Cooperation (BIMSTEC) such as Bangladesh, Bhutan, India, Myanmar, Nepal, Sri Lanka and Thailand have been examined. Six CMIP5 models namely GFDL-CM3, GFDL-ESM2M, GFDL-ESM2G, HadGEM2-AO, HadGEM2-CC and HadGEM2-ES have been chosen for this study. The study period has been considered is from 1861 to 2100. From this period, initial 145 years i.e. 1861 to 2005 is reference or historical period and the later 95 years i.e. 2005 to 2100 is projected period. The climate change in the projected period has been examined with respect to the reference period. In order to validate the models, the mean annual rainfall and temperature has been compared with CRU over the reference period 1901 to 2005. Comparison reveals that most of the models are able to capture the spatial distribution of rainfall and temperature over most of the regions of BIMSTEC countries. Therefore these model data can be used to study the future changes in the 21st Century. Four out six models shows that the rainfall over Central and North India, Thailand and eastern part of Myanmar shows decreasing trend and Bangladesh, Bhutan, Nepal and Sri Lanka shows an increasing trend in both RCP 4.5 and 8.5 scenarios. In case of temperature, all of the models show an increasing trend over all the BIMSTEC countries in both scenarios, however, the rate of increase is relatively less over Sri Lanka than the other countries. Annual cycles of rainfall and temperature over Bangladesh, Myanmar and Thailand reveals that the magnitudes are more in 2070 to 2100 of RCP8.5. Inter-model comparison show that there are large more uncertainties within the CMIP5 model projections.

Projections of Rainfall and Surface Temperature from CMIP5 Models under RCP4.5 and 8.5 over BIMSTEC Countries

NASA Astrophysics Data System (ADS)

Charan Pattnayak, Kanhu; Kar, Sarat Chandra; Kumari Pattnayak, Rashmita

2015-04-01

Rainfall and surface temperature are the most important climatic variables in the context of climate change. Thus, these variables simulated from fifth phase of the Climate Model Inter-comparison Project (CMIP5) models have been compared against Climatic Research Unit (CRU) observed data and projected for the twenty first century under the Representative Concentration Pathways (RCPs) 4.5 and 8.5 emission scenarios. Results for the seven countries under Bay of Bengal Initiative for Multi-Sectoral Technical and Economic Cooperation (BIMSTEC) such as Bangladesh, Bhutan, India, Myanmar, Nepal, Sri Lanka and Thailand have been examined. Six CMIP5 models namely GFDL-CM3, GFDL-ESM2M, GFDL-ESM2G, HadGEM2-AO, HadGEM2-CC and HadGEM2-ES have been chosen for this study. The study period has been considered is from 1861 to 2100. From this period, initial 145 years i.e. 1861 to 2005 is reference or historical period and the later 95 years i.e. 2005 to 2100 is projected period. The climate change in the projected period has been examined with respect to the reference period. In order to validate the models, the mean annual rainfall and temperature has been compared with CRU over the reference period 1901 to 2005. Comparison reveals that most of the models are able to capture the spatial distribution of rainfall and temperature over most of the regions of BIMSTEC countries. Therefore these model data can be used to study the future changes in the 21st Century. Four out six models shows that the rainfall over Central and North India, Thailand and eastern part of Myanmar shows decreasing trend and Bangladesh, Bhutan, Nepal and Sri Lanka shows an increasing trend in both RCP 4.5 and 8.5 scenarios. In case of temperature, all of the models show an increasing trend over all the BIMSTEC countries in both scenarios, however, the rate of increase is relatively less over Sri Lanka than the other countries. Annual cycles of rainfall and temperature over Bangladesh, Myanmar and Thailand reveals that the magnitudes are more in 2070 to 2100 of RCP8.5. Inter-model comparison show that there are large more uncertainties within the CMIP5 model projections.

CtGEM typing: Discrimination of Chlamydia trachomatis ocular and urogenital strains and major evolutionary lineages by high resolution melting analysis of two amplified DNA fragments.

PubMed

Giffard, Philip M; Andersson, Patiyan; Wilson, Judith; Buckley, Cameron; Lilliebridge, Rachael; Harris, Tegan M; Kleinecke, Mariana; O'Grady, Kerry-Ann F; Huston, Wilhelmina M; Lambert, Stephen B; Whiley, David M; Holt, Deborah C

2018-01-01

Chlamydia trachomatis infects the urogenital tract (UGT) and eyes. Anatomical tropism is correlated with variation in the major outer membrane protein encoded by ompA. Strains possessing the ocular ompA variants A, B, Ba and C are typically found within the phylogenetically coherent "classical ocular lineage". However, variants B, Ba and C have also been found within three distinct strains in Australia, all associated with ocular disease in children and outside the classical ocular lineage. CtGEM genotyping is a method for detecting and discriminating ocular strains and also the major phylogenetic lineages. The rationale was facilitation of surveillance to inform responses to C. trachomatis detection in UGT specimens from young children. CtGEM typing is based on high resolution melting analysis (HRMA) of two PCR amplified fragments with high combinatorial resolving power, as defined by computerised comparison of 65 whole genomes. One fragment is from the hypothetical gene defined by Jali-1891 in the C. trachomatis B_Jali20 genome, while the other is from ompA. Twenty combinatorial CtGEM types have been shown to exist, and these encompass unique genotypes for all known ocular strains, and also delineate the TI and T2 major phylogenetic lineages, identify LGV strains and provide additional resolution beyond this. CtGEM typing and Sanger sequencing were compared with 42 C. trachomatis positive clinical specimens, and there were no disjunctions. CtGEM typing is a highly efficient method designed and tested using large scale comparative genomics. It divides C. trachomatis into clinically and biologically meaningful groups, and may have broad application in surveillance.

Multiple generations of grain aggregation in different environments preceded solar system body formation.

PubMed

Ishii, Hope A; Bradley, John P; Bechtel, Hans A; Brownlee, Donald E; Bustillo, Karen C; Ciston, James; Cuzzi, Jeffrey N; Floss, Christine; Joswiak, David J

2018-06-26

The solar system formed from interstellar dust and gas in a molecular cloud. Astronomical observations show that typical interstellar dust consists of amorphous ( a -) silicate and organic carbon. Bona fide physical samples for laboratory studies would yield unprecedented insight about solar system formation, but they were largely destroyed. The most likely repositories of surviving presolar dust are the least altered extraterrestrial materials, interplanetary dust particles (IDPs) with probable cometary origins. Cometary IDPs contain abundant submicron a- silicate grains called GEMS (glass with embedded metal and sulfides), believed to be carbon-free. Some have detectable isotopically anomalous a- silicate components from other stars, proving they are preserved dust inherited from the interstellar medium. However, it is debated whether the majority of GEMS predate the solar system or formed in the solar nebula by condensation of high-temperature (>1,300 K) gas. Here, we map IDP compositions with single nanometer-scale resolution and find that GEMS contain organic carbon. Mapping reveals two generations of grain aggregation, the key process in growth from dust grains to planetesimals, mediated by carbon. GEMS grains, some with a- silicate subgrains mantled by organic carbon, comprise the earliest generation of aggregates. These aggregates (and other grains) are encapsulated in lower-density organic carbon matrix, indicating a second generation of aggregation. Since this organic carbon thermally decomposes above ∼450 K, GEMS cannot have accreted in the hot solar nebula, and formed, instead, in the cold presolar molecular cloud and/or outer protoplanetary disk. We suggest that GEMS are consistent with surviving interstellar dust, condensed in situ, and cycled through multiple molecular clouds. Copyright © 2018 the Author(s). Published by PNAS.

Formation of Glass with Embedded Metal and Sulfides from Shock-accelerated Crystalline Dust in Superbubbles

NASA Astrophysics Data System (ADS)

Westphal, A. J.; Bradley, J. P.

2004-12-01

Interplanetary dust particles (IDPs) contain enigmatic submicron components called GEMS (glass with embedded metal and sulfides). The compositions and structures of GEMS indicate that they have been processed by exposure to ionizing radiation, but details of the actual irradiation environment(s) have remained elusive. Here we propose a mechanism and astrophysical site for GEMS formation that explains for the first time the following key properties of GEMS: they are stoichiometrically enriched in oxygen and systematically depleted in S, Mg, Ca, and Fe (relative to solar abundances); most have normal (solar) oxygen isotopic compositions; they exhibit a strikingly narrow size distribution (0.1-0.5 μm diameter); and some of them contain ``relict'' crystals within their silicate glass matrices. We show that the compositions, size distribution, and survival of relict crystals are inconsistent with amorphization by particles accelerated by diffusive shock acceleration. Instead, we propose that GEMS are formed from crystalline grains that condense in stellar outflows from massive stars in OB associations, are accelerated in encounters with frequent supernova shocks inside the associated superbubble (SB), and are implanted with atoms from the hot gas in the SB interior. We thus reverse the usual roles of target and projectile. Rather than being bombarded at rest by energetic ions, grains are accelerated and bombarded by a nearly monovelocity beam of atoms as viewed in their rest frame. Meyer, Drury, and Ellison have proposed that Galactic cosmic rays (GCRs) originate from ions sputtered from such accelerated dust grains. We suggest that GEMS are surviving members of a population of fast grains that constitute the long-sought source material for GCRs. Thus, representatives of the GCR source material may have been awaiting discovery in cosmic dust labs for the last 30 yr.

Seasonal variations of ambient air mercury species nearby an airport

NASA Astrophysics Data System (ADS)

Fang, Guor-Cheng; Tsai, Kai-Hsiang; Huang, Chao-Yang; Yang, Kuang-Pu Ou; Xiao, You-Fu; Huang, Wen-Chuan; Zhuang, Yuan-Jie

2018-04-01

This study focuses on the collection of ambient air mercury species (total gaseous mercury (TGM), reactive gaseous mercury (RGM), gaseous element mercury (GEM) and particulate bound mercury (PBM) pollutants at airport nearby sampling site during the year of Apr. 2016 to Mar. 2017 by using Four-stage gold amalgamation and denuder. The results indicated that the average TGM, RGM and GEM concentrations were 5.04 ± 2.43 ng/m3, 29.58 ± 80.54 pg/m3, 4.70 ± 2.63 ng/m3, respectively during the year of Apr. 2016 to Mar. 2017 (n = 49) period at this airport sampling site nearby. In addition, the results also indicated that the average PBM concentrations in TSP and PM2.5 were 0.35 ± 0.08 ng/m3 and 0.09 ± 0.03 ng/m3, respectively. And the average PBM in TSP concentrations order follows as summer > autumn > spring > winter, while the average PBM in PM2.5 concentrations order follows as spring > summer > winter > autumn. Moreover, the average TGM, RGM and GEM concentrations order follow as spring > summer > autumn > winter. Finally, the Asian continent has the highest average mercury species concentrations (TGM, RGM, GEM and PBM) when compared with the American and European continents, and the average mercury species concentrations (TGM, RGM, GEM and PBM) displayed declined trends for North America (United States and Canada) and Europe (Spain, Sweden and Southern Baltic) during the years of 2004-2014. Also noteworthy is that the average mercury species concentrations (TGM, RGM, GEM) displayed increasing trends in China and Taiwan during the years of 2008-2016. Japan and Korea are the only two exceptions. Those above two countries mercury species concentrations displayed decreasing trends during years of 2008-2015.

Factors Controlling the Distribution of Atmospheric Mercury in the East Asian Free Troposphere

NASA Astrophysics Data System (ADS)

Sheu, G.; Lee, C.; Lin, N.; Wang, J.; Ouyang, C.

2008-12-01

Taiwan is located to the downwind side of both East and Southeast Asia, which are the major anthropogenic mercury (Hg) source region worldwide. Also, it has been suggested that mountain-top monitoring sites, which are frequently in the free troposphere, are essential to the understanding of the global Hg transport. Accordingly, continuous measurements of atmospheric Hg have been conducting at Lulin Atmospheric Background Station (LABS, 2862 m a.s.l.) in Taiwan since April 13, 2006 to study the trans-boundary transport and transformation of Hg in the free troposphere. Three types of atmospheric Hg, including gaseous elemental Hg (GEM), reactive gaseous Hg (RGM), and particulate Hg (PHg), are measured using the Tekran 2537A/1130/1135 speciation system. Diurnal variations in the concentrations of GEM, RGM, ozone, and water vapor (WV) mixing ratio indicated the influence of boundary layer air in daytime and the subsidence of free tropospheric air masses from higher altitudes at night. Seasonal variation in GEM concentrations was evident with elevated concentrations usually observed between fall and spring when air masses were more or less under the influence of Asian continent. Low summer GEM values were associated with marine air masses. Spikes of RGM were frequently detected between midnight and early morning with concurrent decreases in GEM and WV mixing ratio and increases in ozone concentrations, suggesting the oxidation of GEM and formation of RGM in free troposphere. Concentrations of PHg were usually low; however, elevated concentrations were detected in spring when the Southeast Asian biomass burning plumes affected the LABS. Analysis of the collected data indicate that at LABS the distribution of atmospheric Hg is dynamically controlled by background atmosphere, exchange and mixing of free troposphere/boundary layer air, chemical transformation, and long-range transport from East and Southeast Asia.

A novel application of Fiber Bragg Grating (FBG) sensors in MPGD

NASA Astrophysics Data System (ADS)

Abbaneo, D.; Abbas, M.; Abbrescia, M.; Abi Akl, M.; Aboamer, O.; Acosta, D.; Ahmad, A.; Ahmed, W.; Aleksandrov, A.; Altieri, P.; Asawatangtrakuldee, C.; Aspell, P.; Assran, Y.; Awan, I.; Bally, S.; Ban, Y.; Banerjee, S.; Barashko, V.; Barria, P.; Bencze, G.; Beni, N.; Benussi, L.; Bhopatkar, V.; Bianco, S.; Bos, J.; Bouhali, O.; Braghieri, A.; Braibant, S.; Buontempo, S.; Calabria, C.; Caponero, M.; Caputo, C.; Cassese, F.; Castaneda, A.; Cauwenbergh, S.; Cavallo, F. R.; Celik, A.; Choi, M.; Choi, S.; Christiansen, J.; Cimmino, A.; Colafranceschi, S.; Colaleo, A.; Conde Garcia, A.; Czellar, S.; Dabrowski, M. M.; De Lentdecker, G.; De Oliveira, R.; de Robertis, G.; Dildick, S.; Dorney, B.; Endroczi, G.; Errico, F.; Fenyvesi, A.; Ferrini, M.; Ferry, S.; Furic, I.; Giacomelli, P.; Gilmore, J.; Golovtsov, V.; Guiducci, L.; Guilloux, F.; Gutierrez, A.; Hadjiiska, R. M.; Hauser, J.; Hoepfner, K.; Hohlmann, M.; Hoorani, H.; Iaydjiev, P.; Jeng, Y. G.; Kamon, T.; Karchin, P.; Korytov, A.; Krutelyov, S.; Kumar, A.; Kim, H.; Lalli, A.; Lee, J.; Lenzi, T.; Litov, L.; Loddo, F.; Madorsky, A.; Maerschalk, T.; Maggi, M.; Magnani, A.; Mal, P. K.; Mandal, K.; Marchioro, A.; Marinov, A.; Majumdar, N.; Merlin, J. A.; Mitselmakher, G.; Mohanty, A. K.; Mohapatra, A.; Molnar, J.; Muhammad, S.; Mukhopadhyay, S.; Naimuddin, M.; Nuzzo, S.; Oliveri, E.; Pant, L. M.; Paolucci, P.; Park, I.; Passamonti, L.; Passeggio, G.; Pavlov, B.; Philipps, B.; Piccolo, D.; Pierluigi, D.; Postema, H.; Primavera, F.; Puig Baranac, A.; Radi, A.; Radogna, R.; Raffone, G.; Ranieri, A.; Rashevski, G.; Riccardi, C.; Rodozov, M.; Rodrigues, A.; Ropelewski, L.; RoyChowdhury, S.; Russo, A.; Ryu, G.; Ryu, M. S.; Safonov, A.; Salva, S.; Saviano, G.; Sharma, A.; Sharma, A.; Sharma, R.; Shah, A. H.; Shopova, M.; Sturdy, J.; Sultanov, G.; Swain, S. K.; Szillasi, Z.; Talvitie, J.; Tatarinov, A.; Tuuva, T.; Tytgat, M.; Valente, M.; Vai, I.; Van Stenis, M.; Venditti, R.; Verhagen, E.; Verwilligen, P.; Vitulo, P.; Volkov, S.; Vorobyev, A.; Wang, D.; Wang, M.; Yang, U.; Yang, Y.; Yonamine, R.; Zaganidis, N.; Zenoni, F.; Zhang, A.

2018-02-01

We present a novel application of Fiber Bragg Grating (FBG) sensors in the construction and characterisation of Micro Pattern Gaseous Detector (MPGD), with particular attention to the realisation of the largest triple (Gas electron Multiplier) GEM chambers so far operated, the GE1/1 chambers of the CMS experiment at LHC. The GE1/1 CMS project consists of 144 GEM chambers of about 0.5 m2 active area each, employing three GEM foils per chamber, to be installed in the forward region of the CMS endcap during the long shutdown of LHC in 2108-2019. The large active area of each GE1/1 chamber consists of GEM foils that are mechanically stretched in order to secure their flatness and the consequent uniform performance of the GE1/1 chamber across its whole active surface. So far FBGs have been used in high energy physics mainly as high precision positioning and re-positioning sensors and as low cost, easy to mount, low space consuming temperature sensors. FBGs are also commonly used for very precise strain measurements in material studies. In this work we present a novel use of FBGs as flatness and mechanical tensioning sensors applied to the wide GEM foils of the GE1/1 chambers. A network of FBG sensors have been used to determine the optimal mechanical tension applied and to characterise the mechanical tension that should be applied to the foils. We discuss the results of the test done on a full-sized GE1/1 final prototype, the studies done to fully characterise the GEM material, how this information was used to define a standard assembly procedure and possible future developments.

Cold Fronts in RegCM/HadGEM simulations over South America

NASA Astrophysics Data System (ADS)

Pampuch, Luana; Marcos de Jesus, Eduardo; Porfírio da Rocha, Rosmeri; Ambrizzi, Tércio

2017-04-01

Cold front is one of the most important systems that contribute for precipitation over South America. The representation of this system in climate models is important for a better representation of the precipitation. The Regional Climate Model RegCM is widely used for climate studies in South America, being important to understand how this model represents the cold fronts. A climatology (from 1979-2004) of the number of cold fronts in each season for RegCM4 simulations over South America CORDEX domain nested in HadGEM2-ES. The simulated climatology was compared with ERA-Interim reanalysis cold fronts climatology over the South America and adjacent South Atlantic Ocean. The cold fronts tracking for the model and the reanalysis were performed using an objective methodology based on decrease of air temperature in 925hPa, shift of meridional wind in 925hPa from northern to southern quadrant and increased in sea level pressure. The main differences were observed on summer and winter. On summer the model overestimate the number of cold fronts over southeastern South America and adjacent Atlantic Ocean; and underestimate it over central-south Argentina and Atlantic Ocean. On winter, the signs were opposite of that summer. On autumn and spring the differences were smaller and occurs mainly over all South Atlantic and north Argentina.

An Experimental High-Resolution Forecast System During the Vancouver 2010 Winter Olympic and Paralympic Games

NASA Astrophysics Data System (ADS)

Mailhot, J.; Milbrandt, J. A.; Giguère, A.; McTaggart-Cowan, R.; Erfani, A.; Denis, B.; Glazer, A.; Vallée, M.

2014-01-01

Environment Canada ran an experimental numerical weather prediction (NWP) system during the Vancouver 2010 Winter Olympic and Paralympic Games, consisting of nested high-resolution (down to 1-km horizontal grid-spacing) configurations of the GEM-LAM model, with improved geophysical fields, cloud microphysics and radiative transfer schemes, and several new diagnostic products such as density of falling snow, visibility, and peak wind gust strength. The performance of this experimental NWP system has been evaluated in these winter conditions over complex terrain using the enhanced mesoscale observing network in place during the Olympics. As compared to the forecasts from the operational regional 15-km GEM model, objective verification generally indicated significant added value of the higher-resolution models for near-surface meteorological variables (wind speed, air temperature, and dewpoint temperature) with the 1-km model providing the best forecast accuracy. Appreciable errors were noted in all models for the forecasts of wind direction and humidity near the surface. Subjective assessment of several cases also indicated that the experimental Olympic system was skillful at forecasting meteorological phenomena at high-resolution, both spatially and temporally, and provided enhanced guidance to the Olympic forecasters in terms of better timing of precipitation phase change, squall line passage, wind flow channeling, and visibility reduction due to fog and snow.

Modeled ecohydrological responses to climate change at seven small watersheds in the northeastern United States

Treesearch

Afshin Pourmokhtarian; Charles T. Driscoll; John L. Campbell; Katharine Hayhoe; Anne M. K. Stoner; Mary Beth Adams; Douglas Burns; Ivan Fernandez; Myron J. Mitchell; James B. Shanley

2016-01-01

A cross-site analysis was conducted on seven diverse, forested watersheds in the northeastern United States to evaluate hydrological responses (evapotranspiration, soil moisture, seasonal and annual streamflow, and water stress) to projections of future climate. We used output from four atmosphere–ocean general circulation models (AOGCMs; CCSM4, HadGEM2-CC, MIROC5, and...

Importance of ensembles in projecting regional climate trends

NASA Astrophysics Data System (ADS)

Arritt, Raymond; Daniel, Ariele; Groisman, Pavel

2016-04-01

We have performed an ensemble of simulations using RegCM4 to examine the ability to reproduce observed trends in precipitation intensity and to project future changes through the 21st century for the central United States. We created a matrix of simulations over the CORDEX North America domain for 1950-2099 by driving the regional model with two different global models (HadGEM2-ES and GFDL-ESM2M, both for RCP8.5), by performing simulations at both 50 km and 25 km grid spacing, and by using three different convective parameterizations. The result is a set of 12 simulations (two GCMs by two resolutions by three convective parameterizations) that can be used to systematically evaluate the influence of simulation design on predicted precipitation. The two global models were selected to bracket the range of climate sensitivity in the CMIP5 models: HadGEM2-ES has the highest ECS of the CMIP5 models, while GFDL-ESM2M has one of the lowestt. Our evaluation metrics differ from many other RCM studies in that we focus on the skill of the models in reproducing past trends rather than the mean climate state. Trends in frequency of extreme precipitation (defined as amounts exceeding 76.2 mm/day) for most simulations are similar to the observed trend but with notable variations depending on RegCM4 configuration and on the driving GCM. There are complex interactions among resolution, choice of convective parameterization, and the driving GCM that carry over into the future climate projections. We also note that biases in the current climate do not correspond to biases in trends. As an example of these points the Emanuel scheme is consistently "wet" (positive bias in precipitation) yet it produced the smallest precipitation increase of the three convective parameterizations when used in simulations driven by HadGEM2-ES. However, it produced the largest increase when driven by GFDL-ESM2M. These findings reiterate that ensembles using multiple RCM configurations and driving GCMs are essential for projecting regional climate change, even when a single RCM is used. This research was sponsored by the U.S. Department of Agriculture National Institute of Food and Agriculture.

Comprehensive Assessment of Models and Events based on Library tools (CAMEL)

NASA Astrophysics Data System (ADS)

Rastaetter, L.; Boblitt, J. M.; DeZeeuw, D.; Mays, M. L.; Kuznetsova, M. M.; Wiegand, C.

2017-12-01

At the Community Coordinated Modeling Center (CCMC), the assessment of modeling skill using a library of model-data comparison metrics is taken to the next level by fully integrating the ability to request a series of runs with the same model parameters for a list of events. The CAMEL framework initiates and runs a series of selected, pre-defined simulation settings for participating models (e.g., WSA-ENLIL, SWMF-SC+IH for the heliosphere, SWMF-GM, OpenGGCM, LFM, GUMICS for the magnetosphere) and performs post-processing using existing tools for a host of different output parameters. The framework compares the resulting time series data with respective observational data and computes a suite of metrics such as Prediction Efficiency, Root Mean Square Error, Probability of Detection, Probability of False Detection, Heidke Skill Score for each model-data pair. The system then plots scores by event and aggregated over all events for all participating models and run settings. We are building on past experiences with model-data comparisons of magnetosphere and ionosphere model outputs in GEM2008, GEM-CEDAR CETI2010 and Operational Space Weather Model challenges (2010-2013). We can apply the framework also to solar-heliosphere as well as radiation belt models. The CAMEL framework takes advantage of model simulations described with Space Physics Archive Search and Extract (SPASE) metadata and a database backend design developed for a next-generation Run-on-Request system at the CCMC.

Industrial and natural sources of gaseous elemental mercury in the Almadén district (Spain): an updated report on this issue after the ceasing of mining and metallurgical activities in 2003 and major land reclamation works.

PubMed

Higueras, Pablo; Esbrí, José María; Oyarzun, Roberto; Llanos, Willans; Martínez-Coronado, Alba; Lillo, Javier; López-Berdonces, Miguel Angel; García-Noguero, Eva Maria

2013-08-01

Two events during the last decade had major environmental repercussions in Almadén town (Spain). First it was the ceasing of activities in the mercury mine and metallurgical facilities in 2003, and then the finalization of the restoration works on the main waste dump in 2008. The combination of both events brought about a dramatic drop in the emissions of gaseous elemental mercury (GEM) to the atmosphere. Although no one would now call the Almadén area as 'mercury-free', the GEM levels have fallen beneath international reference safety levels for the first time in centuries. This has been a major breakthrough because in less than one decade the site went from GEM levels in the order of "tens of thousands" to mere "tens" nanogram per cubic meter. Although these figures are per se a remarkable achievement, they do not mark the end of the environmental concerns in the Almadén district. Two other sites remain as potential environmental hazards. (1) The Las Cuevas mercury storage complex, a partially restored ex-mining site where liquid mercury is being stored. The MERSADE Project (LIFE-European Union) has tested the Las Cuevas complex as a potential site for the installation of a future European prototype safe deposit of surplus mercury from industrial activities. Despite restoration works carried out in 2004, the Las Cuevas complex can still be regarded as hotspot of mercury contamination, with high concentrations above 800μgg(-1) Hgsoil and 300ngm(-3) Hggas. However, as predicted by air contamination modeling using the ISC-AERMOD software, GEM concentrations fade away in a short distance following the formation of a NW-SE oriented narrow plume extending for a few hundred meters from the complex perimeter. (2) Far more dangerous from the human health perspective is the Almadenejos area, hosting the small Almadenejos village, the so-called Cerco de Almadenejos (CDA; an old metallurgical precinct), and the mines of La Nueva Concepción, La Vieja Concepción and El Entredicho. The CDA is an old metallurgical site that operated between 1794 and 1861, leaving behind a legacy of extremely contaminated soils (mean concentration=4220μgg(-1) Hg) and GEM emissions that in summer can reach levels up to 4,000-5,000ngm(-3). Thus the CDA remains the sole 'urban' site in the district surpassing GEM international reference safety levels. In order to prevent these emissions, the CDA requires immediate action regarding restoration works. These could involve the full removal of soils or their permanent capping to create an impermeable barrier. Copyright © 2012 Elsevier Inc. All rights reserved.

Experimental High Energy Physics Research

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hohlmann, Marcus

This final report summarizes activities of the Florida Tech High Energy Physics group supported by DOE under grant #DE-SC0008024 during the period June 2012 – March 2015. We focused on one of the main HEP research thrusts at the Energy Frontier by participating in the CMS experiment. We were exploiting the tremendous physics opportunities at the Large Hadron Collider (LHC) and prepared for physics at its planned extension, the High-Luminosity LHC. The effort comprised a physics component with analysis of data from the first LHC run and contributions to the CMS Phase-2 upgrades in the muon endcap system (EMU) formore » the High-Luminosity LHC. The emphasis of our hardware work was the development of large-area Gas Electron Multipliers (GEMs) for the CMS forward muon upgrade. We built a production and testing site for such detectors at Florida Tech to complement future chamber production at CERN. The first full-scale CMS GE1/1 chamber prototype ever built outside of CERN was constructed at Florida Tech in summer 2013. We conducted two beam tests with GEM prototype chambers at CERN in 2012 and at FNAL in 2013 and reported the results at conferences and in publications. Principal Investigator Hohlmann served as chair of the collaboration board of the CMS GEM collaboration and as co-coordinator of the GEM detector working group. He edited and authored sections of the detector chapter of the Technical Design Report (TDR) for the GEM muon upgrade, which was approved by the LHCC and the CERN Research Board in 2015. During the course of the TDR approval process, the GEM project was also established as an official subsystem of the muon system by the CMS muon institution board. On the physics side, graduate student Kalakhety performed a Z' search in the dimuon channel with the 2011 and 2012 CMS datasets that utilized 20.6 fb⁻¹ of p-p collisions at √s = 8 TeV. For the dimuon channel alone, the 95% CL lower limits obtained on the mass of a Z' resonance are 2770 GeV for a Z' with the same standard-model couplings as the Z boson. Our student team operated a Tier-3 cluster on the Open Science Grid (OSG) to support local CMS physics analysis and remote OSG activity. As a service to the HEP community, Hohlmann participated in the Snowmass effort over the course of 2013. Specifically, he acted as a liaison for gaseous detectors between the Instrumentation Frontier and the Energy Frontier and contributed to five papers and reports submitted to the summer study.« less

Combined readout of a triple-GEM detector

NASA Astrophysics Data System (ADS)

Antochi, V. C.; Baracchini, E.; Cavoto, G.; Di Marco, E.; Marafini, M.; Mazzitelli, G.; Pinci, D.; Renga, F.; Tomassini, S.; Voena, C.

2018-05-01

Optical readout of GEM based devices by means of high granularity and low noise CMOS sensors allows to obtain very interesting tracking performance. Space resolution of the order of tens of μm were measured on the GEM plane along with an energy resolution of 20%÷30%. The main limitation of CMOS sensors is represented by their poor information about time structure of the event. In this paper, the use of a concurrent light readout by means of a suitable photomultiplier and the acquisition of the electric signal induced on the GEM electrode are exploited to provide the necessary timing informations. The analysis of the PMT waveform allows a 3D reconstruction of each single clusters with a resolution on z of 100 μm. Moreover, from the PMT signals it is possible to obtain a fast reconstruction of the energy released within the detector with a resolution of the order of 25% even in the tens of keV range useful, for example, for triggering purpose.

Remote Sensing of Air Pollution from Geo with GEMS and TEMPO

NASA Astrophysics Data System (ADS)

Lasnik, J.; Nicks, D. K., Jr.; Baker, B.; Canova, B.; Chance, K.; Liu, X.; Suleiman, R. M.; Pennington, W. F.; Flittner, D. E.; Al-Saadi, J. A.; Rosenbaum, D. M.

2017-12-01

The Geostationary Environmental Monitoring System (GEMS) and Tropospheric Emissions: Monitoring of Pollution (TEMPO) instruments will provide a new capability for the understanding of air quality and pollution. Ball Aerospace is the instrument developer. The GEMS and TEMPO instruments use well-proven remote sensing techniques and take advantage of a geostationary orbit to take hourly measurements of the same geographical area. The high spatial and temporal resolution of these instruments will allow for measurements of the complex diurnal cycle of pollution driven by the combination of photochemistry, chemical composition and the dynamic nature of the atmosphere. Status of the manufacturing, test and calibration efforts will be presented.The GEMS instrument is being built for the Korea Aerospace Research Institute and their customer the National Institute of Environmental Research (NIER). The TEMPO instrument is being built for NASA under the Earth Venture Instrument EVI Program. NASA Langley Research Center (LaRC) is the managing center and the Principle Investigator (PI) is Kelly Chance of the Smithsonian Astrophysical Observatory (SAO).

Understanding of diagnosis and medications among non-English-speaking older patients.

PubMed

Teo, Ken Gw; Tacey, Mark; Holbeach, Edwina

2018-01-28

To determine whether non-English-speaking background (NESB) patients had a poorer understanding of diagnosis and medications compared to English-speaking background (ESB) patients. English-speaking background and NESB patients admitted to inpatient geriatric evaluation and management (GEM) unit were asked standardised questions about their admission diagnosis, reason for GEM admission and medications. Accuracy of answers, as compared to medical notes, ranked as 'full credit', 'partial credit' or 'no credit'. Of the 66 patients recruited (30 NESB), understanding of diagnosis and purpose of GEM admission was good. There was no difference between ESB and NESB patients. Understanding of medications taken prior to admission was poor, with 67% of overall patients scoring 'no credit'. NESB patients were more likely to score 'no credit' compared to ESB (80% vs 56%, P = 0.036). Reassuringly, patients had a reasonable understanding of diagnosis and purpose of GEM admission. Lack of understanding of medications, especially among NESB patients, should be improved. © 2018 AJA Inc.

Quality control for the first large areas of triple-GEM chambers for the CMS endcaps

NASA Astrophysics Data System (ADS)

Abbaneo, D.; Abbas, M.; Abbrescia, M.; Abi Akl, M.; Aboamer, O.; Acosta, D.; Ahmad, A.; Ahmed, W.; Aleksandrov, A.; Altieri, P.; Asawatangtrakuldee, C.; Aspell, P.; Assran, Y.; Awan, I.; Bally, S.; Ban, Y.; Banerjee, S.; Barashko, V.; Barria, P.; Bencze, G.; Beni, N.; Benussi, L.; Bhopatkar, V.; Bianco, S.; Bos, J.; Bouhali, O.; Braghieri, A.; Braibant, S.; Buontempo, S.; Calabria, C.; Caponero, M.; Caputo, C.; Cassese, F.; Castaneda, A.; Cauwenbergh, S.; Cavallo, F. R.; Celik, A.; Choi, M.; Choi, S.; Christiansen, J.; Cimmino, A.; Colafranceschi, S.; Colaleo, A.; Conde Garcia, A.; Czellar, S.; Dabrowski, M. M.; De Lentdecker, G.; De Oliveira, R.; de Robertis, G.; Dildick, S.; Dorney, B.; Endroczi, G.; Errico, F.; Fenyvesi, A.; Ferry, S.; Furic, I.; Giacomelli, P.; Gilmore, J.; Golovtsov, V.; Guiducci, L.; Guilloux, F.; Gutierrez, A.; Hadjiiska, R. M.; Hauser, J.; Hoepfner, K.; Hohlmann, M.; Hoorani, H.; Iaydjiev, P.; Jeng, Y. G.; Kamon, T.; Karchin, P.; Korytov, A.; Krutelyov, S.; Kumar, A.; Kim, H.; Lee, J.; Lenzi, T.; Litov, L.; Loddo, F.; Madorsky, A.; Maerschalk, T.; Maggi, M.; Magnani, A.; Mal, P. K.; Mandal, K.; Marchioro, A.; Marinov, A.; Majumdar, N.; Merlin, J. A.; Mitselmakher, G.; Mohanty, A. K.; Mohapatra, A.; Molnar, J.; Muhammad, S.; Mukhopadhyay, S.; Naimuddin, M.; Nuzzo, S.; Oliveri, E.; Pant, L. M.; Paolucci, P.; Park, I.; Passeggio, G.; Pavlov, B.; Philipps, B.; Piccolo, D.; Postema, H.; Puig Baranac, A.; Radi, A.; Radogna, R.; Raffone, G.; Ranieri, A.; Rashevski, G.; Riccardi, C.; Rodozov, M.; Rodrigues, A.; Ropelewski, L.; RoyChowdhury, S.; Ryu, G.; Ryu, M. S.; Safonov, A.; Salva, S.; Saviano, G.; Sharma, A.; Sharma, A.; Sharma, R.; Shah, A. H.; Shopova, M.; Sturdy, J.; Sultanov, G.; Swain, S. K.; Szillasi, Z.; Talvitie, J.; Tatarinov, A.; Tuuva, T.; Tytgat, M.; Vai, I.; Van Stenis, M.; Venditti, R.; Verhagen, E.; Verwilligen, P.; Vitulo, P.; Volkov, S.; Vorobyev, A.; Wang, D.; Wang, M.; Yang, U.; Yang, Y.; Yonamine, R.; Zaganidis, N.; Zenoni, F.; Zhang, A.

2018-02-01

The CMS Collaboration plans to equip the very forward muon system with triple-GEM detectors that can withstand the environment of the High-Luminosity LHC. This project is at the final stages of R&D and moving to production. An unprecedented large area of several 100 m2 are to be instrumented with GEM detectors which will be produced in six different sites around the world. A common construction and quality control procedure is required to ensure the performance of each detector. The quality control steps will include optical inspection, cleaning and baking of all materials and parts used to build the detector, leakage current tests of the GEM foils, high voltage tests, gas leak tests of the chambers and monitoring pressure drop vs. time, gain calibration to know the optimal operation region of the detector, gain uniformity tests, and studying the efficiency, noise and tracking performance of the detectors in a cosmic stand using scintillators.

Generalized extracellular molecule sensor platform for programming cellular behavior.

PubMed

Scheller, Leo; Strittmatter, Tobias; Fuchs, David; Bojar, Daniel; Fussenegger, Martin

2018-04-23

Strategies for expanding the sensor space of designer receptors are urgently needed to tailor cell-based therapies to respond to any type of medically relevant molecules. Here, we describe a universal approach to designing receptor scaffolds that enables antibody-specific molecular input to activate JAK/STAT, MAPK, PLCG or PI3K/Akt signaling rewired to transgene expression driven by synthetic promoters. To demonstrate its scope, we equipped the GEMS (generalized extracellular molecule sensor) platform with antibody fragments targeting a synthetic azo dye, nicotine, a peptide tag and the PSA (prostate-specific antigen) biomarker, thereby covering inputs ranging from small molecules to proteins. These four GEMS devices provided robust signaling and transgene expression with high signal-to-noise ratios in response to their specific ligands. The sensitivity of the nicotine- and PSA-specific GEMS devices matched the clinically relevant concentration ranges, and PSA-specific GEMS were able to detect pathological PSA levels in the serum of patients diagnosed with prostate cancer.

Gem and mineral identification using GL Gem Raman and comparison with other portable instruments

NASA Astrophysics Data System (ADS)

Culka, Adam; Hyršl, Jaroslav; Jehlička, Jan

2016-11-01

Several mainly silicate minerals in their gemstone varieties have been analysed by the Gem Raman portable system by Gemlab R&T, Vancouver, Canada, in order to ascertain the general performance of this relatively non-expensive tool developed exactly for the purpose of gemstone identification. The Raman spectra of gemstones acquired by this system have been subsequently critically compared with the data obtained by several other portable or handheld Raman instruments. The Raman spectra acquired with the Gem Raman instrument were typically of lesser quality when compared with the spectra taken by other instruments. Characteristic features such as steep baseline probably due to the fluorescence of the minerals, Raman bands much broader and therefore less resolved closely located Raman bands, and generally greater shifts of the band positions from the reference values were encountered. Some gemstone groups such as rubies did not provide useful Raman spectra at all. Nevertheless, general identification of gemstones was possible for a selection of gemstones.

Numerical Investigation on Electron and Ion Transmission of GEM-based Detectors

NASA Astrophysics Data System (ADS)

Bhattacharya, Purba; Sahoo, Sumanya Sekhar; Biswas, Saikat; Mohanty, Bedangadas; Majumdar, Nayana; Mukhopadhyay, Supratik

2018-02-01

ALICE at the LHC is planning a major upgrade of its detector systems, including the TPC, to cope with an increase of the LHC luminosity after 2018. Different R&D activities are currently concentrated on the adoption of the Gas Electron Multiplier (GEM) as the gas amplification stage of the ALICE-TPC upgrade version. The major challenge is to have low ion feedback in the drift volume as well as to ensure a collection of good percentage of primary electrons in the signal generation process. In the present work, Garfield simulation framework has been adopted to numerically estimate the electron transparency and ion backflow fraction of GEM-based detectors. In this process, extensive simulations have been carried out to enrich our understanding of the complex physical processes occurring within single, triple and quadruple GEM detectors. A detailed study has been performed to observe the effect of detector geometry, field configuration and magnetic field on the above mentioned characteristics.

gem-Difluoroolefination of Diazo Compounds with TMSCF3 or TMSCF2Br: Transition-Metal-Free Cross-Coupling of Two Carbene Precursors.

PubMed

Hu, Mingyou; Ni, Chuanfa; Li, Lingchun; Han, Yongxin; Hu, Jinbo

2015-11-18

A new olefination protocol for transition-metal-free cross-coupling of two carbene fragments arising from two different sources, namely, a nonfluorinated carbene fragment resulting from a diazo compound and a difluorocarbene fragment derived from Ruppert-Prakash reagent (TMSCF3) or TMSCF2Br, has been developed. This gem-difluoroolefination proceeds through the direct nucleophilic addition of diazo compounds to difluorocarbene followed by elimination of N2. Compared to previously reported Cu-catalyzed gem-difluoroolefination of diazo compounds with TMSCF3, which possesses a narrow substrate scope due to a demanding requirement on the reactivity of diazo compounds and in-situ-generated CuCF3, this transition-metal-free protocol affords a general and efficient approach to various disubstituted 1,1-difluoroalkenes, including difluoroacrylates, diaryldifluoroolefins, as well as arylalkyldifluoroolefins. In view of the ready availability of diazo compounds and difluorocarbene reagents and versatile transformations of 1,1-difluoroalkenes, this new gem-difluoroolefination method is expected to find wide applications in organic synthesis.

Development of near infrared spectrometer for gem materials study

NASA Astrophysics Data System (ADS)

Jindata, W.; Meesiri, W.; Wongkokua, W.

2015-07-01

Most of gem materials can be characterized by infrared absorption spectroscopy. Normally, mid infrared absorption technique has been applied for investigating fundamental vibrational modes. However, for some gem materials, such as tourmaline, NIR is a better choice due to differentiation. Most commercial NIR spectrometers employ complicated dispersive grating or Fourier transform techniques. In this work, we developed a filter type NIR spectrometer with the availability of high efficiency and low-cost narrow bandpass NIR interference filters to be taught in a physics laboratory. The instrument was designed for transmission-mode configuration. A 50W halogen lamp was used as NIR source. There were fourteen NIR filters mounted on a rotatory wheel for wavelength selection ranging from 1000-1650 nm with steps of 50 nm. A 1.0 mm diameter of InGaAs photodiode was used as the detector for the spectrometer. Hence, transparent gem materials can be used as samples for experiment. Student can learn vibrational absorption spectroscopy as well as Beer-Lambert law from the development of this instrument.

Lifetime Estimation of a Time Projection Chamber X-ray Polarimeter

NASA Technical Reports Server (NTRS)

Hill, Joanne E.; Black, J. Kevin; Brieda, Lubos; Dickens, Patsy L.; deGarcia, Kristina Montt; Hawk, Douglas L.; Hayato, Asami; Jahoda, Keith; Mohammed, Jelila

2013-01-01

The Gravity and Extreme Magnetism Small Explorer (GEMS) X-ray polarimeter Instrument (XPI) was designed to measure the polarization of 23 sources over the course of its 9 month mission. The XPI design consists of two telescopes each with a polarimeter assembly at the focus of a grazing incidence mirror. To make sensitive polarization measurements the GEMS Polarimeter Assembly (PA) employed a gas detection system based on a Time Projection Chamber (TPC) technique. Gas detectors are inherently at risk of degraded performance arising from contamination from outgassing of internal detector components or due to loss of gas. This paper describes the design and the materials used to build a prototype of the flight polarimeter with the required GEMS lifetime. We report the results from outgassing measurements of the polarimeter subassemblies and assemblies, enclosure seal tests, life tests, and performance tests that demonstrate that the GEMS lifetime is achievable. Finally we report performance measurements and the lifetime enhancement from the use of a getter.

What Controls the Vertical Distribution of Aerosol? Relationships Between Process Sensitivity in HadGEM3-UKCA and Inter-Model Variation from AeroCom Phase II

NASA Technical Reports Server (NTRS)

Kipling, Zak; Stier, Philip; Johnson, Colin E.; Mann, Graham W.; Bellouin, Nicolas; Bauer, Susanne E.; Bergman, Tommi; Chin, Mian; Diehl, Thomas; Ghan, Steven J.;

Phase I dose-escalation study of copanlisib in combination with gemcitabine or cisplatin plus gemcitabine in patients with advanced cancer.

PubMed

Kim, R D; Alberts, S R; Peña, C; Genvresse, I; Ajavon-Hartmann, A; Xia, C; Kelly, A; Grilley-Olson, J E

2018-02-20

Copanlisib is a pan-class I phosphatidylinositol 3-kinase (PI3K) inhibitor with predominant PI3K-α/δ activity that has demonstrated clinical activity and manageable safety when administered as monotherapy in a phase II study. Combination therapy may overcome compensatory signalling that could occur with PI3K pathway inhibition, resulting in enhanced inhibitory activity, and preclinical studies of copanlisib with gemcitabine have demonstrated potent anti-tumour activity in vivo. A phase I, open-label, dose-escalation study to evaluate the safety, tolerability and recommended phase II dose (RP2D) of copanlisib with gemcitabine or with cisplatin plus gemcitabine (CisGem) in patients with advanced malignancies, including an expansion cohort in patients with biliary tract cancer (BTC) at the RP2D of copanlisib plus CisGem. Copanlisib and gemcitabine were administered on days 1, 8 and 15 of a 28-day cycle; maximum tolerated dose (MTD) and RP2D of copanlisib were determined. Copanlisib plus CisGem was administered on days 1 and 8 of a 21-day cycle; pharmacokinetics and biomarkers were assessed. Fifty patients received treatment as follows: dose-escalation cohorts, n=16; copanlisib plus CisGem cohort, n=14; and BTC expansion cohort, n=20. Copanlisib 0.8 mg kg -1 plus gemcitabine was the MTD and RP2D for both combinations. Common treatment-emergent adverse events included nausea (86%), hyperglycaemia (80%) and decreased platelet count (80%). Copanlisib exposure displayed a dose-proportional increase. No differences were observed upon co-administration of CisGem. Response rates were as follows: copanlisib plus gemcitabine, 6.3% (one partial response in a patient with peritoneal carcinoma); copanlisib plus CisGem, 12% (one complete response and three partial responses all in patients with BTC (response rate 17.4% in patients with BTC)). Mutations were detected in PIK3CA (1 out of 43), KRAS (10 out of 43) and BRAF (2 out of 22), with phosphate and tensin homologue protein loss in 41% (12 out of 29). Copanlisib plus CisGem demonstrated a manageable safety profile, favourable pharmacokinetics, and potentially promising clinical response.

[Nab-Paclitaxel plus Gemcitabine Hydrochloride in Patients with Metastatic or Recurrent Pancreatic Cancer - A Single Institution Experience].

PubMed

Takeda, Yutaka; Katsura, Yoshiteru; Ohmura, Yoshiaki; Sakamoto, Takuya; Akiyama, Yasuki; Kuwahara, Ryuichi; Morimoto, Yoshihiro; Ishida, Tomo; Oneda, Yasuo; Murakami, Kouhei; Naito, Atsushi; Kagawa, Yoshinori; Takeno, Atsushi; Kato, Takeshi; Tamura, Shigeyuki

2016-11-01

Pancreatic adenocarcinoma is one of the leading causes of cancer deaths in Japan.Albumin -bound paclitaxel (nab-paclitaxel)plus gemcitabine hydrochloride(GEM)combination chemotherapy provided significant improvements in the overall and progression-free survival in a phase III trial in Europe and America and a phase II trial in Japan.As a result, this combination therapy was approved for use in Japan. We evaluated the efficacy of nab-paclitaxel plus GEM with metastatic or recurrent pancreatic cancer.Between December 2014 and March 2016, 11 patients received nab-paclitaxel plus GEM as follows: nab-paclitaxel(125mg/m2 of body-surface area)followed by GEM(1,000mg/m2)on days 1, 8, and 15 every 4 weeks.The treatment was continued until disease progression, unacceptable adverse events, discontinuation as decided by the investigators, or patient refusal. The mean age was 65.6 years(range, 48-75 years), and 8 out of 11 patients were men.Ten patients had an Eastern Cooperative Oncology Group(ECOG)performance status(PS)of 0.Ten patients had metastatic disease.Only 4 patients had no prior therapy.The mean duration of treatment was 10.2 weeks(range, 2-41 weeks).The relative dose intensities of nab-paclitaxel and GEM were 90.6%(66.7-100%)and 87.5%(62.9-100%), respectively.The major Grade 3 or 4 hematological toxicities were leucopenia(54.5%), neutropenia(36.4%), anemia (27.3%), and thrombocytopenia(18.2%).The major grade 2 or 3 non-hematological toxicities were fatigue(45.6%), skin rash(27.3%), peripheral sensory neuropathy(9.1%), anorexia(9.1%), and stomatitis(9.1%).There were no treatmentrelated deaths.Interstitial lung disease was not observed.The 6 month progression-free and overall survival rate were 25.7% and 66.7%, respectively. The disease control rate was 90.9%(complete response, n=0; partial response, n=1; stable disease, n=9; progressive disease, n=1). Nab-paclitaxel plus GEM is well tolerated and associated with efficacy and improved survival outcomes.Nab -paclitaxel plus GEM can be the standard treatment for patients with metastatic pancreatic adenocarcinoma.

Eddy covariance flux measurements of gaseous elemental mercury using cavity ring-down spectroscopy.

PubMed

Pierce, Ashley M; Moore, Christopher W; Wohlfahrt, Georg; Hörtnagl, Lukas; Kljun, Natascha; Obrist, Daniel

2015-02-03

A newly developed pulsed cavity ring-down spectroscopy (CRDS) system for measuring atmospheric gaseous elemental mercury (GEM) concentrations at high temporal resolution (25 Hz) was used to successfully conduct the first eddy covariance (EC) flux measurements of GEM. GEM is the main gaseous atmospheric form, and quantification of bidirectional exchange between the Earth's surface and the atmosphere is important because gas exchange is important on a global scale. For example, surface GEM emissions from natural sources, legacy emissions, and re-emission of previously deposited anthropogenic pollution may exceed direct primary anthropogenic emissions. Using the EC technique for flux measurements requires subsecond measurements, which so far has not been feasible because of the slow time response of available instrumentation. The CRDS system measured GEM fluxes, which were compared to fluxes measured with the modified Bowen ratio (MBR) and a dynamic flux chamber (DFC). Measurements took place near Reno, NV, in September and October 2012 encompassing natural, low-mercury (Hg) background soils and Hg-enriched soils. During nine days of measurements with deployment of Hg-enriched soil in boxes within 60 m upwind of the EC tower, the covariance of GEM concentration and vertical wind speed was measured, showing that EC fluxes over an Hg-enriched area were detectable. During three separate days of flux measurements over background soils (without Hg-enriched soils), no covariance was detected, indicating fluxes below the detection limit. When fluxes were measurable, they strongly correlated with wind direction; the highest fluxes occurred when winds originated from the Hg-enriched area. Comparisons among the three methods showed good agreement in direction (e.g., emission or deposition) and magnitude, especially when measured fluxes originated within the Hg-enriched soil area. EC fluxes averaged 849 ng m(-2) h(-1), compared to DFC fluxes of 1105 ng m(-2) h(-1) and MBR fluxes of 1309 ng m(-2) h(-1). This study demonstrated that a CRDS system can be used to measure GEM fluxes over Hg-enriched areas, with a conservative detection limit estimate of 32 ng m(-2) h(-1).

Signals that regulate the oncogenic fate of neural stem cells and progenitors

PubMed Central

Swartling, Fredrik J.; Bolin, Sara; Phillips, Joanna J.; Persson, Anders I.

2013-01-01

Brain tumors have frequently been associated with a neural stem cell (NSC) origin and contain stem-like tumor cells, so-called brain tumor stem cells (BTSCs) that share many features with normal NSCs. A stem cell state of BTSCs confers resistance to radiotherapy and treatment with alkylating agents. It is also a hallmark of aggressive brain tumors and is maintained by transcriptional networks that are also active in embryonic stem cells. Advances in reprogramming of somatic cells into induced pluripotent stem (iPS) cells have further identified genes that drive stemness. In this review, we will highlight the possible drivers of stemness in medulloblastoma and glioma, the most frequent types of primary malignant brain cancer in children and adults, respectively. Signals that drive expansion of developmentally defined neural precursor cells are also active in corresponding brain tumors. Transcriptomal subgroups of human medulloblastoma and glioma match features of NSCs but also more restricted progenitors. Lessons from genetically-engineered mouse (GEM) models show that temporally and regionally defined NSCs can give rise to distinct subgroups of medulloblastoma and glioma. We will further discuss how acquisition of stem cell features may drive brain tumorigenesis from a non-NSC origin. Genetic alterations, signaling pathways, and therapy-induced changes in the tumor microenvironment can drive reprogramming networks and induce stemness in brain tumors. Finally, we propose a model where dysregulation of microRNAs (miRNAs) that normally provide barriers against reprogramming plays an integral role in promoting stemness in brain tumors. PMID:23376224

Modelling of biogas extraction at an Italian landfill accepting mechanically and biologically treated municipal solid waste.

PubMed

Calabrò, Paolo S; Orsi, Sirio; Gentili, Emiliano; Carlo, Meoni

2011-12-01

This paper presents the results of the modelling of the biogas extraction in a full-scale Italian landfill by the USEPA LandGEM model and the Andreottola-Cossu approach. The landfill chosen for this research ('Il Fossetto' plant, Monsummano Terme, Italy) had accepted mixed municipal raw waste for about 15 years. In the year 2003 a mechanical biological treatment (MBT) was implemented and starting from the end of the year 2006, the recirculation in the landfill of the concentrated leachate coming from the internal membrane leachate treatment plant was put into practice. The USEPA LandGEM model and the Andreottola-Cossu approach were chosen since they require only input data routinely acquired during landfill management (waste amount and composition) and allow a simplified calibration, therefore they are potentially useful for practical purposes such as landfill gas management. The results given by the models are compared with measured data and analysed in order to verify the impact of MBT on biogas production; moreover, the possible effects of the recirculation of the concentrated leachate are discussed. The results clearly show how both models can adequately fit measured data even after MBT implementation. Model performance was significantly reduced for the period after the beginning of recirculation of concentrated leachate when the probable inhibition of methane production, due to the competition between methanogens and sulfate-reducing bacteria, significantly influenced the biogas production and composition.

X-Ray Polarimetry with GEMS

NASA Technical Reports Server (NTRS)

Strohmayer, Tod

2011-01-01

The polarization properties of cosmic X-ray sources are still largely unexplored. The Gravity and Extreme Magnetism SMEX (GEMS) will carry out the first sensitive X-ray polarization survey of a wide range of sources including; accreting compact objects (black holes and neutron stars), AGN, supernova remnants, magnetars and rotation-powered pulsars. GEMS employs grazing-incidence foil mirrors and novel time-projection chamber (TPC) polarimeters leveraging the photoelectric effect to achieve high polarization sensitivity in the 2 - 10 keV band. I will provide an update of the project status, illustrate the expected performance with several science examples, and provide a brief overview of the data analysis challenges

VizieR Online Data Catalog: Algol-type binaries. VIII. DI Peg & AF Gem (Yang+, 2014)

NASA Astrophysics Data System (ADS)

Yang, Y.-G.; Yang, Y.; Li, S.-Z.

2014-10-01

In the 2012-2013 observing season, DI Peg and AF Gem were observed using the 60cm telescope and the 85cm telescope at Xinglong station (XLs) of National Astronomical Observatories of Chinese (NAOC). The standard Johnson-Cousins UBVRcIc photometric systems were mounted upon two small telescopes. On five consecutive nights from 2012 October 9 to 13, the multi-color photometry of DI Peg was made with the 60cm telescope. The other variable star, AF Gem, was observed using the 85cm telescope on 7 nights from 2013 January 1 to 7. (5 data files).

The BoNuS GEM-Based Radial Time-Projection Chamber

NASA Astrophysics Data System (ADS)

Fenker, Howard

2006-10-01

A special-purpose detector for measuring low-momentum spectator protons from e-d collisions has been developed. It is a radial time-projection chamber in which the gas-amplification elements are GEM foils formed into cylinders. This is believed to be the first application of curved GEMs. In a 4T magnetic field, this low-mass detector allows tracking of spectator protons with momentum as low as 70 MeV/c while covering a large solid angle. Physics data were taken using the system in late 2005. We report on the development of the detector, experience with operating it, and the data coming out of it.

Dust lifting in GEM-Mars using a roughness length map

NASA Astrophysics Data System (ADS)

Daerden, F.; Neary, L.; Whiteway, J. A.; Hébrard, E.

2013-09-01

Lifting of size distributed dust due to surface wind stress and dust devils has been implemented in the GEM-Mars 3D-GCM. It turned out that a detailed surface roughness length map was necessary to bring the simulated dust opacities in accordance with observations.

Highly effective copper-mediated gem-difluoromethylenation of arylboronic acids.

PubMed

Ma, Guobin; Wan, Wen; Hu, Qingyang; Jiang, Haizhen; Wang, Jing; Zhu, Shizheng; Hao, Jian

2014-07-18

A copper-mediated gem-difluoromethylenation of aryl, heteroaryl and vinyl boronic acids with bromodifluoromethylated oxazole or thiazole derivatives has been developed. This novel reaction showed an excellent functional group tolerance and wide substrate scope, providing facile access to practical application in drug discovery and development.

A Hidden GEM

ERIC Educational Resources Information Center

Khan, Samia

2012-01-01

The internet abounds with free science education applications. But, on their own, these applications have limited capacity to teach students curricular concepts or skills. The author integrated several free web-based applications into a broader pedagogical approach called T-GEM, in which the teacher guides student investigations. In this article,…

The Greenhouse Gases. UNEP/GEMS Environment Library No. 1.

ERIC Educational Resources Information Center

United Nations Environment Programme, Nairobi (Kenya).

Since the United Nations Environment Program (UNEP) was created, more than a dozen years ago, public understanding of the environmental issues confronting our planet has increased enormously. The Global Environment Monitoring System (GEMS) has provided several environmental assessments including urban air pollution, climate modification,…

Trace elements in Gem-Quality Diamonds - Origin and evolution of diamond-forming fluid inclusions

NASA Astrophysics Data System (ADS)

Pearson, Graham; Krebs, Mandy; Stachel, Thomas; Woodland, Sarah; Chinn, Ingrid; Kong, Julie

2017-04-01

In the same way that melt inclusions in phenocrysts have expanded our idea of melt formation and evolution in basalts, studying fluids trapped in diamonds is providing important new constraints on the nature of diamond-forming fluids. Fibrous and cloudy diamonds trap a high but variable density of fluid inclusions and so have been extensively studied using major and trace element compositions. In contrast, constraining the nature of the diamond-forming fluid for high purity gem-quality diamonds has been restricted by the rarity of available high quality trace element data. This is due to the extremely low concentrations of impurities that gem diamonds contain - often in the ppt range. The recent discovery of fluids in gem diamonds showing similar major element chemistry to fluid-rich diamonds suggest that many diamonds may share a common spectrum of parental fluids. Here we test this idea further. Recent advances in analytical techniques, in particular the development of the "off-line" laser ablation pre-concentration approach, have allowed fully quantitative trace element data to be recovered from "fluid-poor", high quality gem diamonds. We present trace element data for gem diamonds from a variety of locations from Canada, S. Africa and Russia, containing either silicate or sulphide inclusions to examine possible paragenetic or genetic differences between fluids. REE abundance in the "gem" diamonds vary from 0.1 to 0.0001 x chondrite. To a first order, we observe the same spectrum of trace element compositions in the gem diamonds as that seen in fluid-rich "fibrous" diamonds, supporting a common origin for the fluids. REE patterns range from extremely flat (Ce/Yb)n 2.5 to 5 (commonly in sulphide-bearing diamonds) to >70, the latter having significantly greater inter-element HFSE/LILE fractionation. In general, the fluids from the sulphide-bearing diamonds are less REE-enriched than the silicate-bearing diamonds, but the ranges overlap significantly. The very large range in REE fractionation mimics very closely that produced in high pressure (5-6 GPa) experimental melts of CO2-H2O fluxed peridotite. Hence, the elemental characteristics of the fluids could be reconciled by the diamonds growing from such melts over a range of T and hence F, with the sulphide-bearing diamonds generally being produced by larger fraction (higher T) melts that have reacted less with their wall rocks. It is also possible that the less REE enriched fluids are consistent with derivation from more reduced CH4-bearing fluids that have lower solute capacity than oxidised fluids. This option is being evaluated.

GEnomes Management Application (GEM.app): a new software tool for large-scale collaborative genome analysis.

PubMed

Gonzalez, Michael A; Lebrigio, Rafael F Acosta; Van Booven, Derek; Ulloa, Rick H; Powell, Eric; Speziani, Fiorella; Tekin, Mustafa; Schüle, Rebecca; Züchner, Stephan

2013-06-01

Novel genes are now identified at a rapid pace for many Mendelian disorders, and increasingly, for genetically complex phenotypes. However, new challenges have also become evident: (1) effectively managing larger exome and/or genome datasets, especially for smaller labs; (2) direct hands-on analysis and contextual interpretation of variant data in large genomic datasets; and (3) many small and medium-sized clinical and research-based investigative teams around the world are generating data that, if combined and shared, will significantly increase the opportunities for the entire community to identify new genes. To address these challenges, we have developed GEnomes Management Application (GEM.app), a software tool to annotate, manage, visualize, and analyze large genomic datasets (https://genomics.med.miami.edu/). GEM.app currently contains ∼1,600 whole exomes from 50 different phenotypes studied by 40 principal investigators from 15 different countries. The focus of GEM.app is on user-friendly analysis for nonbioinformaticians to make next-generation sequencing data directly accessible. Yet, GEM.app provides powerful and flexible filter options, including single family filtering, across family/phenotype queries, nested filtering, and evaluation of segregation in families. In addition, the system is fast, obtaining results within 4 sec across ∼1,200 exomes. We believe that this system will further enhance identification of genetic causes of human disease. © 2013 Wiley Periodicals, Inc.

Promoting microbiology education through the iGEM synthetic biology competition.

PubMed

Kelwick, Richard; Bowater, Laura; Yeoman, Kay H; Bowater, Richard P

2015-08-01

Synthetic biology has developed rapidly in the 21st century. It covers a range of scientific disciplines that incorporate principles from engineering to take advantage of and improve biological systems, often applied to specific problems. Methods important in this subject area include the systematic design and testing of biological systems and, here, we describe how synthetic biology projects frequently develop microbiology skills and education. Synthetic biology research has huge potential in biotechnology and medicine, which brings important ethical and moral issues to address, offering learning opportunities about the wider impact of microbiological research. Synthetic biology projects have developed into wide-ranging training and educational experiences through iGEM, the International Genetically Engineered Machines competition. Elements of the competition are judged against specific criteria and teams can win medals and prizes across several categories. Collaboration is an important element of iGEM, and all DNA constructs synthesized by iGEM teams are made available to all researchers through the Registry for Standard Biological Parts. An overview of microbiological developments in the iGEM competition is provided. This review is targeted at educators that focus on microbiology and synthetic biology, but will also be of value to undergraduate and postgraduate students with an interest in this exciting subject area. © FEMS 2015. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Psychometric validation of the Growth and Empowerment Measure (GEM) applied with Indigenous Australians.

PubMed

Haswell, Melissa R; Kavanagh, David; Tsey, Komla; Reilly, Lyndon; Cadet-James, Yvonne; Laliberte, Arlene; Wilson, Andrew; Doran, Chris

2010-09-01

Empowerment is a complex process of psychological, social, organizational and structural change. It allows individuals and groups to achieve positive growth and effectively address the social and psychological impacts of historical oppression, marginalization and disadvantage. The Growth and Empowerment Measure (GEM) was developed to measure change in dimensions of empowerment as defined and described by Aboriginal Australians who participated in the Family Well Being programme. The GEM has two components: a 14-item Emotional Empowerment Scale (EES14) and 12 Scenarios (12S). It is accompanied by the Kessler 6 Psychological Distress Scale (K6), supplemented by two questions assessing frequency of happy and angry feelings. For validation, the measure was applied with 184 Indigenous Australian participants involved in personal and/or organizational social health activities. Psychometric analyses of the new instruments support their validity and reliability and indicate two-component structures for both the EES (Self-capacity; Inner peace) and the 12S (Healing and enabling growth, Connection and purpose). Strong correlations were observed across the scales and subscales. Participants who scored higher on the newly developed scales showed lower distress on the K6, particularly when the two additional questions were included. However, exploratory factor analyses demonstrated that GEM subscales are separable from the Kessler distress measure. The GEM shows promise in enabling measurement and enhancing understanding of both process and outcome of psychological and social empowerment within an Australian Indigenous context.

Development of a Walking-Safety Scale for Older Adults, Part II: Interrater and Test–Retest Agreement of the GEM Scale

PubMed Central

Rousseau, Jacqueline; Kaegi, Christine; Boudreault, Renée; Nadeau, Sylvie

2008-01-01

Purpose: The GEM scale is an objective assessment tool, specifically developed for older adults, to evaluate walking safety using standardized tasks. The purpose of this study was to estimate the interrater and test–retest agreement of the GEM scale. Method: Participants (n = 41; ≥ 65 years) were recruited from geriatric units and assessed independently and simultaneously by three raters on two occasions using the GEM scale. Kappa coefficients and percentage agreement were calculated for each item of the scale. Results: A majority of walking items (n = 22) showed fair to substantial interrater agreement (κ ≥ 0.25) and substantial to almost perfect test–retest agreement (κ ≥ 0.60). Mean percentage agreement was high for both interrater and test–retest agreement (79% ± 15% and 83% ± 16% respectively). Moreover, detailed analyses demonstrated that the relatively low agreement of some items resulted from changes in the performance of some participants and the low variability of scores. Although some walking items showed less agreement, the final decision regarding the participants’ ability to walk safely resulted in moderate to substantial interrater and test–retest agreement. Conclusion: The GEM scale is a new assessment tool that can now be used with estimated interrater and test–retest properties to allow therapists to objectively evaluate walking safety among the elderly. PMID:20145760

The SMN Protein is a Key Regulator of Nuclear Architecture in Differentiating Neuroblastoma Cells

PubMed Central

Clelland, Allyson K; Kinnear, Nicholas P; Oram, Lisa; Burza, Julie; Sleeman, Judith E

2009-01-01

The cell nucleus contains two closely related structures, Cajal bodies (CBs) and gems. CBs are the first site of accumulation of newly assembled splicing snRNPs (small nuclear ribonucleoproteins) following their import into the nucleus, before they form their steady-state localization in nuclear splicing speckles. Gems are the nuclear site of accumulation of survival motor neurons (SMNs), an insufficiency of which leads to the inherited neurodegenerative condition, spinal muscular atrophy (SMA). SMN is required in the cytoplasm for the addition of core, Sm, proteins to new snRNPs and is believed to accompany snRNPs to the CB. In most cell lines, gems are indistinguishable from CBs, although the structures are often separate in vivo. The relationship between CBs and gems is not fully understood, but there is evidence that symmetrical dimethylation of arginine residues in the CB protein coilin brings them together in HeLa cells. During neuronal differentiation of the human neuroblastoma cell line SH-SY5Y, CBs and gems increase their colocalization, mimicking changes seen during foetal development. This does not result from alterations in the methylation of coilin, but from increased levels of SMN. Expression of exogenous SMN results in an increased efficiency of snRNP transport to nuclear speckles. This suggests different mechanisms are present in different cell types and in vivo that may be significant for the tissue-specific pathology of SMA. PMID:19735367

Geoid undulation accuracy

NASA Technical Reports Server (NTRS)

Rapp, Richard H.

1993-01-01

The determination of the geoid and equipotential surface of the Earth's gravity field, has long been of interest to geodesists and oceanographers. The geoid provides a surface to which the actual ocean surface can be compared with the differences implying information on the circulation patterns of the oceans. For use in oceanographic applications the geoid is ideally needed to a high accuracy and to a high resolution. There are applications that require geoid undulation information to an accuracy of +/- 10 cm with a resolution of 50 km. We are far from this goal today but substantial improvement in geoid determination has been made. In 1979 the cumulative geoid undulation error to spherical harmonic degree 20 was +/- 1.4 m for the GEM10 potential coefficient model. Today the corresponding value has been reduced to +/- 25 cm for GEM-T3 or +/- 11 cm for the OSU91A model. Similar improvements are noted by harmonic degree (wave-length) and in resolution. Potential coefficient models now exist to degree 360 based on a combination of data types. This paper discusses the accuracy changes that have taken place in the past 12 years in the determination of geoid undulations.

Anticipating Installation Natural Resource Climate Change Concerns: The Data

DTIC Science & Technology

2013-10-15

period of development (1 to 2 decades) include: 1. CM2.1 (GFDL model — NOAA Princeton) 2. E-H and E-R ( NASA GISS) 3. HadGEM1 (Hadley UKMO) 4. CGCM3...sixth GCM, the Australian CSIRO model, to increase the sample. Thus the adopted GCMs include: 1. GFDL model (NOAA Princeton) 6. GISS Model e ( NASA ...Sciences La- boratory ( USDA 2012) created data that would be useful to the related threshold project. This US Forest Service date were similar to those of

Experiential Engineering through iGEM--An Undergraduate Summer Competition in Synthetic Biology

ERIC Educational Resources Information Center

Mitchell, Rudolph; Dori, Yehudit Judy; Kuldell, Natalie H.

2011-01-01

Unlike students in other engineering disciplines, undergraduates in biological engineering typically have limited opportunity to develop design competencies, and even fewer chances to implement their designed projects. The international Genetically Engineered Machines (iGEM) competition is a student Synthetic Biology competition that, in 2009,…

Only One Ocean: Marine Science Activities for Grades 5-8. Teacher's Guide.

ERIC Educational Resources Information Center

Halversen, Catherine; Strang, Craig

This guide was designed by the Marine Activities, Resources & Education (MARE) Program through the Great Explorations in Math and Science (GEMS) ongoing curriculum development program for middle school students. This GEMS guide addresses the concepts of the interconnectedness of the ocean basins, respect for organisms, oceanography, physical…

Fluorination of thiocarbonyl compounds with Bis(2-methoxyethyl)aminosulfur trifluoride (Deoxo-fluor reagent): A facile synthesis of gem-difluorides

PubMed

Lal; Lobach; Evans

2000-08-11

A variety of thiocarbonyl derivatives (thioketone, thioester, thioamide, dithioester, and dithiocarbamate) were converted to the corresponding gem-difluorides in excellent yields on reaction with the fluorinating agent, bis(2-methoxyethyl)aminosulfur trifluoride, in the presence of SbCl(3).

Plate Tectonics: The Way the Earth Works. Teacher's Guide. LHS GEMS.

ERIC Educational Resources Information Center

Cuff, Kevin

This teacher guide presents a unit on plate tectonics and introduces hands-on activities for students in grades 6-8. In each unit, students act as real scientists and gather evidence by using science process skills such as observing, graphing, analyzing data, designing and making models, visualizing, communicating, theorizing, and drawing…

Emissions, dispersion and human exposure of mercury from a Swedish chlor-alkali plant

NASA Astrophysics Data System (ADS)

Wängberg, I.; Barregard, L.; Sällsten, G.; Haeger-Eugensson, M.; Munthe, J.; Sommar, J.

Mercury in air near a mercury cell chlor-alkali plant in Sweden has been measured within the EU-project EMECAP. Based on the measurements and modelling the annual distributions of GEM and RGM have been calculated for the local area around the plant. The average concentration of GEM in residential areas near the plant was found to be 1-3.5 ng m -3 higher in comparison to the background concentration in this part of Sweden. The emission of RGM (0.55 kg year -1) results in elevated RGM concentrations close to the plant. The greatest impact on the local area is due to wet deposition of RGM. However, only a small fraction (0.4%) of all mercury being emitted was found to be deposited in the local area. No impact on urinary mercury could be demonstrated in the population living close to the plant.