Proceedings of the 2010 AFMS Medical Research Symposium. Volume 4. Force Health Protection Track: Abstracts and Presentations

DTIC Science & Technology

2011-03-15

of emerging threats for in-garrison or deployed operations. Topics of interest include research in bio -surveillance, infectious disease, emerging...Saber Hussain, Laura Braydich-Stolle, Nicole Schaeublin, David Mattie (Presented by Dr. David Mattie ) Recent developments have generated a degree...Evaluation of Jet Fuel Inducted Hearing Loss in Rats 711th Human Performance Wing (HPW)/RHPA David Mattie , PhD Noise-induced hearing loss (NIHL

SB6.0: The 6th International meeting on Synthetic Biology, July 9-11, 2013

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

Kahl, Linda J.

The Synthetic Biology conference series (SBx.0) is the preeminent academic meeting in synthetic biology. Organized by the BioBricks Foundation, the SBx.0 conference series brings together leading researchers, students, industry executives, and policy makers from around the world to share, consider, debate, and plan efforts to make biology easier to engineer. Historically held every two years, the SBx.0 conferences are held in alternating locations in the United States, Europe, and Asia to encourage global participation and collaboration so that the ramifications of synthetic biology research and development are most likely to be safe ethical, and beneficial. On 9-11 July 2013, themore » 6th installment of the synthetic biology conference series (SB6.0) was held on the campus of Imperial College London (http://sb6.biobricks.org). The SB6.0 conference was attended by over 700 people, and many more were able to participate via video digital conference (http://sb6.biobricks.org/digital-conference/). Over the course of three days, the SB6.0 conference agenda included plenary sessions, workshops, and poster presentations covering topics ranging from the infrastructure needs arising when “Systematic Engineering Meets Biological Complexity” and design-led considerations for “Connecting People and Technologies” to discussions on “Engineering Biology for New Materials,” “Assessing Risk and Managing Biocontainment,” and “New Directions for Energy and Sustainability.” The $10,150 grant awarded by the U.S. Department of Energy (DE-SC0010233) to the BioBricks Foundation was used to provide partial reimbursement for the travel expenses of leading researchers from the United States to speak at the SB6.0 conference. A total of $9,450 was used to reimburse U.S. speakers for actual expenses related to the SB6.0 conference, including airfare (economy or coach only), ground transportation, hotel, and registration fees. In addition, $700 of the grant was used to offset direct administrative costs associated with selecting speakers (preparing announcements, evaluating abstract submissions) and handling travel arrangements. Leading U.S. researchers selected to speak at the SB6.0 conference included: Adam Arkin, Ph.D. Division Director of the Physical Biosciences Division at the Lawrence Berkeley National Laboratory and Professor in the Department of Bioengineering at UC Berkeley Jay Keasling, Ph.D. Professor in the Department of Bioengineering at Berkeley, Senior Faculty Scientist and Associate Laboratory Director of the Lawrence Berkeley National Laboratory, and Chief Executive Officer of the Joint BioEnergy Institute. Debra Mathews, Ph.D. Assistant Director for Science Programs for the Johns Hopkins Berman Institute of Bioethics, Assistant Professor in the Department of Pediatrics, and Affiliate Faculty in the McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins School of Medicine. Richard Murray, Ph.D. Thomas E. and Doris Everhart Professor of Control & Dynamical Systems and Bioengineering at Caltech. Sarah Richardson, Ph.D. Distinguished Postdoctoral Fellow in Genomics at the Lawrence Berkeley National Laboratory and the Department of Energy Joint Genome Institute. and others (for a complete listing of speakers presenting at the SB6.0 conference see http://sb6.biobricks.org/speakers/) The SB6.0 conference was the largest synthetic biology conference to date, and highlights of the SB6.0 conference have been published in a special issue of ACS Synthetic Biology (http://pubs.acs.org/toc/asbcd6/3/3). The BioBricks Foundation appreciates the support of the U.S. Department of Energy in helping to make this most influential and important conference in the field of synthetic biology a success.« less

Back to the Future - Part 2. Post-mortem assessment and evolutionary role of the bio-medicolegal sciences.

PubMed

Ferrara, Santo Davide; Cecchetto, Giovanni; Cecchi, Rossana; Favretto, Donata; Grabherr, Silke; Ishikawa, Takaki; Kondo, Toshikazu; Montisci, Massimo; Pfeiffer, Heidi; Bonati, Maurizio Rippa; Shokry, Dina; Vennemann, Marielle; Bajanowski, Thomas

2017-07-01

Part 2 of the review "Back to the Future" is dedicated to the evolutionary role of the bio-medicolegal sciences, reporting the historical profiles, the state of the art, and prospects for future development of the main related techniques and methods of the ancillary disciplines that have risen to the role of "autonomous" sciences, namely, Genetics and Genomics, Toxicology, Radiology, and Imaging, involved in historic synergy in the "post-mortem assessment," together with the mother discipline Legal Medicine, by way of its primary fundament, universally denominated as Forensic Pathology. The evolution of the scientific research and the increased accuracy of the various disciplines will be oriented towards the elaboration of an "algorithm," able to weigh the value of "evidence" placed at the disposal of the "justice system" as real truth and proof.

Bio-inspired algorithms applied to molecular docking simulations.

PubMed

Heberlé, G; de Azevedo, W F

2011-01-01

Nature as a source of inspiration has been shown to have a great beneficial impact on the development of new computational methodologies. In this scenario, analyses of the interactions between a protein target and a ligand can be simulated by biologically inspired algorithms (BIAs). These algorithms mimic biological systems to create new paradigms for computation, such as neural networks, evolutionary computing, and swarm intelligence. This review provides a description of the main concepts behind BIAs applied to molecular docking simulations. Special attention is devoted to evolutionary algorithms, guided-directed evolutionary algorithms, and Lamarckian genetic algorithms. Recent applications of these methodologies to protein targets identified in the Mycobacterium tuberculosis genome are described.

ProThera Biologics, Inc.: a novel immunomodulator and biomarker for life-threatening diseases.

PubMed

Lim, Yow-Pin

2013-02-01

ProThera Biologics is a development stage bio-therapeutics company in East Providence, Rhode Island. The company was founded in 2002 to focus on the critical role and commercial potential of Inter-alpha Inhibitor Proteins (IAIP) for treating acute life-threatening inflammatory diseases. The discovery research originated in the basic research laboratories of the co-founders, Yow-Pin Lim, MD, PhD, and Douglas C. Hixson, PhD, at Rhode Island Hospital, a Lifespan partner. The company is backed by the Slater Technology Fund and has received research grants from the Rhode Island State Science and Technology Council (RI STAC) as well as continuous funding from the National Institutes of Health (NIH), with several Phase I and II Small Business Innovation Research (SBIR) grants over the past 10 years. ProThera has developed a novel process to purify Inter-alpha Inhibitor Proteins from source material, and has conducted groundbreaking research into the usage of IAIP to fight systemic inflammation.

Sharing programming resources between Bio* projects through remote procedure call and native call stack strategies.

PubMed

Prins, Pjotr; Goto, Naohisa; Yates, Andrew; Gautier, Laurent; Willis, Scooter; Fields, Christopher; Katayama, Toshiaki

2012-01-01

Open-source software (OSS) encourages computer programmers to reuse software components written by others. In evolutionary bioinformatics, OSS comes in a broad range of programming languages, including C/C++, Perl, Python, Ruby, Java, and R. To avoid writing the same functionality multiple times for different languages, it is possible to share components by bridging computer languages and Bio* projects, such as BioPerl, Biopython, BioRuby, BioJava, and R/Bioconductor. In this chapter, we compare the two principal approaches for sharing software between different programming languages: either by remote procedure call (RPC) or by sharing a local call stack. RPC provides a language-independent protocol over a network interface; examples are RSOAP and Rserve. The local call stack provides a between-language mapping not over the network interface, but directly in computer memory; examples are R bindings, RPy, and languages sharing the Java Virtual Machine stack. This functionality provides strategies for sharing of software between Bio* projects, which can be exploited more often. Here, we present cross-language examples for sequence translation, and measure throughput of the different options. We compare calling into R through native R, RSOAP, Rserve, and RPy interfaces, with the performance of native BioPerl, Biopython, BioJava, and BioRuby implementations, and with call stack bindings to BioJava and the European Molecular Biology Open Software Suite. In general, call stack approaches outperform native Bio* implementations and these, in turn, outperform RPC-based approaches. To test and compare strategies, we provide a downloadable BioNode image with all examples, tools, and libraries included. The BioNode image can be run on VirtualBox-supported operating systems, including Windows, OSX, and Linux.

Gender and Parenthood (American Sociological Association, 1983 Presidential Address).

ERIC Educational Resources Information Center

Rossi, Alice S.

1984-01-01

Examines demographic trends relevant to change in gender and parenting roles. Reviews gender differences in parenting in traditional and nontraditional family arrangements. Examines current social explanations of gender differences in parenting, and argues for a model drawing on bio-evolutionary theory and the neurosciences. (CMG)

Horizontal transfer of short and degraded DNA has evolutionary implications for microbes and eukaryotic sexual reproduction.

PubMed

Overballe-Petersen, Søren; Willerslev, Eske

2014-10-01

Horizontal gene transfer in the form of long DNA fragments has changed our view of bacterial evolution. Recently, we discovered that such processes may also occur with the massive amounts of short and damaged DNA in the environment, and even with truly ancient DNA. Although it presently remains unclear how often it takes place in nature, horizontal gene transfer of short and damaged DNA opens up the possibility for genetic exchange across distinct species in both time and space. In this essay, we speculate on the potential evolutionary consequences of this phenomenon. We argue that it may challenge basic assumptions in evolutionary theory; that it may have distant origins in life's history; and that horizontal gene transfer should be viewed as an evolutionary strategy not only preceding but causally underpinning the evolution of sexual reproduction. © 2014 The Authors. BioEssays Published by WILEY Periodicals, Inc.

Fourth Bionanotox and Applications Research Conference, 2009

NASA Astrophysics Data System (ADS)

Camp, Judy

2010-04-01

"Anticipating the future" seemed the common challenge for scientists attending the 4th BioNanoTox and Applications Research Conference in Little Rock, AR, October 21-22, 2009. Over 50 participants in multi-disciplines such as biology, chemistry, physics, medicine, medical diagnostics, computer science and informatics, nanotechnology, toxicology, and pharmaceutical science gathered to share their research data. From topics on water and food resources to space exploration to conservation to understanding biological activities and using instruments and computers that process enormous data, participants shared research approaches from different fields to find common themes in this integrated field. Presentations aimed at preventing the harmful effects of scientific discoveries to animals, humans, plants, and environment; at controlling infections; and at optimizing health care. The conference included addresses from Thomas Flammang, PhD, of the Food and Drug Administration, National Center for Toxicological Research in Jefferson, AR; Little Rock City Mayor Mark Stodola; and two keynote speakers. Keynote lectures by Danuta Leszczynska, PhD, from the Department of Civil and Environmental Engineering, Interdisciplinary Nanotoxicity Center, in Jackson, MS, and by Keith Cowan, PhD, from the Institute for Environmental Biotechnology in Grahamstown, South Africa, highlighted current trends and future challenges of nanoparticle research and of bioprocess technologies. Additionally, 25 graduate and undergraduate students presented research posters, resulting in valuable discussion among the varied participants; three student projects were selected for awards.

Molecular characterization and mRNA expression of two key enzymes of hypoxia-sensing pathways in eastern oysters Crassostrea virginica (Gmelin): Hypoxia-inducible factor α (HIF-α) and HIF-prolyl hydroxylase (PHD)

PubMed Central

Piontkivska, Helen; Chung, J. Sook; Ivanina, Anna V.; Sokolov, Eugene P.; Techa, Sirinart; Sokolova, Inna M.

2010-01-01

Oxygen homeostasis is crucial for development, survival and normal function of all metazoans. A family of transcription factors called hypoxia-inducible factors (HIF) is critical in mediating the adaptive responses to reduced oxygen availability. The HIF transcription factor consists of a constitutively expressed β subunit and an oxygen-dependent α subunit; the abundance of the latter determines the activity of HIF and is regulated by a family of O2- and Fe2+-dependent enzymes prolyl hydroxylases (PHDs). Currently very little is known about the function of this important pathway and the molecular structure of its key players in hypoxia-tolerant intertidal mollusks including oysters, which are among the animal champions of anoxic and hypoxic tolerance and thus can serve as excellent models to study the role of HIF cascade in adaptations to oxygen deficiency. We have isolated transcripts of two key components of the oxygen sensing pathway - the oxygen-regulated HIF-α subunit and PHD - from an intertidal mollusk, the eastern oyster Crassostrea virginica, and determined the transcriptional responses of these two genes to anoxia, hypoxia and cadmium (Cd) stress. HIF-α and PHD homologs from eastern oysters C. virginica show significant sequence similarity and share key functional domains with the earlier described isoforms from vertebrates and invertebrates. Phylogenetic analysis shows that genetic diversification of HIF and PHD isoforms occurred within the vertebrate lineage indicating functional diversification and specialization of the oxygen-sensing pathways in this group, which parallels situation observed for many other important genes. HIF-α and PHD homologs are broadly expressed at the mRNA level in different oyster tissues and show transcriptional responses to prolonged hypoxia in the gills consistent with their putative role in oxygen sensing and the adaptive response to hypoxia. Similarity in amino acid sequence, domain structure and transcriptional responses between HIF-α and PHD homologs from oysters and other invertebrate and vertebrate species implies the highly conserved functions of these genes throughout the evolutionary history of animals, in accordance with their critical role in oxygen sensing and homeostasis. PMID:21106446

Geomagnetic Navigation of Autonomous Underwater Vehicle Based on Multi-objective Evolutionary Algorithm.

PubMed

Li, Hong; Liu, Mingyong; Zhang, Feihu

2017-01-01

This paper presents a multi-objective evolutionary algorithm of bio-inspired geomagnetic navigation for Autonomous Underwater Vehicle (AUV). Inspired by the biological navigation behavior, the solution was proposed without using a priori information, simply by magnetotaxis searching. However, the existence of the geomagnetic anomalies has significant influence on the geomagnetic navigation system, which often disrupts the distribution of the geomagnetic field. An extreme value region may easily appear in abnormal regions, which makes AUV lost in the navigation phase. This paper proposes an improved bio-inspired algorithm with behavior constraints, for sake of making AUV escape from the abnormal region. First, the navigation problem is considered as the optimization problem. Second, the environmental monitoring operator is introduced, to determine whether the algorithm falls into the geomagnetic anomaly region. Then, the behavior constraint operator is employed to get out of the abnormal region. Finally, the termination condition is triggered. Compared to the state-of- the-art, the proposed approach effectively overcomes the disturbance of the geomagnetic abnormal. The simulation result demonstrates the reliability and feasibility of the proposed approach in complex environments.

Geomagnetic Navigation of Autonomous Underwater Vehicle Based on Multi-objective Evolutionary Algorithm

PubMed Central

Li, Hong; Liu, Mingyong; Zhang, Feihu

2017-01-01

This paper presents a multi-objective evolutionary algorithm of bio-inspired geomagnetic navigation for Autonomous Underwater Vehicle (AUV). Inspired by the biological navigation behavior, the solution was proposed without using a priori information, simply by magnetotaxis searching. However, the existence of the geomagnetic anomalies has significant influence on the geomagnetic navigation system, which often disrupts the distribution of the geomagnetic field. An extreme value region may easily appear in abnormal regions, which makes AUV lost in the navigation phase. This paper proposes an improved bio-inspired algorithm with behavior constraints, for sake of making AUV escape from the abnormal region. First, the navigation problem is considered as the optimization problem. Second, the environmental monitoring operator is introduced, to determine whether the algorithm falls into the geomagnetic anomaly region. Then, the behavior constraint operator is employed to get out of the abnormal region. Finally, the termination condition is triggered. Compared to the state-of- the-art, the proposed approach effectively overcomes the disturbance of the geomagnetic abnormal. The simulation result demonstrates the reliability and feasibility of the proposed approach in complex environments. PMID:28747884

Ensembl BioMarts: a hub for data retrieval across taxonomic space.

PubMed

Kinsella, Rhoda J; Kähäri, Andreas; Haider, Syed; Zamora, Jorge; Proctor, Glenn; Spudich, Giulietta; Almeida-King, Jeff; Staines, Daniel; Derwent, Paul; Kerhornou, Arnaud; Kersey, Paul; Flicek, Paul

2011-01-01

For a number of years the BioMart data warehousing system has proven to be a valuable resource for scientists seeking a fast and versatile means of accessing the growing volume of genomic data provided by the Ensembl project. The launch of the Ensembl Genomes project in 2009 complemented the Ensembl project by utilizing the same visualization, interactive and programming tools to provide users with a means for accessing genome data from a further five domains: protists, bacteria, metazoa, plants and fungi. The Ensembl and Ensembl Genomes BioMarts provide a point of access to the high-quality gene annotation, variation data, functional and regulatory annotation and evolutionary relationships from genomes spanning the taxonomic space. This article aims to give a comprehensive overview of the Ensembl and Ensembl Genomes BioMarts as well as some useful examples and a description of current data content and future objectives. Database URLs: http://www.ensembl.org/biomart/martview/; http://metazoa.ensembl.org/biomart/martview/; http://plants.ensembl.org/biomart/martview/; http://protists.ensembl.org/biomart/martview/; http://fungi.ensembl.org/biomart/martview/; http://bacteria.ensembl.org/biomart/martview/.

Optical Properties of Plasmonic Nanostructures for Bio-Imaging and Bio-Sensing Applications

NASA Astrophysics Data System (ADS)

Kravets, Vira V.

Kravets, Vira V. (Ph.D., Physics). Optical properties of plasmonic nanostructures for bio-imaging and bio-sensing applications. Dissertation directed by Associate Professor Anatoliy Pinchuk. ABSTRACT. This dissertation explores the physics of free electron excitations in gold nanoparticle chains, silver nanoparticle colloids, and thin gold films. Electron excitations in nanostructures (surface plasmons, SP) are responsible for unique optical properties, which are applied in bio-sensing and bio-imaging applications. For gold nanoparticle chains, the effect of SP on resonance light absorption was studied experimentally and theoretically. Mainly, how the spectral position of the absorption peak depends on inter-particle distances. This dependence is used in “molecular rulers”, providing spatial resolution below the Rayleigh limit. The underlying theory is based on particle interaction via scattered dipole fields. Often in literature only the near-field component of the scattered field is considered. Here, I show that middle and far fields should not be neglected for calculation of extinction by particle chains. In silver nanoparticles, SP excitations produce two independent effects: (a) the intrinsic fluorescence of the particles, and (b) the enhancement of a molecule’s fluorescence by a particle’s surface. The mechanism of (a) is deduced by studying how fluorescence depends on particle size. For (b), I show that fluorescence of a dye molecule on the surface of a nanoparticle is enhanced, when compared to that of the free-standing dye. I demonstrate that the dye’s fluorescent quantum yield is dependent on the particle’s size, making labeled silver nanoparticles attractive candidates as bio-imaging agents. Labeled nanoparticles are applied to cell imaging, and their bio-compatibility with two cell lines is evaluated here. Finally, in gold films under attenuated total internal reflection (ATR) conditions, the SP create a propagating wave (SP-polariton, SPP) when coupled with the incident light. Because of the sensitivity of SPPs to the medium adjacent to the gold film surface, they are widely applied in bio-sensing applications. A toolbox for the description of sputter-deposited gold films is presented here: it employs three experimental techniques (ATR, transmittance and atomic force microscopy) in combination with the effective medium theory for double-layered film model. Our findings have allowed for the avoidance of superficial fitting parameters in our model.

A new bio-inspired, population-level approach to the socioeconomic evolution of dynamic spectrum access services

NASA Astrophysics Data System (ADS)

Horvath, Denis; Gazda, Juraj; Brutovsky, Branislav

Evolutionary species and quasispecies models provide the universal and flexible basis for a large-scale description of the dynamics of evolutionary systems, which can be built conceived as a constraint satisfaction dynamics. It represents a general framework to design and study many novel, technologically contemporary models and their variants. Here, we apply the classical quasispecies concept to model the emerging dynamic spectrum access (DSA) markets. The theory describes the mechanisms of mimetic transfer, competitive interactions between socioeconomic strata of the end-users, their perception of the utility and inter-operator switching in the variable technological environments of the operators offering the wireless spectrum services. The algorithmization and numerical modeling demonstrate the long-term evolutionary socioeconomic changes which reflect the end-user preferences and results of the majorization of their irrational decisions in the same manner as the prevailing tendencies which are embodied in the efficient market hypothesis.

Phylogenetics and evolution of Trx SET genes in fully sequenced land plants.

PubMed

Zhu, Xinyu; Chen, Caoyi; Wang, Baohua

2012-04-01

Plant Trx SET proteins are involved in H3K4 methylation and play a key role in plant floral development. Genes encoding Trx SET proteins constitute a multigene family in which the copy number varies among plant species and functional divergence appears to have occurred repeatedly. To investigate the evolutionary history of the Trx SET gene family, we made a comprehensive evolutionary analysis on this gene family from 13 major representatives of green plants. A novel clustering (here named as cpTrx clade), which included the III-1, III-2, and III-4 orthologous groups, previously resolved was identified. Our analysis showed that plant Trx proteins possessed a variety of domain organizations and gene structures among paralogs. Additional domains such as PHD, PWWP, and FYR were early integrated into primordial SET-PostSET domain organization of cpTrx clade. We suggested that the PostSET domain was lost in some members of III-4 orthologous group during the evolution of land plants. At least four classes of gene structures had been formed at the early evolutionary stage of land plants. Three intronless orphan Trx SET genes from the Physcomitrella patens (moss) were identified, and supposedly, their parental genes have been eliminated from the genome. The structural differences among evolutionary groups of plant Trx SET genes with different functions were described, contributing to the design of further experimental studies.

An open future for ecological and evolutionary data?

PubMed

Kenall, Amye; Harold, Simon; Foote, Christopher

2014-04-02

As part of BioMed Central's open science mission, we are pleased to announce that two of our journals have integrated with the open data repository Dryad. Authors submitting their research to either BMC Ecology or BMC Evolutionary Biology will now have the opportunity to deposit their data directly into the Dryad archive and will receive a permanent, citable link to their dataset. Although this does not affect any of our current data deposition policies at these journals, we hope to encourage a more widespread adoption of open data sharing in the fields of ecology and evolutionary biology by facilitating this process for our authors. We also take this opportunity to discuss some of the wider issues that may concern researchers when making their data openly available. Although we offer a number of positive examples from different fields of biology, we also recognise that reticence to data sharing still exists, and that change must be driven from within research communities in order to create future science that is fit for purpose in the digital age. This editorial was published jointly in both BMC Ecology and BMC Evolutionary Biology.

BioJazz: in silico evolution of cellular networks with unbounded complexity using rule-based modeling.

PubMed

Feng, Song; Ollivier, Julien F; Swain, Peter S; Soyer, Orkun S

2015-10-30

Systems biologists aim to decipher the structure and dynamics of signaling and regulatory networks underpinning cellular responses; synthetic biologists can use this insight to alter existing networks or engineer de novo ones. Both tasks will benefit from an understanding of which structural and dynamic features of networks can emerge from evolutionary processes, through which intermediary steps these arise, and whether they embody general design principles. As natural evolution at the level of network dynamics is difficult to study, in silico evolution of network models can provide important insights. However, current tools used for in silico evolution of network dynamics are limited to ad hoc computer simulations and models. Here we introduce BioJazz, an extendable, user-friendly tool for simulating the evolution of dynamic biochemical networks. Unlike previous tools for in silico evolution, BioJazz allows for the evolution of cellular networks with unbounded complexity by combining rule-based modeling with an encoding of networks that is akin to a genome. We show that BioJazz can be used to implement biologically realistic selective pressures and allows exploration of the space of network architectures and dynamics that implement prescribed physiological functions. BioJazz is provided as an open-source tool to facilitate its further development and use. Source code and user manuals are available at: http://oss-lab.github.io/biojazz and http://osslab.lifesci.warwick.ac.uk/BioJazz.aspx. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

Bio-optimized energy transfer in densely packed fluorescent protein enables near-maximal luminescence and solid-state lasers.

PubMed

Gather, Malte C; Yun, Seok Hyun

2014-12-08

Bioluminescent organisms are likely to have an evolutionary drive towards high radiance. As such, bio-optimized materials derived from them hold great promise for photonic applications. Here, we show that biologically produced fluorescent proteins retain their high brightness even at the maximum density in solid state through a special molecular structure that provides optimal balance between high protein concentration and low resonance energy transfer self-quenching. Dried films of green fluorescent protein show low fluorescence quenching (-7 dB) and support strong optical amplification (gnet=22 cm(-1); 96 dB cm(-1)). Using these properties, we demonstrate vertical cavity surface emitting micro-lasers with low threshold (<100 pJ, outperforming organic semiconductor lasers) and self-assembled all-protein ring lasers. Moreover, solid-state blends of different proteins support efficient Förster resonance energy transfer, with sensitivity to intermolecular distance thus allowing all-optical sensing. The design of fluorescent proteins may be exploited for bio-inspired solid-state luminescent molecules or nanoparticles.

Bio-optimized energy transfer in densely packed fluorescent protein enables near-maximal luminescence and solid-state lasers

PubMed Central

Gather, Malte C.; Yun, Seok Hyun

2015-01-01

Bioluminescent organisms are likely to have an evolutionary drive towards high radiance. As such, bio-optimized materials derived from them hold great promise for photonic applications. Here we show that biologically produced fluorescent proteins retain their high brightness even at the maximum density in solid state through a special molecular structure that provides optimal balance between high protein concentration and low resonance energy transfer self-quenching. Dried films of green fluorescent protein show low fluorescence quenching (−7 dB) and support strong optical amplification (gnet = 22 cm−1; 96 dB cm−1). Using these properties, we demonstrate vertical cavity surface emitting micro-lasers with low threshold (<100 pJ, outperforming organic semiconductor lasers) and self-assembled all-protein ring lasers. Moreover, solid-state blends of different proteins support efficient Förster resonance energy transfer, with sensitivity to intermolecular distance thus allowing all-optical sensing. The design of fluorescent proteins may be exploited for bio-inspired solid-state luminescent molecules or nanoparticles. PMID:25483850

Bio-inspired, large scale, highly-scattering films for nanoparticle-alternative white surfaces

PubMed Central

Syurik, Julia; Siddique, Radwanul Hasan; Dollmann, Antje; Gomard, Guillaume; Schneider, Marc; Worgull, Matthias; Wiegand, Gabriele; Hölscher, Hendrik

2017-01-01

Inspired by the white beetle of the genus Cyphochilus, we fabricate ultra-thin, porous PMMA films by foaming with CO2 saturation. Optimising pore diameter and fraction in terms of broad-band reflectance results in very thin films with exceptional whiteness. Already films with 60 µm-thick scattering layer feature a whiteness with a reflectance of 90%. Even 9 µm thin scattering layers appear white with a reflectance above 57%. The transport mean free path in the artificial films is between 3.5 µm and 4 µm being close to the evolutionary optimised natural prototype. The bio-inspired white films do not lose their whiteness during further shaping, allowing for various applications. PMID:28429805

Ship and satellite bio-optical research in the California Bight

NASA Technical Reports Server (NTRS)

Smith, R. C.; Baker, K. S.

1982-01-01

Mesoscale biological patterns and processes in productive coastal waters were studied. The physical and biological processes leading to chlorophyll variability were investigated. The ecological and evolutionary significance of this variability, and its relation to the prediction of fish recruitment and marine mammal distributions was studied. Seasonal primary productivity (using chlorophyll as an indication of phytoplankton biomass) for the entire Southern California Bight region was assessed. Complementary and contemporaneous ship and satellite (Nimbus 7-CZCS) bio-optical data from the Southern California Bight and surrounding waters were obtained and analyzed. These data were also utilized for the development of multi-platform sampling strategies and the optimization of algorithms for the estimation of phytoplankton biomass and primary production from satellite imagery.

Bio-inspired, large scale, highly-scattering films for nanoparticle-alternative white surfaces

NASA Astrophysics Data System (ADS)

Syurik, Julia; Siddique, Radwanul Hasan; Dollmann, Antje; Gomard, Guillaume; Schneider, Marc; Worgull, Matthias; Wiegand, Gabriele; Hölscher, Hendrik

2017-04-01

Inspired by the white beetle of the genus Cyphochilus, we fabricate ultra-thin, porous PMMA films by foaming with CO2 saturation. Optimising pore diameter and fraction in terms of broad-band reflectance results in very thin films with exceptional whiteness. Already films with 60 µm-thick scattering layer feature a whiteness with a reflectance of 90%. Even 9 µm thin scattering layers appear white with a reflectance above 57%. The transport mean free path in the artificial films is between 3.5 µm and 4 µm being close to the evolutionary optimised natural prototype. The bio-inspired white films do not lose their whiteness during further shaping, allowing for various applications.

UAV Swarm Mission Planning Development Using Evolutionary Algorithms - Part I

DTIC Science & Technology

2008-05-01

desired behaviors in autonomous vehicles is a difficult problem at best and in general prob- ably impossible to completely resolve in complex dynamic...associated behaviors. Various techniques inspired by biological self-organized systems as found in forging insects and flocking birds, revolve around...swarms of heterogeneous vehicles in a distributed simulation system with animated graphics. Statistical measurements and observations indicate that bio

LIFT Tenant Is Off and Running

NASA Technical Reports Server (NTRS)

Steele, Gynelle C.

2001-01-01

Lewis Incubator for Technology (LIFT) tenant, Analiza Inc., graduated from the incubator July 2000. Analiza develops technology and products for the early diagnosis of diseases, quality control of bio-pharmaceutical therapeutics, and other applications involving protein analyses. Technology links with NASA from existing and planned work are in areas of microfluidics and laser light scattering. Since their entry in LIFT in May, 1997, Analiza has: Received a $750,000 grant from the National Institutes of Health. Collaborated with a Nobel Prize winner on drug design. Collaborated with Bristol-Myers Squibb on the characterization of biological therapeutics. Added a Ph.D. senior scientist and several technicians. Received significant interest from major pharmaceutical companies about collaborating and acquiring Analiza technology.

From Extremophiles to Star Trek, The Use of Synthetic Biology in Astrobiology

NASA Technical Reports Server (NTRS)

Rothschild, Lynn J.; Fujishima, Kosuke; Lima, Ivan Paulino; Gentry, Diana; Phan, Samson; Navarette, Jesica; Palmer, Jesse; Burnier, Andre

2012-01-01

Synthetic biology – the design and construction of new biological parts and systems and the redesign of existing ones for useful purposes – has the potential to transform fields from pharmaceuticals to fuels. Our lab has focused on the potential of synthetic biology to revolutionize all three major parts of astrobiology: Where do we come from? Where are we going? and Are we alone? For the first and third, synthetic biology is allowing us to answer whether the evolutionary narrative that has played out on planet earth is likely to have been unique or universal. For example, in our lab we are re-evolving biotic functions using only the most thermodynamically stable amino acids in order to understand potential capabilities of an early organism with a limited repertoire of amino acids. In the future synthetic biology will play an increasing role in human activities both on earth, in fields as diverse as bio-mining, human health and the industrial production of novel bio-composites. Beyond earth, we will rely increasingly on biologically-provided life support, as we have throughout our evolutionary history. In order to do this, the field will build on two of the great contributions of astrobiology: studies of the origin of life and life in extreme environments.

SpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes.

PubMed

Bielejec, Filip; Baele, Guy; Vrancken, Bram; Suchard, Marc A; Rambaut, Andrew; Lemey, Philippe

2016-08-01

Model-based phylogenetic reconstructions increasingly consider spatial or phenotypic traits in conjunction with sequence data to study evolutionary processes. Alongside parameter estimation, visualization of ancestral reconstructions represents an integral part of these analyses. Here, we present a complete overhaul of the spatial phylogenetic reconstruction of evolutionary dynamics software, now called SpreaD3 to emphasize the use of data-driven documents, as an analysis and visualization package that primarily complements Bayesian inference in BEAST (http://beast.bio.ed.ac.uk, last accessed 9 May 2016). The integration of JavaScript D3 libraries (www.d3.org, last accessed 9 May 2016) offers novel interactive web-based visualization capacities that are not restricted to spatial traits and extend to any discrete or continuously valued trait for any organism of interest. © The Author 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Precision medicine in chronic disease management: the MS BioScreen

PubMed Central

Gourraud, Pierre-Antoine; Henry, Roland; Cree, Bruce AC; Crane, Jason C; Lizee, Antoine; Olson, Marram P; Santaniello, Adam V.; Datta, Esha; Zhu, Alyssa H.; Bevan, Carolyn J.; Gelfand, Jeffrey M.; Graves, Jennifer A.; Goodin, Douglas E.; Green, Ari; von Büdingen, H.-Christian; Waubant, Emmanuelle; Zamvil, Scott S.; Crabtree-Hartman, Elizabeth; Nelson, Sarah; Baranzini, Sergio E.; Hauser, Stephen L.

2014-01-01

We present a precision medicine application developed for multiple sclerosis (MS): the MS BioScreen. This new tool addresses the challenges of dynamic management of a complex chronic disease; the interaction of clinicians and patients with such a tool illustrates the extent to which translational digital medicine – i.e. the application of information technology to medicine—has the potential to radically transform medical practice. We introduce three key evolutionary phases in displaying data to health care providers, patients, and researchers: visualization (accessing data), contextualization (understanding the data), and actionable interpretation (real-time use of the data to assist decision-making). Together these form the stepping-stones that are expected to accelerate standardization of data across platforms, promote evidence-based medicine, support shared decision-making, and ultimately lead to improved outcomes. PMID:25263997

Transmissible cancers in an evolutionary context.

PubMed

Ujvari, Beata; Papenfuss, Anthony T; Belov, Katherine

2016-07-01

Cancer is an evolutionary and ecological process in which complex interactions between tumour cells and their environment share many similarities with organismal evolution. Tumour cells with highest adaptive potential have a selective advantage over less fit cells. Naturally occurring transmissible cancers provide an ideal model system for investigating the evolutionary arms race between cancer cells and their surrounding micro-environment and macro-environment. However, the evolutionary landscapes in which contagious cancers reside have not been subjected to comprehensive investigation. Here, we provide a multifocal analysis of transmissible tumour progression and discuss the selection forces that shape it. We demonstrate that transmissible cancers adapt to both their micro-environment and macro-environment, and evolutionary theories applied to organisms are also relevant to these unique diseases. The three naturally occurring transmissible cancers, canine transmissible venereal tumour (CTVT) and Tasmanian devil facial tumour disease (DFTD) and the recently discovered clam leukaemia, exhibit different evolutionary phases: (i) CTVT, the oldest naturally occurring cell line is remarkably stable; (ii) DFTD exhibits the signs of stepwise cancer evolution; and (iii) clam leukaemia shows genetic instability. While all three contagious cancers carry the signature of ongoing and fairly recent adaptations to selective forces, CTVT appears to have reached an evolutionary stalemate with its host, while DFTD and the clam leukaemia appear to be still at a more dynamic phase of their evolution. Parallel investigation of contagious cancer genomes and transcriptomes and of their micro-environment and macro-environment could shed light on the selective forces shaping tumour development at different time points: during the progressive phase and at the endpoint. A greater understanding of transmissible cancers from an evolutionary ecology perspective will provide novel avenues for the prevention and treatment of both contagious and non-communicable cancers. © 2016 The Authors. BioEssays published by WILEY Periodicals, Inc.

Precision medicine in chronic disease management: The multiple sclerosis BioScreen.

PubMed

Gourraud, Pierre-Antoine; Henry, Roland G; Cree, Bruce A C; Crane, Jason C; Lizee, Antoine; Olson, Marram P; Santaniello, Adam V; Datta, Esha; Zhu, Alyssa H; Bevan, Carolyn J; Gelfand, Jeffrey M; Graves, Jennifer S; Goodin, Douglas S; Green, Ari J; von Büdingen, H-Christian; Waubant, Emmanuelle; Zamvil, Scott S; Crabtree-Hartman, Elizabeth; Nelson, Sarah; Baranzini, Sergio E; Hauser, Stephen L

2014-11-01

We present a precision medicine application developed for multiple sclerosis (MS): the MS BioScreen. This new tool addresses the challenges of dynamic management of a complex chronic disease; the interaction of clinicians and patients with such a tool illustrates the extent to which translational digital medicine-that is, the application of information technology to medicine-has the potential to radically transform medical practice. We introduce 3 key evolutionary phases in displaying data to health care providers, patients, and researchers: visualization (accessing data), contextualization (understanding the data), and actionable interpretation (real-time use of the data to assist decision making). Together, these form the stepping stones that are expected to accelerate standardization of data across platforms, promote evidence-based medicine, support shared decision making, and ultimately lead to improved outcomes. © 2014 American Neurological Association.

A framework for evolutionary systems biology

PubMed Central

Loewe, Laurence

2009-01-01

Background Many difficult problems in evolutionary genomics are related to mutations that have weak effects on fitness, as the consequences of mutations with large effects are often simple to predict. Current systems biology has accumulated much data on mutations with large effects and can predict the properties of knockout mutants in some systems. However experimental methods are too insensitive to observe small effects. Results Here I propose a novel framework that brings together evolutionary theory and current systems biology approaches in order to quantify small effects of mutations and their epistatic interactions in silico. Central to this approach is the definition of fitness correlates that can be computed in some current systems biology models employing the rigorous algorithms that are at the core of much work in computational systems biology. The framework exploits synergies between the realism of such models and the need to understand real systems in evolutionary theory. This framework can address many longstanding topics in evolutionary biology by defining various 'levels' of the adaptive landscape. Addressed topics include the distribution of mutational effects on fitness, as well as the nature of advantageous mutations, epistasis and robustness. Combining corresponding parameter estimates with population genetics models raises the possibility of testing evolutionary hypotheses at a new level of realism. Conclusion EvoSysBio is expected to lead to a more detailed understanding of the fundamental principles of life by combining knowledge about well-known biological systems from several disciplines. This will benefit both evolutionary theory and current systems biology. Understanding robustness by analysing distributions of mutational effects and epistasis is pivotal for drug design, cancer research, responsible genetic engineering in synthetic biology and many other practical applications. PMID:19239699

The state of the Java universe

ScienceCinema

Gosling, James

2018-05-22

Speaker Bio: James Gosling received a B.Sc. in computer science from the University of Calgary, Canada in 1977. He received a Ph.D. in computer science from Carnegie-Mellon University in 1983. The title of his thesis was The Algebraic Manipulation of Constraints. He has built satellite data acquisition systems, a multiprocessor version of UNIX®, several compilers, mail systems, and window managers. He has also built a WYSIWYG text editor, a constraint-based drawing editor, and a text editor called Emacs, for UNIX systems. At Sun his early activity was as lead engineer of the NeWS window system. He did the original design of the Java programming language and implemented its original compiler and virtual machine. He has recently been a contributor to the Real-Time Specification for Java.

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

Gosling, James

Speaker Bio: James Gosling received a B.Sc. in computer science from the University of Calgary, Canada in 1977. He received a Ph.D. in computer science from Carnegie-Mellon University in 1983. The title of his thesis was The Algebraic Manipulation of Constraints. He has built satellite data acquisition systems, a multiprocessor version of UNIX®, several compilers, mail systems, and window managers. He has also built a WYSIWYG text editor, a constraint-based drawing editor, and a text editor called Emacs, for UNIX systems. At Sun his early activity was as lead engineer of the NeWS window system. He did the original designmore » of the Java programming language and implemented its original compiler and virtual machine. He has recently been a contributor to the Real-Time Specification for Java.« less

Armours for soft bodies: how far can bioinspiration take us?

PubMed

White, Zachary W; Vernerey, Franck J

2018-05-15

The development of armour is as old as the dawn of civilization. Early man looked to natural structures to harvest or replicate for protection, leaning on millennia of evolutionary developments in natural protection. Since the advent of more modern weaponry, Armor development has seemingly been driven more by materials research than bio-inspiration. However, parallels can still be drawn between modern bullet-protective armours and natural defensive structures. Soft armour for handgun and fragmentation threats can be likened to mammalian skin, and similarly, hard armour can be compared with exoskeletons and turtle shells. Via bio-inspiration, it may be possible to develop structures previously un-researched for ballistic protection. This review will cover current modern ballistic protective structures focusing on energy dissipation and absorption methods, and their natural analogues. As all armour is a compromise between weight, flexibility and protection, the imbricated structure of scaled skin will be presented as a better balance between these factors.

LoRTE: Detecting transposon-induced genomic variants using low coverage PacBio long read sequences.

PubMed

Disdero, Eric; Filée, Jonathan

2017-01-01

Population genomic analysis of transposable elements has greatly benefited from recent advances of sequencing technologies. However, the short size of the reads and the propensity of transposable elements to nest in highly repeated regions of genomes limits the efficiency of bioinformatic tools when Illumina or 454 technologies are used. Fortunately, long read sequencing technologies generating read length that may span the entire length of full transposons are now available. However, existing TE population genomic softwares were not designed to handle long reads and the development of new dedicated tools is needed. LoRTE is the first tool able to use PacBio long read sequences to identify transposon deletions and insertions between a reference genome and genomes of different strains or populations. Tested against simulated and genuine Drosophila melanogaster PacBio datasets, LoRTE appears to be a reliable and broadly applicable tool to study the dynamic and evolutionary impact of transposable elements using low coverage, long read sequences. LoRTE is an efficient and accurate tool to identify structural genomic variants caused by TE insertion or deletion. LoRTE is available for download at http://www.egce.cnrs-gif.fr/?p=6422.

A Crash Course in Science Radio Reporting

NASA Astrophysics Data System (ADS)

Schielke, Erika

2009-12-01

This past summer, 5 weeks after defending my doctoral dissertation, I traded my lab bench and field sampling gear for a radio reporter's recorder and a microphone, and I headed west. As a graduate student at Yale University in New Haven, Conn., I had seen great science going on all around me, but the public was unaware of most of it. Having dabbled in science writing while finishing my Ph.D. in ecology and evolutionary biology, I was looking for ways to gain more experience in science communication and even had been considering pursuing a career in science reporting. Then a remarkable opportunity opened up that took me to Greeley, Colo., covering science stories at KUNC, a National Public Radio affiliate, for 10 weeks this past summer.

Evolutionary concepts in biobanking - the BC BioLibrary

PubMed Central

2009-01-01

Background Medical research to improve health care faces a major problem in the relatively limited availability of adequately annotated and collected biospecimens. This limitation is creating a growing gap between the pace of scientific advances and successful exploitation of this knowledge. Biobanks are an important conduit for transfer of biospecimens (tissues, blood, body fluids) and related health data to research. They have evolved outside of the historical source of tissue biospecimens, clinical pathology archives. Research biobanks have developed advanced standards, protocols, databases, and mechanisms to interface with researchers seeking biospecimens. However, biobanks are often limited in their capacity and ability to ensure quality in the face of increasing demand. Our strategy to enhance both capacity and quality in research biobanking is to create a new framework that repatriates the activity of biospecimen accrual for biobanks to clinical pathology. Methods The British Columbia (BC) BioLibrary is a framework to maximize the accrual of high-quality, annotated biospecimens into biobanks. The BC BioLibrary design primarily encompasses: 1) specialized biospecimen collection units embedded within clinical pathology and linked to a biospecimen distribution system that serves biobanks; 2) a systematic process to connect potential donors with biobanks, and to connect biobanks with consented biospecimens; and 3) interdisciplinary governance and oversight informed by public opinion. Results The BC BioLibrary has been embraced by biobanking leaders and translational researchers throughout BC, across multiple health authorities, institutions, and disciplines. An initial pilot network of three Biospecimen Collection Units has been successfully established. In addition, two public deliberation events have been held to obtain input from the public on the BioLibrary and on issues including consent, collection of biospecimens and governance. Conclusion The BC BioLibrary framework addresses common issues for clinical pathology, biobanking, and translational research across multiple institutions and clinical and research domains. We anticipate that our framework will lead to enhanced biospecimen accrual capacity and quality, reduced competition between biobanks, and a transparent process for donors that enhances public trust in biobanking. PMID:19909513

Mathematics and evolutionary biology make bioinformatics education comprehensible.

PubMed

Jungck, John R; Weisstein, Anton E

2013-09-01

The patterns of variation within a molecular sequence data set result from the interplay between population genetic, molecular evolutionary and macroevolutionary processes-the standard purview of evolutionary biologists. Elucidating these patterns, particularly for large data sets, requires an understanding of the structure, assumptions and limitations of the algorithms used by bioinformatics software-the domain of mathematicians and computer scientists. As a result, bioinformatics often suffers a 'two-culture' problem because of the lack of broad overlapping expertise between these two groups. Collaboration among specialists in different fields has greatly mitigated this problem among active bioinformaticians. However, science education researchers report that much of bioinformatics education does little to bridge the cultural divide, the curriculum too focused on solving narrow problems (e.g. interpreting pre-built phylogenetic trees) rather than on exploring broader ones (e.g. exploring alternative phylogenetic strategies for different kinds of data sets). Herein, we present an introduction to the mathematics of tree enumeration, tree construction, split decomposition and sequence alignment. We also introduce off-line downloadable software tools developed by the BioQUEST Curriculum Consortium to help students learn how to interpret and critically evaluate the results of standard bioinformatics analyses.

Mathematics and evolutionary biology make bioinformatics education comprehensible

PubMed Central

Weisstein, Anton E.

2013-01-01

The patterns of variation within a molecular sequence data set result from the interplay between population genetic, molecular evolutionary and macroevolutionary processes—the standard purview of evolutionary biologists. Elucidating these patterns, particularly for large data sets, requires an understanding of the structure, assumptions and limitations of the algorithms used by bioinformatics software—the domain of mathematicians and computer scientists. As a result, bioinformatics often suffers a ‘two-culture’ problem because of the lack of broad overlapping expertise between these two groups. Collaboration among specialists in different fields has greatly mitigated this problem among active bioinformaticians. However, science education researchers report that much of bioinformatics education does little to bridge the cultural divide, the curriculum too focused on solving narrow problems (e.g. interpreting pre-built phylogenetic trees) rather than on exploring broader ones (e.g. exploring alternative phylogenetic strategies for different kinds of data sets). Herein, we present an introduction to the mathematics of tree enumeration, tree construction, split decomposition and sequence alignment. We also introduce off-line downloadable software tools developed by the BioQUEST Curriculum Consortium to help students learn how to interpret and critically evaluate the results of standard bioinformatics analyses. PMID:23821621

Morphogenesis and mechanostabilization of complex natural and 3D printed shapes

PubMed Central

Tiwary, Chandra Sekhar; Kishore, Sharan; Sarkar, Suman; Mahapatra, Debiprosad Roy; Ajayan, Pulickel M.; Chattopadhyay, Kamanio

2015-01-01

The natural selection and the evolutionary optimization of complex shapes in nature are closely related to their functions. Mechanostabilization of shape of biological structure via morphogenesis has several beautiful examples. With the help of simple mechanics-based modeling and experiments, we show an important causality between natural shape selection as evolutionary outcome and the mechanostabilization of seashells. The effect of biological growth on the mechanostabilization process is identified with examples of two natural shapes of seashells, one having a diametrically converging localization of stresses and the other having a helicoidally concentric localization of stresses. We demonstrate how the evolved shape enables predictable protection of soft body parts of the species. The effect of bioavailability of natural material is found to be a secondary factor compared to shape selectivity, where material microstructure only acts as a constraint to evolutionary optimization. This is confirmed by comparing the mechanostabilization behavior of three-dimensionally printed synthetic polymer structural shapes with that of natural seashells consisting of ceramic and protein. This study also highlights interesting possibilities in achieving a new design of structures made of ordinary materials which have bio-inspired optimization objectives. PMID:26601170

A Novel Phenanthrene Dioxygenase from Nocardioides sp. Strain KP7: Expression in Escherichia coli

PubMed Central

Saito, Atsushi; Iwabuchi, Tokuro; Harayama, Shigeaki

2000-01-01

Nocardioides sp. strain KP7 grows on phenanthrene but not on naphthalene. This organism degrades phenanthrene via 1-hydroxy-2-naphthoate, o-phthalate, and protocatechuate. The genes responsible for the degradation of phenanthrene to o-phthalate (phd) were found by Southern hybridization to reside on the chromosome. A 10.6-kb DNA fragment containing eight phd genes was cloned and sequenced. The phdA, phdB, phdC, and phdD genes, which encode the α and β subunits of the oxygenase component, a ferredoxin, and a ferredoxin reductase, respectively, of phenanthrene dioxygenase were identified. The gene cluster, phdAB, was located 8.3 kb downstream of the previously characterized phdK gene, which encodes 2-carboxybenzaldehyde dehydrogenase. The phdCD gene cluster was located 2.9 kb downstream of the phdB gene. PhdA and PhdB exhibited moderate (less than 60%) sequence identity to the α and β subunits of other ring-hydroxylating dioxygenases. The PhdC sequence showed features of a [3Fe-4S] or [4Fe-4S] type of ferredoxin, not of the [2Fe-2S] type of ferredoxin that has been found in most of the reported ring-hydroxylating dioxygenases. PhdD also showed moderate (less than 40%) sequence identity to known reductases. The phdABCD genes were expressed poorly in Escherichia coli, even when placed under the control of strong promoters. The introduction of a Shine-Dalgarno sequence upstream of each initiation codon of the phdABCD genes improved their expression in E. coli. E. coli cells carrying phdBCD or phdACD exhibited no phenanthrene-degrading activity, and those carrying phdABD or phdABC exhibited phenanthrene-degrading activity which was significantly less than that in cells carrying the phdABCD genes. It was thus concluded that all of the phdABCD genes are necessary for the efficient expression of phenanthrene-degrading activity. The genetic organization of the phd genes, the phylogenetically diverged positions of these genes, and an unusual type of ferredoxin component suggest phenanthrene dioxygenase in Nocardioides sp. strain KP7 to be a new class of aromatic ring-hydroxylating dioxygenases. PMID:10735855

Guinevere's choice.

PubMed

Nesse, M H

1995-06-01

This paper examines four retellings of the Arthurian legend of Guinevere and Lancelot from a bio-evolutionary perspective. The historical and social conditions which provide contexts for the retellings are described, and those conditions are related to underlying male and female reproductive strategies. Since the authors of the selected texts, Chrétien de Troyes, Thomas Malory, Alfred Lord Tennyson, and William Morris, are all male, the assumption is made that these versions of the legend reflect male reproductive preoccupations and encode male attitudes toward femaleness in general and toward female adultery in particular.

NCCU/BBRI-Duke/Urology Partnership in Prostate Cancer Research

DTIC Science & Technology

2008-06-01

Somnath Muhopadhyay, Ph.D.; Joellen Schildkraut, Ph.D.; David Tulis , Ph.D.; Leon Sun, Ph.D.; Lee Jones, Ph.D.; Phillip 5e. TASK NUMBER Febbo, Ph.D...Community-Based Intervention Investigators: Dave Tulis Ph.D., NCCU/BBRI Collaborators: Catherine Hoyo, PhD; Lee Jones, PhD; Stephen Freeland...addition, Dr. David Tulis (NCCU PI) who was working on the exercise project with Dr. Lee Jones (Duke PI), has recently accepted a position at East Carolina

Senescence in natural populations of animals: Widespread evidence and its implications for bio-gerontology

PubMed Central

Nussey, Daniel H.; Froy, Hannah; Lemaitre, Jean-François; Gaillard, Jean-Michel; Austad, Steve N.

2014-01-01

That senescence is rarely, if ever, observed in natural populations is an oft-quoted fallacy within bio-gerontology. We identify the roots of this fallacy in the otherwise seminal works of Medawar and Comfort, and explain that under antagonistic pleiotropy or disposable soma explanations for the evolution of senescence there is no reason why senescence cannot evolve to be manifest within the life expectancies of wild organisms. The recent emergence of long-term field studies presents irrefutable evidence that senescence is commonly detected in nature. We found such evidence in 175 different animal species from 340 separate studies. Although the bulk of this evidence comes from birds and mammals, we also found evidence for senescence in other vertebrates and insects. We describe how high-quality longitudinal field data allow us to test evolutionary explanations for differences in senescence between the sexes and among traits and individuals. Recent studies indicate that genes, prior environment and investment in growth and reproduction influence aging rates in the wild. We argue that – with the fallacy that wild animals do not senesce finally dead and buried – collaborations between bio-gerontologists and field biologists can begin to test the ecological generality of purportedly ‘public’ mechanisms regulating aging in laboratory models. PMID:22884974

Development of advanced technologies for biomass pyrolysis

NASA Astrophysics Data System (ADS)

Xu, Ran

The utilization of biomass resources as a renewable energy resource is of great importance in responding to concerns over the protection of the environment and the security of energy supply. This PhD research focuses on the investigation of the conversion of negative value biomass residues into value-added fuels through flash pyrolysis. Pyrolysis Process Study. A pilot plant bubbling fluidized bed pyrolyzer has been set up and extensively used to thermally crack various low or negative value agricultural, food and biofuel processing residues to investigate the yields and quality of the liquid [bio-oil] and solid (bio-char] products. Another novel aspect of this study is the establishment of an energy balance from which the thermal self-sustainability of the pyrolysis process can be assessed. Residues such as grape skins and mixture of grape skins and seeds, dried distiller's grains from bio-ethanol plants, sugarcane field residues (internal bagasse, external and whole plant) have been tested. The pyrolysis of each residue has been carried out at temperatures ranging from 300 to 600°C and at different vapor residence times, to determine its pyrolysis behavior including yields and the overall energy balance. The thermal sustainability of the pyrolysis process has been estimated by considering the energy contribution of the product gases and liquid bio-oll in relation to the pyrolysis heat requirements. The optimum pyrolysis conditions have been identified in terms of maximizing the liquid blo-oil yield, energy density and content of the product blo-oil, after ensuring a self-sustainable process by utilizing the product gases and part of char or bio-oil as heat sources. Adownflow pyrolyzer has also been set up. Preliminary tests have been conducted using much shorter residence times. Bio-oil Recovery. Bio-oil recovery from the pyrolysis unit includes condensation followed by demisting. A blo-oil cyclonic condensing system is designed A nearly tangential entry forces the entering vapors and gases to spin, providing good heat transfer and driving the condensed droplets to the wall through cyclonic action. This condenser design has been successfully demonstrated for the application on the pilot fluidized bed pyrolysis unit. After condensation, a stable aerosol is also typically formed which is difficult to be efficiently captured with conventional technologies. A pilot scale helicoidal rotary demister, a novel technology for removing persistent fine bio-oil droplets from gases using dynamic centrifugal forces, has been developed. The demister uses a helicoidal element, which consists of a metal sheet wound as a spiral, designed to rotate at high speeds within a cyclone body. Larger droplets are separated as they enter the cyclone housing, while the smaller droplets are carried by the gas into the helicoidal path of the rotating element, where they are centrifuged towards the outer collecting walls and, as a result of a specially designed baffle, may flow counter-currently to the gas and are drained out from the bottom of the rotating element. The mist-free gas leaves through a channel located at the center of the spiral. This unique demister design has demonstrated a high separation efficiency when tested offline with artificial submicron mist and tested online for demisting bio-oil aerosol on the pyrolysis unit. Bio-oil Upgrading: Very often, phase separation of bio-oil occurs naturally upon condensation of the bio-oil vapors, typically through the use of cyclonic condensers. The bio-oil is separated into an organic phase and an aqueous phase. Research has been conducted on the possibility to enhance the fuel properties and energy performance of the organic phase by reducing its water content, enhancing its heating value and improving its stability. Through the use of drying agents, a remarkable reduction of water content and an increase of heating value can be achieved. Moreover, the volumetric energy density can be greatly enhanced. Besides, the energy yield of the process has also been investigated. (Abstract shortened by UMI.)

Distinct subpopulations of FOXD1 stroma-derived cells regulate renal erythropoietin

PubMed Central

Liu, Qingdu; Binns, Thomas C.; Davidoff, Olena; Kapitsinou, Pinelopi P.; Pfaff, Andrew S.; Olauson, Hannes; Fogo, Agnes B.; Fong, Guo-Hua; Gross, Kenneth W.

2016-01-01

Renal peritubular interstitial fibroblast-like cells are critical for adult erythropoiesis, as they are the main source of erythropoietin (EPO). Hypoxia-inducible factor 2 (HIF-2) controls EPO synthesis in the kidney and liver and is regulated by prolyl-4-hydroxylase domain (PHD) dioxygenases PHD1, PHD2, and PHD3, which function as cellular oxygen sensors. Renal interstitial cells with EPO-producing capacity are poorly characterized, and the role of the PHD/HIF-2 axis in renal EPO-producing cell (REPC) plasticity is unclear. Here we targeted the PHD/HIF-2/EPO axis in FOXD1 stroma-derived renal interstitial cells and examined the role of individual PHDs in REPC pool size regulation and renal EPO output. Renal interstitial cells with EPO-producing capacity were entirely derived from FOXD1-expressing stroma, and Phd2 inactivation alone induced renal Epo in a limited number of renal interstitial cells. EPO induction was submaximal, as hypoxia or pharmacologic PHD inhibition further increased the REPC fraction among Phd2–/– renal interstitial cells. Moreover, Phd1 and Phd3 were differentially expressed in renal interstitium, and heterozygous deficiency for Phd1 and Phd3 increased REPC numbers in Phd2–/– mice. We propose that FOXD1 lineage renal interstitial cells consist of distinct subpopulations that differ in their responsiveness to Phd2 inactivation and thus regulation of HIF-2 activity and EPO production under hypoxia or conditions of pharmacologic or genetic PHD inactivation. PMID:27088801

Bio-Optics and Bio-Inspired Optical Materials.

PubMed

Tadepalli, Sirimuvva; Slocik, Joseph M; Gupta, Maneesh K; Naik, Rajesh R; Singamaneni, Srikanth

2017-10-25

Through the use of the limited materials palette, optimally designed micro- and nanostructures, and tightly regulated processes, nature demonstrates exquisite control of light-matter interactions at various length scales. In fact, control of light-matter interactions is an important element in the evolutionary arms race and has led to highly engineered optical materials and systems. In this review, we present a detailed summary of various optical effects found in nature with a particular emphasis on the materials and optical design aspects responsible for their optical functionality. Using several representative examples, we discuss various optical phenomena, including absorption and transparency, diffraction, interference, reflection and antireflection, scattering, light harvesting, wave guiding and lensing, camouflage, and bioluminescence, that are responsible for the unique optical properties of materials and structures found in nature and biology. Great strides in understanding the design principles adapted by nature have led to a tremendous progress in realizing biomimetic and bioinspired optical materials and photonic devices. We discuss the various micro- and nanofabrication techniques that have been employed for realizing advanced biomimetic optical structures.

A Knock-in Mouse Model of Human PHD2 Gene-associated Erythrocytosis Establishes a Haploinsufficiency Mechanism*

PubMed Central

Arsenault, Patrick R.; Pei, Fei; Lee, Rebecca; Kerestes, Heddy; Percy, Melanie J.; Keith, Brian; Simon, M. Celeste; Lappin, Terence R. J.; Khurana, Tejvir S.; Lee, Frank S.

2013-01-01

The central pathway for controlling red cell mass is the PHD (prolyl hydroxylase domain protein):hypoxia-inducible factor (HIF) pathway. HIF, which is negatively regulated by PHD, activates numerous genes, including ones involved in erythropoiesis, such as the ERYTHROPOIETIN (EPO) gene. Recent studies have implicated PHD2 as the key PHD isoform regulating red cell mass. Studies of humans have identified erythrocytosis-associated, heterozygous point mutations in the PHD2 gene. A key question concerns the mechanism by which human mutations lead to phenotypes. In the present report, we generated and characterized a mouse line in which a P294R knock-in mutation has been introduced into the mouse Phd2 locus to model the first reported human PHD2 mutation (P317R). Phd2P294R/+ mice display a degree of erythrocytosis equivalent to that seen in Phd2+/− mice. The Phd2P294R/+-associated erythrocytosis is reversed in a Hif2a+/−, but not a Hif1a+/− background. Additional studies using various conditional knock-outs of Phd2 reveal that erythrocytosis can be induced by homozygous and heterozygous knock-out of Phd2 in renal cortical interstitial cells using a Pax3-Cre transgene or by homozygous knock-out of Phd2 in hematopoietic progenitors driven by a Vav1-Cre transgene. These studies formally prove that a missense mutation in PHD2 is the cause of the erythrocytosis, show that this occurs through haploinsufficiency, and point to multifactorial control of red cell mass by PHD2. PMID:24121508

Gold Medal Award for Life Achievement in the Science of Psychology: Lynn Nadel.

PubMed

2017-01-01

The American Psychological Foundation (APF) Gold Medal Awards recognize distinguished and engaging records of accomplishment in 4 areas of psychology. The 2017 recipient of the Gold Medal Award for Life Achievement in the Science of Psychology is Lynn Nadel, PhD. Terence M. Keane, PhD, president of the APF, will present the APF Gold Medal Awards at the 125th Annual Convention of the American Psychological Association on August 4, 2017, at 4:00 p.m. Members of the 2017 APF Board of Trustees are Terence M. Keane, PhD, president; Melba J. T. Vasquez, PhD, vice president-interim secretary; Richard C. McCarty, PhD, treasurer; Elisabeth R. Straus, executive vice president-executive director; Camilla Benbow, EdD; Rosie Phillips Bingham, PhD; Connie S. Chan; Arthur C. Evans, Jr., PhD; Linda M. Forrest, PhD; Douglas C. Haldeman, PhD; Anthony W. Jackson, PhD; Archie L. Turner; W. Bruce Walsh, PhD; and Stewart E. Cooper, PhD, APA Board of Directors liaison. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

Biomathematics in the development of personalized medicine in oncology.

PubMed

Agur, Zvia

2006-02-01

Zvia Agur is an internationally known biomathematician whose research focuses on the dynamics of cancer and infectious diseases, and on mathematical methods for identifying improved drug regimens and improved vaccination programs. She is President of the Institute for Medical BioMathematics, Israel, and the Founder, Chairperson and Chief Scientific Officer of Optimata Ltd, Israel. Professor Agur is a former president of the Israeli Society of Theoretical and Mathematical Biology (1995-2001) and a former member of the Board of Directors of the European Society of Mathematical and Theoretical Biology (1996-2002). Her innovative research has won national awards, has been published in a long list of leading scientific journals and is recognized by the academic community worldwide. She serves on the editorial board of several scientific publications, and holds a PhD from the Hebrew University, Jerusalem, and the Université Libre, Brussels.

Retention of prolyl hydroxylase PHD2 in the cytoplasm prevents PHD2-induced anchorage-independent carcinoma cell growth

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

Jokilehto, Terhi; Turku Graduate School of Biomedical Sciences, Turku; Hoegel, Heidi

2010-04-15

Cellular oxygen tension is sensed by a family of prolyl hydroxylases (PHD1-3) that regulate the degradation of hypoxia-inducible factors (HIF-1{alpha} and -2{alpha}). The PHD2 isoform is considered as the main downregulator of HIF in normoxia. Our previous results have shown that nuclear translocation of PHD2 associates with poorly differentiated tumor phenotype implying that nuclear PHD2 expression is advantageous for tumor growth. Here we show that a pool of PHD2 is shuttled between the nucleus and the cytoplasm. In line with this, accumulation of wild type PHD2 in the nucleus was detected in human colon adenocarcinomas and in cultured carcinoma cells.more » The PHD2 isoforms showing high nuclear expression increased anchorage-independent carcinoma cell growth. However, retention of PHD2 in the cytoplasm inhibited the anchorage-independent cell growth. A region that inhibits the nuclear localization of PHD2 was identified and the deletion of the region promoted anchorage-independent growth of carcinoma cells. Finally, the cytoplasmic PHD2, as compared with the nuclear PHD2, less efficiently downregulated HIF expression. Forced HIF-1{alpha} or -2{alpha} expression decreased and attenuation of HIF expression increased the anchorage-independent cell growth. However, hydroxylase-inactivating mutations in PHD2 had no effect on cell growth. The data imply that nuclear PHD2 localization promotes malignant cancer phenotype.« less

The Road to Remarkable: Directed by Vision, Driven by Strength--2010 Five-Year Report of the Policy and Planning Board

ERIC Educational Resources Information Center

American Psychologist, 2011

2011-01-01

The 2010 Policy and Planning Board of the American Psychological Association (APA) was chaired by Elena J. Eisman, EdD. Other members of the board included Gwyneth M. Boodoo, PhD; G. Rita Dudley-Grant, PhD; Beverly Greene, PhD; Christopher W. Loftis, PhD; Michael J. Murphy, PhD; Paul D. Nelson, PhD; Kurt Salzinger, PhD; and Michael Wertheimer,…

The panacea toolbox of a PhD biomedical student.

PubMed

Skaik, Younis

2014-01-01

Doing a PhD (doctor of philosophy) for the sake of contribution to knowledge should give the student an immense enthusiasm through the PhD period. It is the time in one's life that one spends to "hit the nail on the head" in a specific area and topic of interest. A PhD consists mostly of hard work and tenacity; however, luck and genius might also play a little role. You can pass all PhD phases without having both luck and genius. The PhD student should have pre-PhD and PhD toolboxes, which are "sine quibus non" for getting successfully a PhD degree. In this manuscript, the toolboxes of the PhD student are discussed.

Charles L. Brewer Award for Distinguished Teaching of Psychology: Regan A. R. Gurung.

PubMed

2017-01-01

The American Psychological Foundation (APF) Charles L. Brewer Award for Distinguished Teaching of Psychology recognizes exemplary career contributions to the teaching of psychology. The 2017 recipient of the Charles L. Brewer Award for Distinguished Teaching of Psychology is Regan A. R. Gurung, PhD. Terence M. Keane, PhD, president of the APF, will present the APF Charles L. Brewer Award for Distinguished Teaching of Psychology at the 125th Annual Convention of the American Psychological Association on August 4, 2017, at 4:00 p.m. Members of the 2017 APF Board of Trustees are Terence M. Keane, PhD, president; Melba J. T. Vasquez, PhD, vice president/interim secretary; Richard C. McCarty, PhD, treasurer; Elisabeth R. Straus, executive vice president/executive director; Camilla Benbow, EdD; Rosie Phillips Bingham, PhD; Connie S. Chan; Arthur C. Evans, Jr., PhD; Linda M. Forrest, PhD; Douglas C. Haldeman, PhD; Anthony W. Jackson, PhD; Archie L. Turner; W. Bruce Walsh, PhD; and Stewart E. Cooper, PhD, APA Board of Directors liaison. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

Applied PhD Research in a Work-Based Environment: An Activity Theory-Based Analysis

ERIC Educational Resources Information Center

Granata, S. N.; Dochy, F.

2016-01-01

Activity theory is used to compare PhD undertaken at university, that is, academic PhD, with PhD performed in collaboration with industry, that is, semi-industrial PhD. The research is divided into a literature review and a case study. Semi-industrial and academic PhD are modelled as activity systems, and differences are highlighted in terms of…

The Tsimane Health and Life History Project: Integrating anthropology and biomedicine.

PubMed

Gurven, Michael; Stieglitz, Jonathan; Trumble, Benjamin; Blackwell, Aaron D; Beheim, Bret; Davis, Helen; Hooper, Paul; Kaplan, Hillard

2017-04-01

The Tsimane Health and Life History Project, an integrated bio-behavioral study of the human life course, is designed to test competing hypotheses of human life-history evolution. One aim is to understand the bidirectional connections between life history and social behavior in a high-fertility, kin-based context lacking amenities of modern urban life (e.g. sanitation, banks, electricity). Another aim is to understand how a high pathogen burden influences health and well-being during development and adulthood. A third aim addresses how modernization shapes human life histories and sociality. Here we outline the project's goals, history, and main findings since its inception in 2002. We reflect on the implications of current findings and highlight the need for more coordinated ethnographic and biomedical study of contemporary nonindustrial populations to address broad questions that can situate evolutionary anthropology in a key position within the social and life sciences. © 2017 The Authors Evolutionary Anthropology: Issues, News, and Reviews Published by Wiley Periodicals, Inc.

How fisheries management can benefit from genomics?

PubMed

Valenzuela-Quiñonez, Fausto

2016-09-01

Fisheries genomics is an emerging field that advocates the application of genomic tools to address questions in fisheries management. Genomic approaches bring a new paradigm for fisheries management by making it possible to integrate adaptive diversity to understand fundamental aspects of fisheries resources. Hence, this review is focused on the relevance of genomic approaches to solve fisheries-specific questions. Particularly the detection of adaptive diversity (outlier loci) provides unprecedented opportunity to understand bio-complexity, increased power to trace processed sample origin to allow enforcement and the potential to understand the genetic basis of micro-evolutionary effects of fisheries-induced evolution and climate change. The understanding of adaptive diversity patterns will be the cornerstone of the future links between fisheries and genomics. These studies will help stakeholders anticipate the potential effects of fishing or climate change on the resilience of fisheries stocks; consequently, in the near future, fisheries sciences might integrate evolutionary principles with fisheries management. © The Author 2016. Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com.

Adaptive attunement of selective covert attention to evolutionary-relevant emotional visual scenes.

PubMed

Fernández-Martín, Andrés; Gutiérrez-García, Aída; Capafons, Juan; Calvo, Manuel G

2017-05-01

We investigated selective attention to emotional scenes in peripheral vision, as a function of adaptive relevance of scene affective content for male and female observers. Pairs of emotional-neutral images appeared peripherally-with perceptual stimulus differences controlled-while viewers were fixating on a different stimulus in central vision. Early selective orienting was assessed by the probability of directing the first fixation towards either scene, and the time until first fixation. Emotional scenes selectively captured covert attention even when they were task-irrelevant, thus revealing involuntary, automatic processing. Sex of observers and specific emotional scene content (e.g., male-to-female-aggression, families and babies, etc.) interactively modulated covert attention, depending on adaptive priorities and goals for each sex, both for pleasant and unpleasant content. The attentional system exhibits domain-specific and sex-specific biases and attunements, probably rooted in evolutionary pressures to enhance reproductive and protective success. Emotional cues selectively capture covert attention based on their bio-social significance. Copyright © 2017 Elsevier Inc. All rights reserved.

The Boring Billion, a slingshot for Complex Life on Earth.

PubMed

Mukherjee, Indrani; Large, Ross R; Corkrey, Ross; Danyushevsky, Leonid V

2018-03-13

The period 1800 to 800 Ma ("Boring Billion") is believed to mark a delay in the evolution of complex life, primarily due to low levels of oxygen in the atmosphere. Earlier studies highlight the remarkably flat C, Cr isotopes and low trace element trends during the so-called stasis, caused by prolonged nutrient, climatic, atmospheric and tectonic stability. In contrast, we suggest a first-order variability of bio-essential trace element availability in the oceans by combining systematic sampling of the Proterozoic rock record with sensitive geochemical analyses of marine pyrite by LA-ICP-MS technique. We also recall that several critical biological evolutionary events, such as the appearance of eukaryotes, origin of multicellularity & sexual reproduction, and the first major diversification of eukaryotes (crown group) occurred during this period. Therefore, it appears possible that the period of low nutrient trace elements (1800-1400 Ma) caused evolutionary pressures which became an essential trigger for promoting biological innovations in the eukaryotic domain. Later periods of stress-free conditions, with relatively high nutrient trace element concentration, facilitated diversification. We propose that the "Boring Billion" was a period of sequential stepwise evolution and diversification of complex eukaryotes, triggering evolutionary pathways that made possible the later rise of micro-metazoans and their macroscopic counterparts.

Self-care Concept Analysis in Cancer Patients: An Evolutionary Concept Analysis.

PubMed

Hasanpour-Dehkordi, Ali

2016-01-01

Self-care is a frequently used concept in both the theory and the clinical practice of nursing and is considered an element of nursing theory by Orem. The aim of this paper is to identify the core attributes of the self-care concept in cancer patients. We used Rodgers' evolutionary method of concept analysis. The articles published in English language from 1980 to 2015 on nursing and non-nursing disciplines were analyzed. Finally, 85 articles, an MSc thesis, and a PhD thesis were selected, examined, and analyzed in-depth. Two experts checked the process of analysis and monitored and reviewed the articles. The analysis showed that self-care concept is determined by four attributes of education, interaction, self-control, and self-reliance. Three types of antecedents in the present study were client-related (self-efficacy, self-esteem), system-related (adequate sources, social networks, and cultural factors), and healthcare professionals-related (participation). The self-care concept has considerably evolved among patients with chronic diseases, particularly cancer, over the past 35 years, and nurses have managed to enhance their knowledge about self-care remarkably for the clients so that the nurses in healthcare teams have become highly efficient and able to assume the responsibility for self-care teams.

Self-care Concept Analysis in Cancer Patients: An Evolutionary Concept Analysis

PubMed Central

Hasanpour-Dehkordi, Ali

2016-01-01

Background: Self-care is a frequently used concept in both the theory and the clinical practice of nursing and is considered an element of nursing theory by Orem. The aim of this paper is to identify the core attributes of the self-care concept in cancer patients. Materials and Methods: We used Rodgers’ evolutionary method of concept analysis. The articles published in English language from 1980 to 2015 on nursing and non-nursing disciplines were analyzed. Finally, 85 articles, an MSc thesis, and a PhD thesis were selected, examined, and analyzed in-depth. Two experts checked the process of analysis and monitored and reviewed the articles. Results: The analysis showed that self-care concept is determined by four attributes of education, interaction, self-control, and self-reliance. Three types of antecedents in the present study were client-related (self-efficacy, self-esteem), system-related (adequate sources, social networks, and cultural factors), and healthcare professionals-related (participation). Conclusion: The self-care concept has considerably evolved among patients with chronic diseases, particularly cancer, over the past 35 years, and nurses have managed to enhance their knowledge about self-care remarkably for the clients so that the nurses in healthcare teams have become highly efficient and able to assume the responsibility for self-care teams. PMID:27803559

PhD Students' Work Conditions and Study Environment in University- and Industry-Based PhD Programmes

ERIC Educational Resources Information Center

Kolmos, A.; Kofoed, L. B.; Du, X. Y.

2008-01-01

During the last 10 years, new models of funding and training PhD students have been established in Denmark in order to integrate industry into the entire PhD education. Several programmes have been conducted where it is possible to co-finance PhD scholarships or to become an employee as an industrial PhD in a company. An important question is what…

Multimodality Image-Guided HDR/IMRT in Prostate Cancer: Combined Molecular Targeting Using Nanoparticle MR, 3D MRSI, and 11C Acetate PET Imaging

DTIC Science & Technology

2005-08-01

Ph.D. Panos Fatouros, Ph.D. Jerry Hirsch, MSc, PharmD Rhonda Hoyle Kristin Schmidt Dorin Tudor, Ph.D. Jie Liu CONTRACTING ORGANIZATION: Virginia...McClish, Ph.D., Panos Fatouros, Ph.D., Jerry Hirsch, MSc, PharmD, 5e. TASK NUMBER Rhonda Hoyle, Kristin Schmidt, Dorin Tudor, Ph.D., Jie Liu 5f. WORK UNIT

Award for Distinguished Contributions to the International Advancement of Psychology.

PubMed

2016-11-01

This award is given to individuals who have made sustained and enduring contributions to international cooperation and the advancement of knowledge in psychology. The 2016 recipient of the APA Award for Distinguished Contributions to the International Advancement of Psychology was selected by the 2015 Committee on International Relations in Psychology (CIRP). The members of the 2015 CIRP were Rehman Abdulrehman, PhD (Chair); Gonzalo Bacigalupe, EdD; Silvia S. Canetto, PhD; Amanda Clinton, PhD; Melissa L. Morgan Consoli, PhD; Chryse G. Hatzichristou, PhD; Arpana G. Inman, PhD; Lori Foster Thompson, PhD; and Danny Wedding, PhD. Dr. Abdulrehman, Dr. Morgan Consoli, Dr. Thompson, and Dr. Wedding were members of the subcommittee for the 2016 award. (PsycINFO Database Record (c) 2016 APA, all rights reserved).

PHD3-mediated prolyl hydroxylation of nonmuscle actin impairs polymerization and cell motility

PubMed Central

Luo, Weibo; Lin, Benjamin; Wang, Yingfei; Zhong, Jun; O'Meally, Robert; Cole, Robert N.; Pandey, Akhilesh; Levchenko, Andre; Semenza, Gregg L.

2014-01-01

Actin filaments play an essential role in cell movement, and many posttranslational modifications regulate actin filament assembly. Here we report that prolyl hydroxylase 3 (PHD3) interacts with nonmuscle actin in human cells and catalyzes hydroxylation of actin at proline residues 307 and 322. Blocking PHD3 expression or catalytic activity by short hairpin RNA knockdown or pharmacological inhibition, respectively, decreased actin prolyl hydroxylation. PHD3 knockdown increased filamentous F-actin assembly, which was reversed by PHD3 overexpression. PHD3 knockdown increased cell velocity and migration distance. Inhibition of PHD3 prolyl hydroxylase activity by dimethyloxalylglycine also increased actin polymerization and cell migration. These data reveal a novel role for PHD3 as a negative regulator of cell motility through posttranslational modification of nonmuscle actins. PMID:25079693

Disruption of hypoxia-inducible transcription factor-prolyl hydroxylase domain-1 (PHD-1-/-) attenuates ex vivo myocardial ischemia/reperfusion injury through hypoxia-inducible factor-1α transcription factor and its target genes in mice.

PubMed

Adluri, Ram Sudheer; Thirunavukkarasu, Mahesh; Dunna, Nageswara Rao; Zhan, Lijun; Oriowo, Babatunde; Takeda, Kotaro; Sanchez, Juan A; Otani, Hajime; Maulik, Gautam; Fong, Guo-Hua; Maulik, Nilanjana

2011-10-01

Hypoxia-inducible transcription factor (HIF)-prolyl hydroxylases domain (PHD-1-3) are oxygen sensors that regulate the stability of the HIFs in an oxygen-dependent manner. Suppression of PHD enzymes leads to stabilization of HIFs and offers a potential treatment option for many ischemic disorders, such as peripheral artery occlusive disease, myocardial infarction, and stroke. Here, we show that homozygous disruption of PHD-1 (PHD-1(-/-)) could facilitate HIF-1α-mediated cardioprotection in ischemia/reperfused (I/R) myocardium. Wild-type (WT) and PHD-1(-/-) mice were randomized into WT time-matched control (TMC), PHD-1(-/-) TMC (PHD1TMC), WT I/R, and PHD-1(-/-) I/R (PHD1IR). Isolated hearts from each group were subjected to 30 min of global ischemia followed by 2 h of reperfusion. TMC hearts were perfused for 2 h 30 min without ischemia. Decreased infarct size (35%±0.6% vs. 49%±0.4%) and apoptotic cardiomyocytes (106±13 vs. 233±21 counts/100 high-power field) were observed in PHD1IR compared to wild-type ischemia/reperfusion (WTIR). Protein expression of HIF-1α was significantly increased in PHD1IR compared to WTIR. mRNA expression of β-catenin (1.9-fold), endothelial nitric oxide synthase (1.9-fold), p65 (1.9-fold), and Bcl-2 (2.7-fold) were upregulated in the PHD1IR compared with WTIR, which was studied by real-time quantitative polymerase chain reaction. Further, gel-shift analysis showed increased DNA binding activity of HIF-1α and nuclear factor-kappaB in PHD1IR compared to WTIR. In addition, nuclear translocation of β-catenin was increased in PHD1IR compared with WTIR. These findings indicated that silencing of PHD-1 attenuates myocardial I/R injury probably by enhancing HIF-1α/β-catenin/endothelial nitric oxide synthase/nuclear factor-kappaB and Bcl-2 signaling pathway.

Oxygen-sensing PHDs regulate bone homeostasis through the modulation of osteoprotegerin

PubMed Central

Wu, Colleen; Rankin, Erinn B.; Castellini, Laura; Fernandez-Alcudia, Javier; LaGory, Edward L.; Andersen, Rebecca; Rhodes, Steven D.; Wilson, Tremika L.S.; Mohammad, Khalid S.; Castillo, Alesha B.; Guise, Theresa A.; Schipani, Ernestina

2015-01-01

The bone microenvironment is composed of niches that house cells across variable oxygen tensions. However, the contribution of oxygen gradients in regulating bone and blood homeostasis remains unknown. Here, we generated mice with either single or combined genetic inactivation of the critical oxygen-sensing prolyl hydroxylase (PHD) enzymes (PHD1–3) in osteoprogenitors. Hypoxia-inducible factor (HIF) activation associated with Phd2 and Phd3 inactivation drove bone accumulation by modulating osteoblastic/osteoclastic cross-talk through the direct regulation of osteoprotegerin (OPG). In contrast, combined inactivation of Phd1, Phd2, and Phd3 resulted in extreme HIF signaling, leading to polycythemia and excessive bone accumulation by overstimulating angiogenic–osteogenic coupling. We also demonstrate that genetic ablation of Phd2 and Phd3 was sufficient to protect ovariectomized mice against bone loss without disrupting hematopoietic homeostasis. Importantly, we identify OPG as a HIF target gene capable of directing osteoblast-mediated osteoclastogenesis to regulate bone homeostasis. Here, we show that coordinated activation of specific PHD isoforms fine-tunes the osteoblastic response to hypoxia, thereby directing two important aspects of bone physiology: cross-talk between osteoblasts and osteoclasts and angiogenic–osteogenic coupling. PMID:25846796

Publishing scientific papers based on Master's and Ph.D. theses from a small scientific community: case study of Croatian medical schools.

PubMed

Frković, Vedran; Skender, Tomislav; Dojćinović, Bojan; Bilić-Zulle, Lidija

2003-02-01

To evaluate publishing activity of medical doctors after they have obtained Master's or Ph.D. degree at the Rijeka and Zagreb University Schools of Medicine in Croatia, and establish the number of journal articles based on these theses. Data on Master's and Ph.D. theses defended at the Rijeka and Zagreb University Schools of Medicine in the 1990-1999 period were collected by hand-search of the archive. MEDLINE and Current Contents databases were searched for journal articles resulting from the theses. During the 10-year period, 1,535 Master's and 634 Ph.D. theses were defended at the Rijeka and Zagreb University Schools of Medicine (253 Master's and 138 Ph.D. theses from Rijeka and 1,282 Master's and 496 Ph.D. theses from Zagreb). There were 201 (14%) Master's and 218 (34%) Ph.D. theses that resulted in articles published in journals indexed in MEDLINE (13% of Master's and 11% of Ph.D. theses from Rijeka, and 14% of Master's and 41% of Ph.D. theses from Zagreb). Also, 97 (6%) Master's and 129 (20%) Ph.D. theses that resulted in articles published in Current Contents journals (8% of Master's and 6% of Ph.D. theses from Rijeka, and 6% of Master's and 24% of Ph.D. theses from Zagreb). There was no significant difference between the two Universities with respect to published articles based on Master's theses, but there were significantly more articles from Ph.D. theses in Zagreb (p<0.001). Most of the theses resulted in a single publication (95%), 19 (5%) in 2, and 2 in 3 publications. Out of all 453 journal articles, 31% were published in Croatian and 69% in international journals. Most Croatian Master's and Ph.D. theses are not made available to the scientific community. There should be more institutional effort directed at the stimulation of postgraduate students to publish their scientific work.

Emergent adaptive behaviour of GRN-controlled simulated robots in a changing environment.

PubMed

Yao, Yao; Storme, Veronique; Marchal, Kathleen; Van de Peer, Yves

2016-01-01

We developed a bio-inspired robot controller combining an artificial genome with an agent-based control system. The genome encodes a gene regulatory network (GRN) that is switched on by environmental cues and, following the rules of transcriptional regulation, provides output signals to actuators. Whereas the genome represents the full encoding of the transcriptional network, the agent-based system mimics the active regulatory network and signal transduction system also present in naturally occurring biological systems. Using such a design that separates the static from the conditionally active part of the gene regulatory network contributes to a better general adaptive behaviour. Here, we have explored the potential of our platform with respect to the evolution of adaptive behaviour, such as preying when food becomes scarce, in a complex and changing environment and show through simulations of swarm robots in an A-life environment that evolution of collective behaviour likely can be attributed to bio-inspired evolutionary processes acting at different levels, from the gene and the genome to the individual robot and robot population.

Metabolic engineering of Escherichia coli: a sustainable industrial platform for bio-based chemical production.

PubMed

Chen, Xianzhong; Zhou, Li; Tian, Kangming; Kumar, Ashwani; Singh, Suren; Prior, Bernard A; Wang, Zhengxiang

2013-12-01

In order to decrease carbon emissions and negative environmental impacts of various pollutants, more bulk and/or fine chemicals are produced by bioprocesses, replacing the traditional energy and fossil based intensive route. The Gram-negative rod-shaped bacterium, Escherichia coli has been studied extensively on a fundamental and applied level and has become a predominant host microorganism for industrial applications. Furthermore, metabolic engineering of E. coli for the enhanced biochemical production has been significantly promoted by the integrated use of recent developments in systems biology, synthetic biology and evolutionary engineering. In this review, we focus on recent efforts devoted to the use of genetically engineered E. coli as a sustainable platform for the production of industrially important biochemicals such as biofuels, organic acids, amino acids, sugar alcohols and biopolymers. In addition, representative secondary metabolites produced by E. coli will be systematically discussed and the successful strategies for strain improvements will be highlighted. Moreover, this review presents guidelines for future developments in the bio-based chemical production using E. coli as an industrial platform. Copyright © 2013 Elsevier Inc. All rights reserved.

Emergent adaptive behaviour of GRN-controlled simulated robots in a changing environment

PubMed Central

Yao, Yao; Storme, Veronique; Marchal, Kathleen

2016-01-01

We developed a bio-inspired robot controller combining an artificial genome with an agent-based control system. The genome encodes a gene regulatory network (GRN) that is switched on by environmental cues and, following the rules of transcriptional regulation, provides output signals to actuators. Whereas the genome represents the full encoding of the transcriptional network, the agent-based system mimics the active regulatory network and signal transduction system also present in naturally occurring biological systems. Using such a design that separates the static from the conditionally active part of the gene regulatory network contributes to a better general adaptive behaviour. Here, we have explored the potential of our platform with respect to the evolution of adaptive behaviour, such as preying when food becomes scarce, in a complex and changing environment and show through simulations of swarm robots in an A-life environment that evolution of collective behaviour likely can be attributed to bio-inspired evolutionary processes acting at different levels, from the gene and the genome to the individual robot and robot population. PMID:28028477

Psi Chi/APA Edwin B. Newman Graduate Research Award.

PubMed

2016-11-01

The Edwin B. Newman Graduate Research Award is sponsored jointly by Psi Chi, the national honor society in psychology, and the APA. The award is presented annually to the psychology graduate student who submits the best research paper that was published or presented at a national, regional, or state psychological association conference during the past calendar year. The Edwin B. Newman Graduate Research Award is given jointly by Psi Chi and APA. Members of the 2016 Edwin B. Newman Award Committee were Shawn Carlton, PhD, Psi Chi representative; Christina Frederick-Recascino, PhD; John Norcross, PhD, APA representative; Karenna Malavanti, PhD, Psi Chi representative; Steven Kohn, PhD, Psi Chi representative; Warren Fass, PhD, Psi Chi representative; Chris Lovelace, PhD, Psi Chi representative; and Cathy Epkins, PhD, APA representative. (PsycINFO Database Record (c) 2016 APA, all rights reserved).

International Humanitarian Award.

PubMed

2016-11-01

The International Humanitarian Award recognizes extraordinary humanitarian services and activism by psychologists, including professional and volunteer work conducted primarily in the field with underserved populations. Award recipients are psychologists who, by their extraordinary service at a difficult time, improve the lives and contribute to the well-being of people in a large or small geographic area anywhere in the world. The 2016 recipient of the APA International Humanitarian Award was selected by the 2015 Committee on International Relations in Psychology (CIRP). The members of the 2015 CIRP were Rehman Abdulrehman, PhD (Chair); Gonzalo Bacigalupe, EdD; Silvia S. Canetto, PhD; Amanda Clinton, PhD; Melissa L. Morgan Consoli, PhD; Chryse G. Hatzichristou, PhD; Arpana G. Inman, PhD; Lori Foster Thompson, PhD; and Danny Wedding, PhD. Dr. Abdulrehman, Dr. Morgan Consoli, Dr. Thompson, and Dr. Wedding were members of the subcommittee for the 2016 award. (PsycINFO Database Record (c) 2016 APA, all rights reserved).

The Notion of Scientific Knowledge in Biology

NASA Astrophysics Data System (ADS)

Morante, Silvia; Rossi, Giancarlo

2016-03-01

The purpose of this work is to reconsider and critically discuss the conceptual foundations of modern biology and bio-sciences in general, and provide an epistemological guideline to help framing the teaching of these disciplines and enhancing the quality of their presentation in High School, Master and Ph.D. courses. After discussing the methodological problems that arise in trying to construct a sensible and useful scientific approach applicable to the study of living systems, we illustrate what are the general requirements that a workable scheme of investigation should meet to comply with the principles of the Galilean method. The amazing success of basic physics, the Galilean science of election, can be traced back to the development of a radically " reductionistic" approach in the interpretation of experiments and a systematic procedure tailored on the paradigm of " falsifiability" aimed at consistently incorporating new information into extended models/theories. The development of bio-sciences seems to fit with neither reductionism (the deeper is the level of description of a biological phenomenon the more difficult looks finding general and simple laws), nor falsifiability (not always experiments provide a yes-or-no answer). Should we conclude that biology is not a science in the Galilean sense? We want to show that this is not so. Rather in the study of living systems, the novel interpretative paradigm of " complexity" has been developed that, without ever conflicting with the basic principles of physics, allows organizing ideas, conceiving new models and understanding the puzzling lack of reproducibility that seems to affect experiments in biology and in other modern areas of investigation. In the delicate task of conveying scientific concepts and principles to students as well as in popularising bio-sciences to a wider audience, it is of the utmost importance for the success of the process of learning to highlight the internal logical consistency of biology and its compliance with the fundamental laws of physics.

Interaction Gaps in PhD Education and ICT as a Way Forward: Results from a Study in Sweden

ERIC Educational Resources Information Center

Aghaee, Naghmeh; Jobe, William Byron; Karunaratne, Thashmee; Smedberg, Åsa; Hansson, Henrik; Tedre, Matti

2016-01-01

Many research studies have highlighted the low completion rate and slow progress in PhD education. Universities strive to improve throughput and quality in their PhD education programs. In this study, the perceived problems of PhD education are investigated from PhD students' points of view, and how an Information and Communication Technology…

Collaborators | Center for Cancer Research

Cancer.gov

Collaborators Structural Biophysics Laboratory, CCR Macromolecular NMR Section (R. Andrew Byrd, Ph.D.) Protein-Nucleic Acid Interactions Section (Yun-Xing Wang, Ph.D.) Protein Processing Section (Kylie J. Walters, Ph.D.) Kinase Complexes Section (Ping Zhang, Ph.D.) Macromolecular Crystallography Laboratory, CCR

Disruption of Hypoxia-Inducible Transcription Factor-Prolyl Hydroxylase Domain-1 (PHD-1−/−) Attenuates Ex Vivo Myocardial Ischemia/Reperfusion Injury Through Hypoxia-Inducible Factor-1α Transcription Factor and Its Target Genes in Mice

PubMed Central

Adluri, Ram Sudheer; Thirunavukkarasu, Mahesh; Dunna, Nageswara Rao; Zhan, Lijun; Oriowo, Babatunde; Takeda, Kotaro; Sanchez, Juan A.; Otani, Hajime; Maulik, Gautam; Fong, Guo-Hua

2011-01-01

Abstract Hypoxia-inducible transcription factor (HIF)-prolyl hydroxylases domain (PHD-1–3) are oxygen sensors that regulate the stability of the HIFs in an oxygen-dependent manner. Suppression of PHD enzymes leads to stabilization of HIFs and offers a potential treatment option for many ischemic disorders, such as peripheral artery occlusive disease, myocardial infarction, and stroke. Here, we show that homozygous disruption of PHD-1 (PHD-1−/−) could facilitate HIF-1α-mediated cardioprotection in ischemia/reperfused (I/R) myocardium. Wild-type (WT) and PHD-1−/− mice were randomized into WT time-matched control (TMC), PHD-1−/− TMC (PHD1TMC), WT I/R, and PHD-1−/− I/R (PHD1IR). Isolated hearts from each group were subjected to 30 min of global ischemia followed by 2 h of reperfusion. TMC hearts were perfused for 2 h 30 min without ischemia. Decreased infarct size (35% ± 0.6% vs. 49% ± 0.4%) and apoptotic cardiomyocytes (106 ± 13 vs. 233 ± 21 counts/100 high-power field) were observed in PHD1IR compared to wild-type ischemia/reperfusion (WTIR). Protein expression of HIF-1α was significantly increased in PHD1IR compared to WTIR. mRNA expression of β-catenin (1.9-fold), endothelial nitric oxide synthase (1.9-fold), p65 (1.9-fold), and Bcl-2 (2.7-fold) were upregulated in the PHD1IR compared with WTIR, which was studied by real-time quantitative polymerase chain reaction. Further, gel-shift analysis showed increased DNA binding activity of HIF-1α and nuclear factor-kappaB in PHD1IR compared to WTIR. In addition, nuclear translocation of β-catenin was increased in PHD1IR compared with WTIR. These findings indicated that silencing of PHD-1 attenuates myocardial I/R injury probably by enhancing HIF-1α/β-catenin/endothelial nitric oxide synthase/nuclear factor-kappaB and Bcl-2 signaling pathway. Antioxid. Redox Signal. 15, 1789–1797. PMID:21083501

2017 JOSPT Award Recipients.

PubMed

Simoneau, Guy G

2018-05-01

During the American Physical Therapy Association's Combined Sections Meeting in New Orleans, LA in February 2018, JOSPT recognized the authors of the most outstanding research and clinical practice manuscripts published in JOSPT during 2017. The 2017 George J. Davies-James A. Gould Excellence in Clinical Inquiry Award was presented to Noa Ben-Ami, PT, PhD; Gabriel Chodick, MHA, PhD; Yigal Mirovsky, MD; Tamar Pincus, MPhil, MSc, PhD; and Yair Shapiro, MD, PhD, for their February 2017 article "Increasing Recreational Physical Activity in Patients With Chronic Low Back Pain: A Pragmatic Controlled Clinical Trial." The 2017 JOSPT Excellence in Research Award was presented to Sanneke Don, PT, MPT; Margot de Kooning, PT, PhD; Lennard Voogt, PT, MT, PhD; Kelly Ickmans, PT, PhD; Liesbeth Daenen, PT, PhD; and Jo Nijs, PT, MT, PhD, for their March 2017 article "The Effect of Visual Feedback of the Neck During Movement in People With Chronic Whiplash-Associated Disorders: An Experimental Study." J Orthop Sports Phys Ther 2018;48(5):348. doi:10.2519/jospt.2018.0104.

A fast ellipse extended target PHD filter using box-particle implementation

NASA Astrophysics Data System (ADS)

Zhang, Yongquan; Ji, Hongbing; Hu, Qi

2018-01-01

This paper presents a box-particle implementation of the ellipse extended target probability hypothesis density (ET-PHD) filter, called the ellipse extended target box particle PHD (EET-BP-PHD) filter, where the extended targets are described as a Poisson model developed by Gilholm et al. and the term "box" is here equivalent to the term "interval" used in interval analysis. The proposed EET-BP-PHD filter is capable of dynamically tracking multiple ellipse extended targets and estimating the target states and the number of targets, in the presence of clutter measurements, false alarms and missed detections. To derive the PHD recursion of the EET-BP-PHD filter, a suitable measurement likelihood is defined for a given partitioning cell, and the main implementation steps are presented along with the necessary box approximations and manipulations. The limitations and capabilities of the proposed EET-BP-PHD filter are illustrated by simulation examples. The simulation results show that a box-particle implementation of the ET-PHD filter can avoid the high number of particles and reduce computational burden, compared to a particle implementation of that for extended target tracking.

78 FR 56227 - Issuance of an Experimental Use Permit

Federal Register 2010, 2011, 2012, 2013, 2014

2013-09-12

... experimental use permit (EUP) to the pesticide applicant, Robert I. Rose, Ph.D., on behalf of James Mains, Ph.D.... Issuance. Robert I. Rose, Ph.D., on behalf of James Mains, Ph.D., Mosquito Mate, Inc., 1122 Oak Hill Drive...

The Added Value of a PhD in Medicine--PhD Students' Perceptions of Acquired Competences

ERIC Educational Resources Information Center

Anttila, Henrika; Lindblom-Ylänne, Sari; Lonka, Kristi; Pyhältö, Kirsi

2015-01-01

PhD in the field of medicine is more common than in any other domain. Many medical doctors are driven towards PhD, but also students with other backgrounds (usually MSc) are conducting a PhD in medical schools. Higher education has invested a lot in developing generic and research competences. Still little is known about how PhD students…

Macrophage skewing by Phd2 haplodeficiency prevents ischaemia by inducing arteriogenesis

PubMed Central

Takeda, Yukiji; Costa, Sandra; Delamarre, Estelle; Roncal, Carmen; de Oliveira, Rodrigo Leite; Squadrito, Mario Leonardo; Finisguerra, Veronica; Deschoemaeker, Sofie; Bruyére, Françoise; Wenes, Mathias; Hamm, Alexander; Serneels, Jens; Magat, Julie; Bhattacharyya, Tapan; Anisimov, Andrey; Jordan, Benedicte F.; Alitalo, Kari; Maxwell, Patrick; Gallez, Bernard; Zhuang, Zhen W.; Saito, Yoshihiko; Simons, Michael; De Palma, Michele; Mazzone, Massimiliano

2015-01-01

PHD2 serves as an oxygen sensor that rescues blood supply by regulating vessel formation and shape in case of oxygen shortage1–5. However, it is unknown whether PHD2 can influence arteriogenesis. Here we studied the role of PHD2 in collateral artery growth by using hindlimb ischaemia as a model, a process that compensates for the lack of blood flow in case of major arterial occlusion6–8. We show that Phd2 (also known as Egln1) haplodeficient (Phd2+/−) mice displayed preformed collateral arteries that preserved limb perfusion and prevented tissue necrosis in ischaemia. Improved arteriogenesis in Phd2+/− mice was due to an expansion of tissue-resident, M2-like macrophages9,10 and their increased release of arteriogenic factors, leading to enhanced smooth muscle cell (SMC) recruitment and growth. Both chronic and acute deletion of one Phd2 allele in macrophages was sufficient to skew their polarization towards a proarteriogenic phenotype. Mechanistically, collateral vessel preconditioning relied on the activation of canonical NF-κB pathway in Phd2+/− macrophages. These results unravel how PHD2 regulates arteriogenesis and artery homeostasis by controlling a specific differentiation state in macrophages and suggest new treatment options for ischaemic disorders. PMID:21983962

The experience of disagreement between students and supervisors in PhD education: a qualitative study

PubMed Central

2013-01-01

Background PhD supervision is mostly individual and disagreement between supervisors and PhD students is a seldom-discussed topic at universities. The present study aimed to describe the experience of disagreement between PhD students and supervisors. Methods Nine supervisors and seven PhD students from Sweden and England were interviewed using a video recorder. The recorded material was analysed using inductive content analysis. Results Disagreements in PhD education can be described with the overarching theme: the nature of the disagreements changes over time. Five categories emerged to describe the variations of the experiences: involvement in important decisions, supervisors not being up-to-date, dubious advice from supervisors, mediating between supervisors, and interpersonal relationships. Conclusions There is a gradual shift in competence where PhD students may excel supervisors in subject knowledge. Early disagreements may indicate immaturity of the student while disagreements later may indicate that the student is maturing making their own decisions. Consequently, disagreements may need to be addressed differently depending on when they occur. Addressing them inappropriately might slow the progressions and result in higher attrition rate among PhD students. The five categories may be elements in future PhD supervisor training programs and should be further evaluated for their importance and impact on PhD education. PMID:24074051

Design of a bio-inspired controller for dynamic soaring in a simulated unmanned aerial vehicle.

PubMed

Barate, Renaud; Doncieux, Stéphane; Meyer, Jean-Arcady

2006-09-01

This paper is inspired by the way birds such as albatrosses are able to exploit wind gradients at the surface of the ocean for staying aloft for very long periods while minimizing their energy expenditure. The corresponding behaviour has been partially reproduced here via a set of Takagi-Sugeno-Kang fuzzy rules controlling a simulated glider. First, the rules were hand-designed. Then, they were optimized with an evolutionary algorithm that improved their efficiency at coping with challenging conditions. Finally, the robustness properties of the controller generated were assessed with a view to its applicability to a real platform.

From wheels to wings with evolutionary spiking circuits.

PubMed

Floreano, Dario; Zufferey, Jean-Christophe; Nicoud, Jean-Daniel

2005-01-01

We give an overview of the EPFL indoor flying project, whose goal is to evolve neural controllers for autonomous, adaptive, indoor micro-flyers. Indoor flight is still a challenge because it requires miniaturization, energy efficiency, and control of nonlinear flight dynamics. This ongoing project consists of developing a flying, vision-based micro-robot, a bio-inspired controller composed of adaptive spiking neurons directly mapped into digital microcontrollers, and a method to evolve such a neural controller without human intervention. This article describes the motivation and methodology used to reach our goal as well as the results of a number of preliminary experiments on vision-based wheeled and flying robots.

Probabilistic modeling of the evolution of gene synteny within reconciled phylogenies

PubMed Central

2015-01-01

Background Most models of genome evolution concern either genetic sequences, gene content or gene order. They sometimes integrate two of the three levels, but rarely the three of them. Probabilistic models of gene order evolution usually have to assume constant gene content or adopt a presence/absence coding of gene neighborhoods which is blind to complex events modifying gene content. Results We propose a probabilistic evolutionary model for gene neighborhoods, allowing genes to be inserted, duplicated or lost. It uses reconciled phylogenies, which integrate sequence and gene content evolution. We are then able to optimize parameters such as phylogeny branch lengths, or probabilistic laws depicting the diversity of susceptibility of syntenic regions to rearrangements. We reconstruct a structure for ancestral genomes by optimizing a likelihood, keeping track of all evolutionary events at the level of gene content and gene synteny. Ancestral syntenies are associated with a probability of presence. We implemented the model with the restriction that at most one gene duplication separates two gene speciations in reconciled gene trees. We reconstruct ancestral syntenies on a set of 12 drosophila genomes, and compare the evolutionary rates along the branches and along the sites. We compare with a parsimony method and find a significant number of results not supported by the posterior probability. The model is implemented in the Bio++ library. It thus benefits from and enriches the classical models and methods for molecular evolution. PMID:26452018

Bioinformatics education dissemination with an evolutionary problem solving perspective.

PubMed

Jungck, John R; Donovan, Samuel S; Weisstein, Anton E; Khiripet, Noppadon; Everse, Stephen J

2010-11-01

Bioinformatics is central to biology education in the 21st century. With the generation of terabytes of data per day, the application of computer-based tools to stored and distributed data is fundamentally changing research and its application to problems in medicine, agriculture, conservation and forensics. In light of this 'information revolution,' undergraduate biology curricula must be redesigned to prepare the next generation of informed citizens as well as those who will pursue careers in the life sciences. The BEDROCK initiative (Bioinformatics Education Dissemination: Reaching Out, Connecting and Knitting together) has fostered an international community of bioinformatics educators. The initiative's goals are to: (i) Identify and support faculty who can take leadership roles in bioinformatics education; (ii) Highlight and distribute innovative approaches to incorporating evolutionary bioinformatics data and techniques throughout undergraduate education; (iii) Establish mechanisms for the broad dissemination of bioinformatics resource materials and teaching models; (iv) Emphasize phylogenetic thinking and problem solving; and (v) Develop and publish new software tools to help students develop and test evolutionary hypotheses. Since 2002, BEDROCK has offered more than 50 faculty workshops around the world, published many resources and supported an environment for developing and sharing bioinformatics education approaches. The BEDROCK initiative builds on the established pedagogical philosophy and academic community of the BioQUEST Curriculum Consortium to assemble the diverse intellectual and human resources required to sustain an international reform effort in undergraduate bioinformatics education.

Learning from evolutionary optimisation: what are toughening mechanisms good for in dentine, a nonrepairing bone tissue?

PubMed

Zaslansky, Paul; Currey, John D; Fleck, Claudia

2016-09-12

The main mass of material found in teeth is dentine, a bone-like tissue, riddled with micron-sized tubules and devoid of living cells. It provides support to the outer wear-resistant layer of enamel, and exhibits toughening mechanisms which contribute to crack resistance. And yet unlike most bone tissues, dentine does not remodel and consequently any accumulated damage does not 'self repair'. Because damage containment followed by tissue replacement is a prime reason for the crack-arresting microstructures found in most bones, the occurrence of toughening mechanisms without the biological capability to repair is puzzling. Here we consider the notion that dentine might be overdesigned for strength, because it has to compensate for the lack of cell-mediated healing mechanisms. Based on our own and on literature-reported observations, including quasistatic and fatigue properties, dentine design principles are discussed in light of the functional conditions under which teeth evolved. We conclude that dentine is only slightly overdesigned for everyday cyclic loading because usual mastication stresses may come close to its endurance strength. The in-built toughening mechanisms constitute an evolutionary benefit because they prevent catastrophic failure during rare overload events, which was probably very advantageous in our hunter gatherer ancestor times. From a bio-inspired perspective, understanding the extent of evolutionary overdesign might be useful for optimising biomimetic structures used for load bearing.

Biomedical PhD education--an international perspective.

PubMed

Mulvany, Michael J

2013-05-01

The PhD, otherwise known as the doctor of philosophy or Dr. Phil., is an internationally recognized degree, indicating that the PhD graduate has received training in research under supervision. Traditionally, the PhD was the route to an academic career, with most successful PhD graduates receiving tenured university positions. However, over the past 20-30 years, and particularly the past 10 years, the situation has changed dramatically. Governments in many countries have invested massively in PhD education, believing that trained researchers will contribute to the 'knowledge society', and thus increase the competitiveness of their countries in the future economies of the world. Thus, only a small fraction of PhD graduates now end up in academic research. Yet, the PhD remains a research degree, and indeed, institutions have become heavily dependent on PhD students for their research output. The situation has thus created a paradox. On the one hand, it has become essential for institutions to have many PhD students and for the research performed to be of the highest level. On the other hand, the careers of PhD students are not necessarily going to be directly related to the research performed during their PhD studies. The purpose of this article is to explore how this seeming paradox is being addressed in biomedicine and to show that far from being inconsistent that the two aspects are in fact complementary. The article is based on the author's experience as Head of Aarhus Graduate School of Health Sciences 2002-2011 and his work with graduate schools across Europe and internationally through the organization ORPHEUS. © 2013 Nordic Pharmacological Society. Published by Blackwell Publishing Ltd.

Suitability Screening Test for Marine Corps Air Traffic Controllers Phase 2

DTIC Science & Technology

2013-06-10

Karen M. Walker, Ph.D. William L. Farmer, Ph.D. Rebecca C. Roberts, MS Navy Personnel Research, Studies, and Technology NPRST-TR-13-2...June 2013 Suitability Screening Test for Marine Corps Air Traffic Controllers Phase II Karen M. Walker, Ph.D. William L. Farmer, Ph.D. Rebecca...C. Roberts, MS Navy Personnel Research, Studies, and Technology Reviewed by Tanja Blackstone , Ph.D. Approved and released by D. M. Cashbaugh

Suitability Screening Test for Marine Corps Air Traffic Controllers. Phase 2

DTIC Science & Technology

2013-06-01

Karen M. Walker, Ph.D. William L. Farmer, Ph.D. Rebecca C. Roberts, MS Navy Personnel Research, Studies, and Technology NPRST-TR-13-2...June 2013 Suitability Screening Test for Marine Corps Air Traffic Controllers Phase II Karen M. Walker, Ph.D. William L. Farmer, Ph.D. Rebecca...C. Roberts, MS Navy Personnel Research, Studies, and Technology Reviewed by Tanja Blackstone , Ph.D. Approved and released by D. M. Cashbaugh

Selected papers from the Fourth Annual q-bio Conference on Cellular Information Processing.

PubMed

Nemenman, Ilya; Faeder, James R; Hlavacek, William S; Jiang, Yi; Wall, Michael E; Zilman, Anton

2011-10-01

This special issue consists of 11 original papers that elaborate on work presented at the Fourth Annual q-bio Conference on Cellular Information Processing, which was held on the campus of St John's College in Santa Fe, New Mexico, USA, 11-14 August 2010. Now in its fourth year, the q-bio conference has changed considerably over time. It is now well established and a major event in systems biology. The 2010 conference saw attendees from all continents (except Antarctica!) sharing novel results and participating in lively discussions at both the oral and poster sessions. The conference was oversubscribed and grew to 27 contributed talks, 16 poster spotlights and 137 contributed posters. We deliberately decreased the number of invited speakers to 21 to leave more space for contributed presentations, and the attendee feedback confirmed that the choice was a success. Although the q-bio conference has grown and matured, it has remained true to the original goal of being an intimate and dynamic event that brings together modeling, theory and quantitative experimentation for the study of cell regulation and information processing. Funded in part by a grant from NIGMS and by DOE funds through the Los Alamos National Laboratory Directed Research and Development program, the conference has continued to exhibit youth and vigor by attracting (and partially supporting) over 100 undergraduate, graduate and postdoctoral researchers. The associated q-bio summer school, which precedes the conference each year, further emphasizes the development of junior scientists and makes q-bio a singular event in its impact on the future of quantitative biology. In addition to an increased international presence, the conference has notably diversified its demographic representation within the USA, including increased participation from the southeastern corner of the country. One big change in the conference this year is our new publication partner, Physical Biology. Although we are very grateful to our previous partner, IET Systems Biology, for their help over the years in publicizing the work presented at the conference, we felt that the changing needs of our participants required that we find a new partner. We are thrilled that Physical Biology is publishing the q-bio proceedings this year. It has been a great collaboration, as evidenced by the high quality of this special issue. What's next for q-bio? We are happy to report that NIGMS has recently extended the q-bio conference grant for the next three years, ensuring strong support for junior researchers who need financial assistance to participate in the event. The conference will retain its emphasis on cellular information processing, but will also build connections to other areas of modern biology and biotechnology, focusing specifically on ecology and evolutionary biology next year. Indeed, to fully understand biological information processing systems, they must be studied in their ecological contexts. We will continue to honor distinguished contributors to the field in our opening banquets; the tradition started with Howard Berg, Bruce Alberts and Michael Savageau in previous years, and continues with Dennis Bray at the upcoming 2011 event. Starting in 2011, the conference will also venture into exploration of the social aspects of science. The future is bright for q-bio! We will see you at the Fifth Annual q-bio Conference on 10-13 August 2011, in Santa Fe, New Mexico, USA and at the Sixth Annual q-bio Conference in early August 2012.

Loss of PHD3 allows tumours to overcome hypoxic growth inhibition and sustain proliferation through EGFR

PubMed Central

Henze, Anne-Theres; Garvalov, Boyan K.; Seidel, Sascha; Cuesta, Angel M.; Ritter, Mathias; Filatova, Alina; Foss, Franziska; Dopeso, Higinio; Essmann, Clara L.; Maxwell, Patrick H.; Reifenberger, Guido; Carmeliet, Peter; Acker-Palmer, Amparo; Acker, Till

2014-01-01

Solid tumours are exposed to microenvironmental factors such as hypoxia that normally inhibit cell growth. However, tumour cells are capable of counteracting these signals through mechanisms that are largely unknown. Here we show that the prolyl hydroxylase PHD3 restrains tumour growth in response to microenvironmental cues through the control of EGFR. PHD3 silencing in human gliomas or genetic deletion in a murine high-grade astrocytoma model markedly promotes tumour growth and the ability of tumours to continue growing under unfavourable conditions. The growth-suppressive function of PHD3 is independent of the established PHD3 targets HIF and NF-κB and its hydroxylase activity. Instead, loss of PHD3 results in hyperphosphorylation of epidermal growth factor receptor (EGFR). Importantly, epigenetic/genetic silencing of PHD3 preferentially occurs in gliomas without EGFR amplification. Our findings reveal that PHD3 inactivation provides an alternative route of EGFR activation through which tumour cells sustain proliferative signalling even under conditions of limited oxygen availability. PMID:25420773

APA/APAGS Award for Distinguished Graduate Student in Professional Psychology.

PubMed

2016-11-01

The APA/APAGS Award for Distinguished Graduate Student in Professional Psychology is awarded on an annual basis by the APA Board of Professional Affairs (BPA) and the American Psychological Association of Graduate Students (APAGS) to a graduate student who has demonstrated outstanding practice and application of psychology. A qualified candidate must demonstrate exemplary performance in working with an underserved population in an applied setting or have developed an innovative method for delivering health services to an underserved population. The 2016 recipient of the APA/APAGS Award for Distinguished Graduate Student in Professional Psychology was selected by the 2015 Board of Professional Affairs (BPA) and the 2015 APAGS Scholarship and Awards Selection Committee. Members of the 2015 BPA were Patricia Arredondo, EdD; Helen L. Coons, PhD, ABPP; Vickie Mays, PhD, MSPH; Linda A. Reddy, PhD; Lois O. Condi, PhD; Antonette M. Zeiss, PhD; Timothy A. Cavell, PhD; Robert T. Kinscherff, PhD, JD; and Jared L. Skillings, PhD, ABPP. Members of the 2015 APAGS Scholarship and Awards Selection Committee were Emily Voelkel, PhD; Blaire Schembari; and Yolanda Perkins-Volk. (PsycINFO Database Record (c) 2016 APA, all rights reserved).

Mutation analysis of HIF prolyl hydroxylases (PHD/EGLN) in individuals with features of phaeochromocytoma and renal cell carcinoma susceptibility.

PubMed

Astuti, Dewi; Ricketts, Christopher J; Chowdhury, Rasheduzzaman; McDonough, Michael A; Gentle, Dean; Kirby, Gail; Schlisio, Susanne; Kenchappa, Rajappa S; Carter, Bruce D; Kaelin, William G; Ratcliffe, Peter J; Schofield, Christopher J; Latif, Farida; Maher, Eamonn R

2011-02-01

Germline mutations in the von Hippel-Lindau disease (VHL) and succinate dehydrogenase subunit B (SDHB) genes can cause inherited phaeochromocytoma and/or renal cell carcinoma (RCC). Dysregulation of the hypoxia-inducible factor (HIF) transcription factors has been linked to VHL and SDHB-related RCC; both HIF dysregulation and disordered function of a prolyl hydroxylase domain isoform 3 (PHD3/EGLN3)-related pathway of neuronal apoptosis have been linked to the development of phaeochromocytoma. The 2-oxoglutarate-dependent prolyl hydroxylase enzymes PHD1 (EGLN2), PHD2 (EGLN1) and PHD3 (EGLN3) have a key role in regulating the stability of HIF-α subunits (and hence expression of the HIF-α transcription factors). A germline PHD2 mutation has been reported in association with congenital erythrocytosis and recurrent extra-adrenal phaeochromocytoma. We undertook mutation analysis of PHD1, PHD2 and PHD3 in two cohorts of patients with features of inherited phaeochromocytoma (n=82) and inherited RCC (n=64) and no evidence of germline mutations in known susceptibility genes. No confirmed pathogenic mutations were detected suggesting that mutations in these genes are not a frequent cause of inherited phaeochromocytoma or RCC.

APA/APAGS Award for Distinguished Graduate Student in Professional Psychology.

PubMed

2017-12-01

The APA/APAGS Award for Distinguished Graduate Student in Professional Psychology is awarded on an annual basis by the APA Board of Professional Affairs (BPA) and the American Psychological Association of Graduate Students (APAGS) to a graduate student who has demonstrated outstanding practice and application of psychology. A qualified candidate must demonstrate exemplary performance in working with an underserved population in an applied setting or have developed an innovative method for delivering health services to an underserved population. The 2017 recipient of the APA/APAGS Award for Distinguished Graduate Student in Professional Psychology was selected by the 2016 Board of Professional Affairs (BPA) and the 2016 APAGS Scholarship and Awards Selection Committee. Members of the 2016 BPA were Antonette M. Zeiss, PhD (Chair); Linda A. Reddy, PhD; Lois O. Condie, PhD; Timothy A. Cavell, PhD; Robert T. Kinscherff, PhD, JD; Jared L. Skillings, PhD, ABPP; Cynthia A. Gómez, PhD; Lisa K. Kearney, PhD, ABPP; and Dinelia Rosa, PhD. Members of the 2016 APAGS Scholarship and Awards Selection Committee were Jerrold Yeo, MA; Jacklynn Fitzgerald, MA; and Roseann Fish Getchell, MA, Med. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

Characterization of NF1 Protein Ubiquitination

DTIC Science & Technology

2008-06-01

Ubiquitination PRINCIPAL INVESTIGATOR: Koko Murakami, Ph.D. Victor A Fried, Ph.D. CONTRACTING ORGANIZATION: New York Medical College...NUMBER W81XWH-07-1-0432 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) Koko Murakami, Ph.D.; Victor A Fried, Ph.D. 5d. PROJECT NUMBER 5e. TASK

Strategic Studies Quarterly. Volume 8, Number 1, Spring 2014

DTIC Science & Technology

2014-01-01

Charles E. Costanzo, PhD Christopher M. Hemmer, PhD Kimberly A. Hudson, PhD Nori Katagiri, PhD Zachary J . Zwald, PhD Strategic Studies Quarterly (SSQ...first successful carrier-based takeoff and landing with the Jian-15 ( J -15) in November 2012, certified its first group of aircraft carrier pilots and...September 2013.3 The Liaoning will continue to conduct short deployments and shipboard aviation training until 2015 to 2016, when China’s first J -15

Carbon Metabolic Pathways in Phototrophic Bacteria and Their Broader Evolutionary Implications

PubMed Central

Tang, Kuo-Hsiang; Tang, Yinjie J.; Blankenship, Robert Eugene

2011-01-01

Photosynthesis is the biological process that converts solar energy to biomass, bio-products, and biofuel. It is the only major natural solar energy storage mechanism on Earth. To satisfy the increased demand for sustainable energy sources and identify the mechanism of photosynthetic carbon assimilation, which is one of the bottlenecks in photosynthesis, it is essential to understand the process of solar energy storage and associated carbon metabolism in photosynthetic organisms. Researchers have employed physiological studies, microbiological chemistry, enzyme assays, genome sequencing, transcriptomics, and 13C-based metabolomics/fluxomics to investigate central carbon metabolism and enzymes that operate in phototrophs. In this report, we review diverse CO2 assimilation pathways, acetate assimilation, carbohydrate catabolism, the tricarboxylic acid cycle and some key, and/or unconventional enzymes in central carbon metabolism of phototrophic microorganisms. We also discuss the reducing equivalent flow during photoautotrophic and photoheterotrophic growth, evolutionary links in the central carbon metabolic network, and correlations between photosynthetic and non-photosynthetic organisms. Considering the metabolic versatility in these fascinating and diverse photosynthetic bacteria, many essential questions in their central carbon metabolism still remain to be addressed. PMID:21866228

Lineage-specific genomics: Frequent birth and death in the human genome: The human genome contains many lineage-specific elements created by both sequence and functional turnover.

PubMed

Young, Robert S

2016-07-01

Frequent evolutionary birth and death events have created a large quantity of biologically important, lineage-specific DNA within mammalian genomes. The birth and death of DNA sequences is so frequent that the total number of these insertions and deletions in the human population remains unknown, although there are differences between these groups, e.g. transposable elements contribute predominantly to sequence insertion. Functional turnover - where the activity of a locus is specific to one lineage, but the underlying DNA remains conserved - can also drive birth and death. However, this does not appear to be a major driver of divergent transcriptional regulation. Both sequence and functional turnover have contributed to the birth and death of thousands of functional promoters in the human and mouse genomes. These findings reveal the pervasive nature of evolutionary birth and death and suggest that lineage-specific regions may play an important but previously underappreciated role in human biology and disease. © 2016 The Authors BioEssays Published by WILEY Periodicals, Inc.

A Powerful Toolkit for Synthetic Biology: Over 3.8 Billion Years of Evolution

NASA Technical Reports Server (NTRS)

Rothschild, Lynn J.

2010-01-01

The combination of evolutionary with engineering principles will enhance synthetic biology. Conversely, synthetic biology has the potential to enrich evolutionary biology by explaining why some adaptive space is empty, on Earth or elsewhere. Synthetic biology, the design and construction of artificial biological systems, substitutes bio-engineering for evolution, which is seen as an obstacle. But because evolution has produced the complexity and diversity of life, it provides a proven toolkit of genetic materials and principles available to synthetic biology. Evolution operates on the population level, with the populations composed of unique individuals that are historical entities. The source of genetic novelty includes mutation, gene regulation, sex, symbiosis, and interspecies gene transfer. At a phenotypic level, variation derives from regulatory control, replication and diversification of components, compartmentalization, sexual selection and speciation, among others. Variation is limited by physical constraints such as diffusion, and chemical constraints such as reaction rates and membrane fluidity. While some of these tools of evolution are currently in use in synthetic biology, all ought to be examined for utility. A hybrid approach of synthetic biology coupled with fine-tuning through evolution is suggested

A powerful toolkit for synthetic biology: Over 3.8 billion years of evolution.

PubMed

Rothschild, Lynn J

2010-04-01

The combination of evolutionary with engineering principles will enhance synthetic biology. Conversely, synthetic biology has the potential to enrich evolutionary biology by explaining why some adaptive space is empty, on Earth or elsewhere. Synthetic biology, the design and construction of artificial biological systems, substitutes bio-engineering for evolution, which is seen as an obstacle. But because evolution has produced the complexity and diversity of life, it provides a proven toolkit of genetic materials and principles available to synthetic biology. Evolution operates on the population level, with the populations composed of unique individuals that are historical entities. The source of genetic novelty includes mutation, gene regulation, sex, symbiosis, and interspecies gene transfer. At a phenotypic level, variation derives from regulatory control, replication and diversification of components, compartmentalization, sexual selection and speciation, among others. Variation is limited by physical constraints such as diffusion, and chemical constraints such as reaction rates and membrane fluidity. While some of these tools of evolution are currently in use in synthetic biology, all ought to be examined for utility. A hybrid approach of synthetic biology coupled with fine-tuning through evolution is suggested.

Field implementation of fiber-reinforced polymer (FRP) deck panels.

DOT National Transportation Integrated Search

2017-06-01

Jeffery S. Volz, S.E., P.E., Ph.D., Kamal H. Khayat, PhD, P.Eng. http://orcid.org/0000-0003-1431-0715, Soo Duck Hwang, Ph.D. http://orcid.org/0000-0003-2178-1531, Hesham Tuwair, Ph.D., Jonathan T. Drury, Amy S. Crone : Although still in their infancy...

Annual Conference on Human Retrovirus Testing (7th) held in Chicago, IL on March 3-5, 1992

DTIC Science & Technology

1993-04-05

Ph.D.; Charles Sehable, M.S.; Judith Wethers , M.S.; Judith Wilber, Ph.D. This conference was supported, in part, by a firancial graot from the...Westerman Bill Roberts Judith Wethers , M.S. U Col Chester Roberts, Ph.D. Julianne Wiese Jeanette V Roman Helen Wiprud Gene F Robertson, Ph.D. JoAnn L Yee...RHgmor Thorstensson, Ph.D., National Judith Wethers , M.S., Director of Testing Bacteriological Lab Services. Retrovirology Lab.. New York Ralph

Deletion or Inhibition of the Oxygen Sensor PHD1 Protects against Ischemic Stroke via Reprogramming of Neuronal Metabolism.

PubMed

Quaegebeur, Annelies; Segura, Inmaculada; Schmieder, Roberta; Verdegem, Dries; Decimo, Ilaria; Bifari, Francesco; Dresselaers, Tom; Eelen, Guy; Ghosh, Debapriva; Davidson, Shawn M; Schoors, Sandra; Broekaert, Dorien; Cruys, Bert; Govaerts, Kristof; De Legher, Carla; Bouché, Ann; Schoonjans, Luc; Ramer, Matt S; Hung, Gene; Bossaert, Goele; Cleveland, Don W; Himmelreich, Uwe; Voets, Thomas; Lemmens, Robin; Bennett, C Frank; Robberecht, Wim; De Bock, Katrien; Dewerchin, Mieke; Ghesquière, Bart; Fendt, Sarah-Maria; Carmeliet, Peter

2016-02-09

The oxygen-sensing prolyl hydroxylase domain proteins (PHDs) regulate cellular metabolism, but their role in neuronal metabolism during stroke is unknown. Here we report that PHD1 deficiency provides neuroprotection in a murine model of permanent brain ischemia. This was not due to an increased collateral vessel network. Instead, PHD1(-/-) neurons were protected against oxygen-nutrient deprivation by reprogramming glucose metabolism. Indeed, PHD1(-/-) neurons enhanced glucose flux through the oxidative pentose phosphate pathway by diverting glucose away from glycolysis. As a result, PHD1(-/-) neurons increased their redox buffering capacity to scavenge oxygen radicals in ischemia. Intracerebroventricular injection of PHD1-antisense oligonucleotides reduced the cerebral infarct size and neurological deficits following stroke. These data identify PHD1 as a regulator of neuronal metabolism and a potential therapeutic target in ischemic stroke. Copyright © 2016 Elsevier Inc. All rights reserved.

What Took Them So Long? Explaining PhD Delays among Doctoral Candidates

PubMed Central

van de Schoot, Rens; Yerkes, Mara A.; Mouw, Jolien M.; Sonneveld, Hans

2013-01-01

A delay in PhD completion, while likely undesirable for PhD candidates, can also be detrimental to universities if and when PhD delay leads to attrition/termination. Termination of the PhD trajectory can lead to individual stress, a loss of valuable time and resources invested in the candidate and can also mean a loss of competitive advantage. Using data from two studies of doctoral candidates in the Netherlands, we take a closer look at PhD duration and delay in doctoral completion. Specifically, we address the question: Is it possible to predict which PhD candidates will experience delays in the completion of their doctorate degree? If so, it might be possible to take steps to shorten or even prevent delay, thereby helping to enhance university competitiveness. Moreover, we discuss practical do's and don'ts for universities and graduate schools to minimize delays. PMID:23935895

DELETION OR INHIBITION OF THE OXYGEN SENSOR PHD1 PROTECTS AGAINST ISCHEMIC STROKE VIA REPROGRAMMING OF NEURONAL METABOLISM

PubMed Central

Quaegebeur, Annelies; Segura, Inmaculada; Schmieder, Roberta; Verdegem, Dries; Decimo, Ilaria; Bifari, Francesco; Dresselaers, Tom; Eelen, Guy; Ghosh, Debapriva; Schoors, Sandra; Janaki Raman, Sudha Rani; Cruys, Bert; Govaerts, Kristof; De Legher, Carla; Bouché, Ann; Schoonjans, Luc; Ramer, Matt S.; Hung, Gene; Bossaert, Goele; Cleveland, Don W.; Himmelreich, Uwe; Voets, Thomas; Lemmens, Robin; Bennett, C. Frank; Robberecht, Wim; De Bock, Katrien; Dewerchin, Mieke; Fendt, Sarah-Maria; Ghesquière, Bart; Carmeliet, Peter

2016-01-01

Summary The oxygen-sensing prolyl hydroxylase domain proteins (PHDs) regulate cellular metabolism, but their role in neuronal metabolism during stroke is unknown. Here we report that PHD1 deficiency provides neuroprotection in a murine model of permanent brain ischemia. This was not due to an increased collateral vessel network, nor to enhanced neurotrophin expression. Instead, PHD1−/− neurons were protected against oxygen-nutrient deprivation by reprogramming glucose metabolism. Indeed, PHD1−/− neurons enhanced glucose flux through the oxidative pentose phosphate pathway by diverting glucose from glycolysis. As a result, PHD1−/− neurons increased their redox buffering capacity to scavenge oxygen radicals in ischemia. Intracerebroventricular injection of PHD1-antisense oligonucleotides reduced the cerebral infarct size and neurological deficits following stroke. These data identify PHD1 as a novel regulator of neuronal metabolism and a potential therapeutic target in ischemic stroke. PMID:26774962

CLONING, EXPRESSION, AND MUTATIONAL ANALYSIS OF RAT S-ADENOSYL-1-METHIONINE: ARSENIC (III) METHYLTRANSFERASE

EPA Science Inventory

CLONING, EXPRESSION, AND MUTATIONAL ANALYSIS OF RAT
S-ADENOSYL-L-METHIONINE: ARSENIC(III) METHYLTRANSFERASE

Stephen B. Waters, Ph.D., Miroslav Styblo, Ph.D., Melinda A. Beck, Ph.D., University of North Carolina at Chapel Hill; David J. Thomas, Ph.D., U.S. Environmental...

78 FR 17207 - Granting of Request for Early Termination of the Waiting Period Under the Premerger Notification...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-03-20

.... 20130471 G Sun Pharmaceutical Industries Limited; Takeda Pharmaceutical Company Limited; Sun Pharmaceutical.... Martin, Ph.D.; Gilead Sciences, Inc.; John C. Martin, Ph.D. 20130547 G Jindal Poly Films Limited; Exxon... Norbert W. Bischofberger, Ph.D.; Gilead Sciences, Inc.; Norbert W. Bischofberger, Ph.D. 20130611 G...

A Multiattributes Approach for Ranking PhD Programs

ERIC Educational Resources Information Center

Urbancic, Frank R.

2008-01-01

In its plan to combat the PhD shortage crisis, the Association to Advance Collegiate Schools of Business International (AACSB; 2003) has called for the development of PhD program rankings to serve as incentives for academic institutions to invest more in PhD programs, thereby counterbalancing the disproportionate influence of master of business…

Prolyl-4-hydroxylase domain 3 (PHD3) is a critical terminator for cell survival of macrophages under stress conditions.

PubMed

Swain, Lija; Wottawa, Marieke; Hillemann, Annette; Beneke, Angelika; Odagiri, Haruki; Terada, Kazutoyo; Endo, Motoyoshi; Oike, Yuichi; Farhat, Katja; Katschinski, Dörthe M

2014-09-01

On a molecular level, cells sense changes in oxygen availability through the PHDs, which regulate the protein stability of the α-subunit of the transcription factor HIF. Especially, PHD3 has been additionally associated with apoptotic cell death. We hypothesized that PHD3 plays a role in cell-fate decisions in macrophages. Therefore, myeloid-specific PHD3(-/-) mice were created and analyzed. PHD3(-/-) BMDM showed no altered HIF-1α or HIF-2α stabilization or increased HIF target gene expression in normoxia or hypoxia. Macrophage M1 and M2 polarization was unchanged likewise. Compared with macrophages from WT littermates, PHD3(-/-) BMDM exhibited a significant reduction in TUNEL-positive cells after serum withdrawal or treatment with stauro and SNAP. Under the same conditions, PHD3(-/-) BMDM also showed less Annexin V staining, which is representative for membrane disruption, and indicated a reduced early apoptosis. In an unbiased transcriptome screen, we found that Angptl2 expression was reduced in PHD3(-/-) BMDM under stress conditions. Addition of rAngptl2 rescued the antiapoptotic phenotype, demonstrating that it is involved in the PHD3-mediated response toward apoptotic stimuli in macrophages. © 2014 Society for Leukocyte Biology.

Germ-line PHD1 and PHD2 mutations detected in patients with pheochromocytoma/paraganglioma-polycythemia.

PubMed

Yang, Chunzhang; Zhuang, Zhengping; Fliedner, Stephanie M J; Shankavaram, Uma; Sun, Michael G; Bullova, Petra; Zhu, Roland; Elkahloun, Abdel G; Kourlas, Peter J; Merino, Maria; Kebebew, Electron; Pacak, Karel

2015-01-01

We have investigated genetic/pathogenetic factors associated with a new clinical entity in patients presenting with pheochromocytoma/paraganglioma (PHEO/PGL) and polycythemia. Two patients without hypoxia-inducible factor 2α (HIF2A) mutations, who presented with similar clinical manifestations, were analyzed for other gene mutations, including prolyl hydroxylase (PHD) mutations. We have found for the first time a germ-line mutation in PHD1 in one patient and a novel germ-line PHD2 mutation in a second patient. Both mutants exhibited reduced protein stability with substantial quantitative protein loss and thus compromised catalytic activities. Due to the unique association of patients' polycythemia with borderline or mildly elevated erythropoietin (EPO) levels, we also performed an in vitro sensitivity assay of erythroid progenitors to EPO and for EPO receptor (EPOR) expression. The results show inappropriate hypersensitivity of erythroid progenitors to EPO in these patients, indicating increased EPOR expression/activity. In addition, the present study indicates that HIF dysregulation due to PHD mutations plays an important role in the pathogenesis of these tumors and associated polycythemia. The PHD1 mutation appears to be a new member contributing to the genetic landscape of this novel clinical entity. Our results support the existence of a specific PHD1- and PHD2-associated PHEO/PGL-polycythemia disorder. • A novel germ-l i n e PHD1 mutation causing heochromocytoma/paraganglioma and polycythemia. • Increased EPOR activity and inappropriate hypersensitivity of erythroid progenitors to EPO.

Pre-hospital discharge testing of defibrillator without anesthesia: effects on psychological symptoms during clinical follow-up.

PubMed

Petrowski, Katja; Wintermann, Gloria-Beatrice; Petzold, Christian; Strasser, Ruth H; Guenther, Michael

2013-09-01

After the implantation of an implantable cardioverter-defibrillator (ICD), patients often fear therapeutic shock. The extent to which the experience of pre-hospital discharge (PHD) testing without anesthesia after ICD implantation, under observation by a physician, affects shock-related anxiety symptoms on follow-up has not been investigated as yet. In a prospective, randomized controlled trial, 44 patients with a primary prevention indication for an ICD were randomly assigned to experience PHD testing without anesthesia (n = 23) or with anesthesia (n = 21). Patients were longitudinally evaluated before (T(1)), shortly after (T(2)), and 3 months after (T(3)) PHD testing. During the respective PHD testings, the course of patients' serum cortisol release was measured. During PHD testing, patients without anesthesia showed a significantly higher serum cortisol release than patients with anesthesia (F(4,152) = 22.227, p < .001). Patients who experienced PHD testing without anesthesia felt significantly safer with the ICD (U = 165.000, p = .040), would significantly more often recommend other patients to undergo PHD testing without anesthesia (χ(2) = 12.013, p = .002), and showed significantly lower levels of general shock-related anxiety shortly afterward (F(1,42) = 6.327, p = .02) and 3 months after PHD testing (F(1,41) = 8.603, p = .005). The implementation of PHD testing without anesthesia is associated with lower anxiety concerning therapeutic shock. Patients should be advised about the effects of PHD testing without anesthesia on their psychological well-being in the long run.

Meaningful Engagement of Organizational and Agency Partnerships to Enhance Diversity within the Earth System Science Community: A Case Study

NASA Astrophysics Data System (ADS)

Pyrtle, A. J.; Whitney, V. W.; Powell, J. M.; Bailey, K. L.

2006-12-01

The Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science Initiative (MS PHD'S) was established by and for underrepresented minorities to facilitate increased and sustained participation in Earth system science community. The MS PHD'S launched its pilot program in 2003 with twenty professional organizations, agencies and institutions as partners. Each year partnership alliances have grown. In the second year or programming, thirty-one partnering agencies/institutions supported involvement of MS PHD'S student participants and for 2005-2006, representatives from forty-five agencies and institutions have provided similar support and exposure to the third cohort of student participants. Nineteen scientists served as meeting mentors during the MS PHD'S pilot program in 2003. By the following year, twenty-two additional scientists partnered with MS PHD'S mentees. During 2005-2006, twenty-one new scientists served as program mentors. Thus far, the MS PHD'S program has successfully engaged sixty-two minority and non-minority scientists as mentors to MS PHD'S student participants. AGU, AMS, ASLO, ESA, TOS, NAS OSB and JOI continue to serve as MS PHD'S Society Partners and hosts for MS PHD'S student activities in conjunction with their meetings. Each of the five professional society partners provided assistance in identifying mentors, provided complimentary memberships and meeting registrations for MS PHD'S student participants. AGU, AMS, ASLO, JOI and TOS have sponsored more than 90 conference registration and travel awards for the purpose of student participants engaging in MS PHD'S Professional Development Program Phase 2 activities at their international meetings. How did MS PHD'S establish meaningful engagement of organizational and agency partnerships to enhance diversity within the Earth system science community? This case study reveals replicable processes and constructs to enhance the quality of meaningful collaboration and engagement. In addition, the study addresses frequently asked questions (FAQ's) on the formation and sustenance of partnerships among principal investigators and evaluators and the impact of this partnership on writing proposals, implementing and evaluating program activities and outcomes.

I-determinants for a successful PhD or postdoctoral outcome.

PubMed

Sørensen, Henrik Toft

2016-01-01

Many resources are invested in research training, but very little literature exists on predictors for a successful PhD and postdoctoral training outcome. A PhD program has two overall objectives: to extend knowledge about a hopefully important health topic and to provide extensive training to improve the PhD student's skills through learning research methods and collaboration. A substantial number of PhD students may run into some kind of problem in the course of their PhD program. In this article, some determinants all starting with an "I" and indicative of a good PhD outcome are reported. The successful PhD student can be described as having an Interest in the PhD program, an Incentive for the program, and an Idea of what he or she wants to investigate, showing Initiative, and having high personal Integrity and good Interpersonal relationships. When these so-called I-determinants are present, the likelihood of success in a PhD program is high. More evidence is available for selection of candidates for postdoctoral appointments since it is known that the postdoctoral candidate has completed a PhD program, published papers in peer-reviewed journals, and received awarded grants. However, other characteristics determine a successful transition of the postdoctoral candidate into a research leader. These determinants are Identity, Independence and Image, Implementation ability in terms of being able to implement decisions and projects, working with Innovative and Important topics, having In-depth knowledge of the research topic, being Interactive and Integrated with the scientific community, and Internationally oriented. In conclusion, regardless of the framework of research, the personal characteristics of a researcher play a very important role in the quality of research. Application of some of the principles mentioned in this article might allow decision to reach a more evidence-based way to recruit PhD students and postdoctorals.

I-determinants for a successful PhD or postdoctoral outcome

PubMed Central

Sørensen, Henrik Toft

2016-01-01

Many resources are invested in research training, but very little literature exists on predictors for a successful PhD and postdoctoral training outcome. A PhD program has two overall objectives: to extend knowledge about a hopefully important health topic and to provide extensive training to improve the PhD student’s skills through learning research methods and collaboration. A substantial number of PhD students may run into some kind of problem in the course of their PhD program. In this article, some determinants all starting with an “I” and indicative of a good PhD outcome are reported. The successful PhD student can be described as having an Interest in the PhD program, an Incentive for the program, and an Idea of what he or she wants to investigate, showing Initiative, and having high personal Integrity and good Interpersonal relationships. When these so-called I-determinants are present, the likelihood of success in a PhD program is high. More evidence is available for selection of candidates for postdoctoral appointments since it is known that the postdoctoral candidate has completed a PhD program, published papers in peer-reviewed journals, and received awarded grants. However, other characteristics determine a successful transition of the postdoctoral candidate into a research leader. These determinants are Identity, Independence and Image, Implementation ability in terms of being able to implement decisions and projects, working with Innovative and Important topics, having In-depth knowledge of the research topic, being Interactive and Integrated with the scientific community, and Internationally oriented. In conclusion, regardless of the framework of research, the personal characteristics of a researcher play a very important role in the quality of research. Application of some of the principles mentioned in this article might allow decision to reach a more evidence-based way to recruit PhD students and postdoctorals. PMID:27574466

Stellar population models in the Near-Infrared (Ph.D. thesis)

NASA Astrophysics Data System (ADS)

Meneses-Goytia, Sofia

2015-11-01

The study of early-type elliptical and lenticular galaxies provides important information about the formation and evolution of galaxies in the early Universe. These distant systems cannot be studied by looking at their individual stars but information can still be obtained by studying their unresolved spectrum in detail. During my PhD I have constructed accurate unresolved stellar population models for populations of a single age and metallicity in the near-infrared range. The extension to the NIR is important for the study of early-type galaxies, since these galaxies are predominantly old and therefore emit most of their light in this wavelength range. The models are based on the NASA IRTF library of empirical stellar spectra. Integrating these spectra along theoretical isochrones, while assuming an initial mass function, we have produced model spectra of single age-metallicity stellar populations at an intermediate resolution. Comparison to literature results show that our models are well suited for studying stellar populations in unresolved galaxies. They are particularly useful for studying the old and intermediate-age stellar populations in galaxies, relatively free from contamination of young stars and extinction by dust. Subsequently, we use the models to fit the observed spectra of globular clusters and galaxies, to derive their age distribution, chemical abundances and IMF properties. We show that the contribution of AGB stars to the galaxy spectrum is clearly larger in the field than it is in the Fornax cluster. This implies that the environment plays an important role in driving the evolutionary histories of the galaxies.

NASA Graduate Student Researchers Program Ronald E. McNair PhD Program

NASA Technical Reports Server (NTRS)

Howard, Sunnie

1998-01-01

The NASA Ronald E. McNair PHD Program was funded in September 1995. Implementation began during the spring of 1996. The deferment of the actual program initial semester enabled the program to continue support through the fall semester of 1998. This was accomplished by a no-cost extension from August 15, 1998 through December 31, 1998. There were 12 fellows supported by the program in 1996, 15 fellows in 1997, and 15 fellows 1998. Current program capacity is 15 fellows per funding support. Support for the academic outreach component began in spring 1998. The program was named the "Good Enough" Crew Activity (GECA) in honor of Dr. McNair's philosophy of everyone being good enough to achieve anything they want bad enough. The program currently enrolls 65 students from the third through the eight grades. The program is held 12 Saturdays per semester. The time is 9:00 AM to 12:30 PM each Saturday Morning. Program direction and facilitation is jointly administered with the PHD fellows and the Saturday Academy staff. Dr. John Kelly, REM-PHD Principal Investigator serves in a program oversight and leadership capacity. Ms. Sunnie Howard, The NASA REM-PHD Administrative Coordinator serves in an administrative and logistical capacity. Mr. Aaron Hatch, the NASA-AMES Liaison Officer, serve@'in a consultative and curriculum review capacity. The first recognition activity will be held on December 12, 1998, with the students, parents, faculty, PHD fellows, and other local student support services persons. Program outreach efforts are jointly supported by the NASA REM-PHD Program and the National Space Grant College and Fellowship Program. The Ph.D. program reached its first milestone in May 1998. North Carolina A&T State University graduated the first Ph.D. fellows. The first three Ph.D. Alumni were Ronald E. McNair PHD Program Fellows. It is hoped that this is just the beginning of a highly acclaimed doctoral program. The ultimate program success will be recognized when the program begins to graduate 15 fellows per year. The Ph.D. Program is only three and a half years old and the expectations of graduating PH.D's in that timeframe, is a phenomenal accomplishment for any program in the country. Since inception of the NASA REM-PHD program, tuitions and fees have increased. Stipend support was increased to offer the Ph.D. program on a competitive basis. These increases will place allocation restraints on r_ the current level of funding. These issues are being addressed in the proposal and will bear their own merit.

Online PhD Program Delivery Models and Their Relationship to Student Success

ERIC Educational Resources Information Center

Jorissen, Shari L.

2012-01-01

Attrition rates in Ph.D. programs are at approximately 50% in traditional Ph.D. programs and 10-20% higher in online Ph.D. programs. Understanding the relationship between student factors, measures of student success (retention, graduation, year to degree), and student satisfaction is important to support and improve retention, graduation rates,…

Undertaking Individual Transdisciplinary PhD Research for Sustainable Development: Case Studies from South Africa

ERIC Educational Resources Information Center

van Breda, John; Musango, Josephine; Brent, Alan

2016-01-01

Purpose: This paper aims to improve the understanding of individual transdisciplinary PhD research in a developing country context, focusing on three individual PhD case studies in South Africa. Design/Methodology/Approach: Multiple-case method was used, and three completed transdisciplinary PhD research efforts undertaken at the Stellenbosch…

PhD Funding as a Determinant of PhD and Career Research Performance

ERIC Educational Resources Information Center

Horta, Hugo; Cattaneo, Mattia; Meoli, Michele

2018-01-01

This article focuses on the effects of PhD funding on research performance both during the degree and throughout researchers' careers as measured through publications and citations. This analysis draws from a representative sample of researchers holding a doctorate based in Portugal and finds that those funded by grants during the PhD perform…

International PhD Students in Australian Universities: Financial Support, Course Experience and Career Plans

ERIC Educational Resources Information Center

Harman, G.

2003-01-01

Using data from a social survey of PhD students in two major Australian universities supplemented by student interviews, this article reports on the financial support, course experience and career plans of international PhD students. While most international PhD students hold scholarships which include stipends, a minority of students experience…

A Reconsideration of the Ph.D.

ERIC Educational Resources Information Center

Nichols, Roy F.

1967-01-01

One of the major problems in doctoral education, the shortage of Ph.D. holders, is discussed. A brief history of the German influence on graduate schools in the United States is given to suggest the reasons why the traditional Ph.D. is not designed for present needs. Suggestions are given for a more effective Ph.D. curriculum which will meet the…

High Power, Millimeter-Wavelength, Coherent Radiation Sources.

DTIC Science & Technology

1986-09-25

J . Murphy, Ph.D. (1982). 5. M. Abdelkarim , Ph.D. (1984). 6. T. Buller, Ph.D. (1985). a 7. B. Johnson, Ph.D. (1985). 8. E. Garate, Ph.D. (1985). 9. R...AD-A174 521 HIGH POWER KILL IMETER-WAVELENGTH COHERENTRAITO 1/ SOURCES(U) DARTMOUTH COLL HANOVER N H DEPT OF PHYSICS AND ASTRONOMY J E WALSH 25 SEP...82 - 1/31/86 -.: AIR F , 2 ..... . . T . ... ...... , 7 Approved for public release;"":" " ’n2. j ;’L’-’ ,- -"!d ,-d 12 l . 7. ... - ’ " + d. Chief

Acceptance of a systematic review as a thesis: survey of biomedical doctoral programs in Europe.

PubMed

Puljak, Livia; Sapunar, Damir

2017-12-12

Systematic reviews (SRs) have been proposed as a type of research methodology that should be acceptable for a graduate research thesis. The aim of this study was to analyse whether PhD theses in European biomedical graduate programs can be partly or entirely based on SRs. In 2016, we surveyed individuals in charge of European PhD programs from 105 institutions. The survey asked about acceptance of SRs as the partial or entire basis for a PhD thesis, their attitude towards such a model for PhD theses, and their knowledge about SR methodology. We received responses from 86 individuals running PhD programs in 68 institutions (institutional response rate of 65%). In 47% of the programs, SRs were an acceptable study design for a PhD thesis. However, only 20% of participants expressed a personal opinion that SRs meet the criteria for a PhD thesis. The most common reasons for not accepting SRs as the basis for PhD theses were that SRs are 'not a result of a PhD candidate's independent work, but more of a team effort' and that SRs 'do not produce enough new knowledge for a dissertation'. The majority of participants were not familiar with basic concepts related to SRs; questions about meta-analyses and the type of plots frequently used in SRs were correctly answered by only one third of the participants. Raising awareness about the importance of SRs and their methodology could contribute to higher acceptance of SRs as a type of research that forms the basis of a PhD thesis.

Driver performance and behavior in adverse weather conditions : an investigation using the SHRP2 naturalistic driving study data--phase 1.

DOT National Transportation Integrated Search

2015-12-01

Mohamed M. Ahmed, Ph.D., P.E. (orcid.org/0000-0002-1921-0724) : Ali Ghasemzadeh, M.Sc. (orcid.org/0000-0003-1232-251X) : Hesham Eldeeb, Ph.D. : Sherif Gaweesh, M.Sc. (orcid.org/0000-0001-7977-6378) : Joshua Clapp, Ph.D. : Khaled Ksaibati, Ph.D., P.E....

How Prepared Are MSW Graduates for Doctoral Research? Views of PhD Research Faculty

ERIC Educational Resources Information Center

Drisko, James W.; Evans, Kristin

2018-01-01

This national survey of PhD faculty assessed the research preparation of entering doctoral social work students on a wide range of research knowledge and related skills. The prior literature shows that PhD programs repeat much BSW and MSW research course content. This study shows that the trend continues and has perhaps widened. PhD research…

A bacterium that can grow by using arsenic instead of phosphorus

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

Wolfe-Simon, F; Blum, J S; Kulp, T R

Life is mostly composed of the elements carbon, hydrogen, nitrogen, oxygen, sulfur and phosphorus. Although these six elements make up nucleic acids, proteins and lipids and thus the bulk of living matter, it is theoretically possible that some other elements in the periodic table could serve the same functions. Here we describe a bacterium, strain GFAJ-1 of the Halomonadaceae, isolated from Mono Lake, CA, which substitutes arsenic for phosphorus to sustain its growth. Our data show evidence for arsenate in macromolecules that normally contain phosphate, most notably nucleic acids and proteins. Exchange of one of the major bio-elements may havemore » profound evolutionary and geochemical significance.« less

A bacterium that can grow by using arsenic instead of phosphorus

USGS Publications Warehouse

Wolfe-Simon, Felisa; Blum, J.S.; Kulp, T.R.; Gordon, G.W.; Hoeft, S.E.; Pett-Ridge, J.; Stolz, J.F.; Webb, S.M.; Weber, P.K.; Davies, P.C.W.; Anbar, A.D.; Oremland, R.S.

2011-01-01

Life is mostly composed of the elements carbon, hydrogen, nitrogen, oxygen, sulfur, and phosphorus. Although these six elements make up nucleic acids, proteins, and lipids and thus the bulk of living matter, it is theoretically possible that some other elements in the periodic table could serve the same functions. Here, we describe a bacterium, strain GFAJ-1 of the Halomonadaceae, isolated from Mono Lake, California, that is able to substitute arsenic for phosphorus to sustain its growth. Our data show evidence for arsenate in macromolecules that normally contain phosphate, most notably nucleic acids and proteins. Exchange of one of the major bio-elements may have profound evolutionary and geochemical importance.

Sensitivity analysis of multi-objective optimization of CPG parameters for quadruped robot locomotion

NASA Astrophysics Data System (ADS)

Oliveira, Miguel; Santos, Cristina P.; Costa, Lino

2012-09-01

In this paper, a study based on sensitivity analysis is performed for a gait multi-objective optimization system that combines bio-inspired Central Patterns Generators (CPGs) and a multi-objective evolutionary algorithm based on NSGA-II. In this system, CPGs are modeled as autonomous differential equations, that generate the necessary limb movement to perform the required walking gait. In order to optimize the walking gait, a multi-objective problem with three conflicting objectives is formulated: maximization of the velocity, the wide stability margin and the behavioral diversity. The experimental results highlight the effectiveness of this multi-objective approach and the importance of the objectives to find different walking gait solutions for the quadruped robot.

Academic and research misconduct in the PhD: issues for students and supervisors.

PubMed

Mitchell, Theresa; Carroll, Jude

2008-02-01

There are many pressures upon PhD students not least the requirement to make an original or significant contribution to knowledge. Some students, confronted with complex research processes, might adopt practices that compromise standards that are unacceptable within a research community. These practices challenge the PhD student-supervisor relationship and have implication for the individual, the supervisory team, the institution, the awarding body and the wider research context. Discussion relating to misconduct within the PhD is of international importance if the aim is to encourage and facilitate rigorous research practice. Cases involving academic and research misconduct, especially those occurring at PhD level, are likely to become more frequent as numbers of PhD students increase and will demand appropriate, defensible responses from supervisors. Misconduct during PhD study can be difficult to resolve because of lack of clarity in definitions, supervisor naiveté and failure to acknowledge students' decision making limitations. Using scenarios from the first author's supervisory practice to illustrate issues of concern for students and supervisors during PhD supervision, the authors aim to illuminate the importance of engagement with regulatory bodies; problems of knowledge and understanding transfer; culturally specific issues and meanings of academic theft.

Heterozygous Deficiency of PHD2 Restores Tumor Oxygenation and Inhibits Metastasis via Endothelial Normalization

PubMed Central

Loges, Sonja; Schmidt, Thomas; Jonckx, Bart; Tian, Ya-Min; Lanahan, Anthony A.; Pollard, Patrick; de Almodovar, Carmen Ruiz; De Smet, Frederik; Vinckier, Stefan; Aragonés, Julián; Debackere, Koen; Luttun, Aernout; Wyns, Sabine; Jordan, Benedicte; Pisacane, Alberto; Gallez, Bernard; Lampugnani, Maria Grazia; Dejana, Elisabetta; Simons, Michael; Ratcliffe, Peter; Maxwell, Patrick; Carmeliet, Peter

2014-01-01

SUMMARY A key function of blood vessels, to supply oxygen, is impaired in tumors because of abnormalities in their endothelial lining. PHD proteins serve as oxygen sensors and may regulate oxygen delivery. We therefore studied the role of endothelial PHD2 in vessel shaping by implanting tumors in PHD2+/− mice. Haplodeficiency of PHD2 did not affect tumor vessel density or lumen size, but normalized the endothelial lining and vessel maturation. This resulted in improved tumor perfusion and oxygenation and inhibited tumor cell invasion, intravasation, and metastasis. Haplodeficiency of PHD2 redirected the specification of endothelial tip cells to a more quiescent cell type, lacking filopodia and arrayed in a phalanx formation. This transition relied on HIF-driven upregulation of (soluble) VEGFR-1 and VE-cadherin. Thus, decreased activity of an oxygen sensor in hypoxic conditions prompts endothelial cells to readjust their shape and phenotype to restore oxygen supply. Inhibition of PHD2 may offer alternative therapeutic opportunities for anticancer therapy. PMID:19217150

ERα upregulates Phd3 to ameliorate HIF-1 induced fibrosis and inflammation in adipose tissue

PubMed Central

Kim, Min; Neinast, Michael D.; Frank, Aaron P.; Sun, Kai; Park, Jiyoung; Zehr, Jordan A.; Vishvanath, Lavanya; Morselli, Eugenia; Amelotte, Mason; Palmer, Biff F.; Gupta, Rana K.; Scherer, Philipp E.; Clegg, Deborah J.

2014-01-01

Hypoxia Inducible Factor 1 (HIF-1) promotes fibrosis and inflammation in adipose tissues, while estrogens and Estrogen Receptor α (ERα) have the opposite effect. Here we identify an Estrogen Response Element (ERE) in the promoter of Phd3, which is a negative regulatory enzyme of HIF-1, and we demonstrate HIF-1α is ubiquitinated following 17-β estradiol (E2)/ERα mediated Phd3 transcription. Manipulating ERα in vivo increases Phd3 transcription and reduces HIF-1 activity, while addition of PHD3 ameliorates adipose tissue fibrosis and inflammation. Our findings outline a novel regulatory relationship between E2/ERα, PHD3 and HIF-1 in adipose tissues, providing a mechanistic explanation for the protective effect of E2/ERα in adipose tissue. PMID:25161887

Award for Distinguished Contributions to the International Advancement of Psychology.

PubMed

2017-12-01

This award is given to individuals who have made sustained and enduring contributions to international cooperation and the advancement of knowledge in psychology. The 2017 recipient of the APA Award for Distinguished Contributions to the International Advancement of Psychology was selected by the 2016 Committee on International Relations in Psychology (CIRP). The members of the 2016 CIRP were Melissa Morgan Consoli, PhD, and Arpana G. Inman, PhD (Co-chairs); Rehman Abdulrehman, PhD; Gonzalo Bacigalupe, EdD; Frederic Bemak, EdD; Brigitte Khoury, PhD; Susan Nolan, PhD; Nancy Sidun, PsyD; and Danny Wedding, PhD. Dr. Morgan Consoli, Dr. Inman, Dr. Nolan, and Doctor Sidun were members of the subcommittee for the 2017 award. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

Using a nursing theory or a model in nursing PhD dissertations: a qualitative study from Turkey.

PubMed

Mete, Samiye; Gokçe İsbir, Gozde

2015-04-01

The aim of this study was to reveal experiences of nursing students and their advisors using theories and models in their PhD dissertations. The study adopted a descriptive qualitative approach. This study was performed with 10 PhD candidates and their five advisors from nursing faculty. The results of the study were categorized into four. These are reasons for using a theory/model in a PhD dissertation, reasons for preferring a given model, causes of difficulties in using models in PhD dissertations, and facilitating factors of using theories and models in PhD of dissertations. It was also reported to contribute to the methodology of research and professional development of the students and advisors. © 2014 NANDA International, Inc.

Concepts and Development of Bio-Inspired Distributed Embedded Wired/Wireless Sensor Array Architectures for Acoustic Wave Sensing in Integrated Aerospace Vehicles

NASA Technical Reports Server (NTRS)

Ghoshal, Anindya; Prosser, William H.; Kirikera, Goutham; Schulz, Mark J.; Hughes, Derke J.; Orisamolu, Wally

2003-01-01

This paper discusses the modeling of acoustic emissions in plate structures and their sensing by embedded or surface bonded piezoelectric sensor arrays. Three different modeling efforts for acoustic emission (AE) wave generation and propagation are discussed briefly along with their advantages and disadvantages. Continuous sensors placed at right angles on a plate are being discussed as a new approach to measure and locate the source of acoustic waves. Evolutionary novel signal processing algorithms and bio-inspired distributed sensor array systems are used on large structures and integrated aerospace vehicles for AE source localization and preliminary results are presented. These systems allow for a great reduction in the amount of data that needs to be processed and also reduce the chances of false alarms from ambient noises. It is envisioned that these biomimetic sensor arrays and signal processing techniques will be useful for both wireless and wired sensor arrays for real time health monitoring of large integrated aerospace vehicles and earth fixed civil structures. The sensor array architectures can also be used with other types of sensors and for other applications.

The application of artificial intelligence in the optimal design of mechanical systems

NASA Astrophysics Data System (ADS)

Poteralski, A.; Szczepanik, M.

2016-11-01

The paper is devoted to new computational techniques in mechanical optimization where one tries to study, model, analyze and optimize very complex phenomena, for which more precise scientific tools of the past were incapable of giving low cost and complete solution. Soft computing methods differ from conventional (hard) computing in that, unlike hard computing, they are tolerant of imprecision, uncertainty, partial truth and approximation. The paper deals with an application of the bio-inspired methods, like the evolutionary algorithms (EA), the artificial immune systems (AIS) and the particle swarm optimizers (PSO) to optimization problems. Structures considered in this work are analyzed by the finite element method (FEM), the boundary element method (BEM) and by the method of fundamental solutions (MFS). The bio-inspired methods are applied to optimize shape, topology and material properties of 2D, 3D and coupled 2D/3D structures, to optimize the termomechanical structures, to optimize parameters of composites structures modeled by the FEM, to optimize the elastic vibrating systems to identify the material constants for piezoelectric materials modeled by the BEM and to identify parameters in acoustics problem modeled by the MFS.

Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S) Beyond the PhD Professional Development Program: A Pilot Project

NASA Astrophysics Data System (ADS)

Johnson, A.; Jearld, A.; Williamson Whitney, V.; Huggans, M.; Ricciardi, L.; Thomas, S. H.; Jansma, P. E.

2012-12-01

In 2011 the Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S)® initiative launched its newest activity entitled the MS PHD'S "Beyond the PhD (B-PhD) Professional Development Program." This exciting new program was designed to facilitate the development of a new community of underrepresented minority (URM) doctoral candidates and recent doctorate degree recipients in Earth system science (ESS)-related fields. The MS PHD'S B-PhD provides customized support and advocacy for MS PHD'S B-PhD participants in order to facilitate smoother and informed transitions from graduate school, to postdoctoral and tenure-track positions, as well as other "first" jobs in government, industry, and non-profit organizations. In November 2011 the first cohort of MS PHD'S B-PhD participants engaged in intensive sessions on the following topics: "Toolkits for Success for Academia, Business/Industry, Federal Government and Non-Profits", "Defining Short, Mid and Long Term Career Goals", "Accessing and Refining Skill Sets and Other Door Openers", "International Preparation and Opportunities", "Paying it Forward/Lifting as You Climb", and "Customized Strategies for Next Steps". This pilot event, which was hosted by the University of Texas at Arlington's (UTA) College of Science, also provided opportunities for participants to serve as guest lecturers in the UTA's Colleges of Science and Engineering and included one-on-one discussions with MS PHD'S B-PhD mentors and guest speakers who are well established within their individual ESS fields. Insights regarding opportunities, challenges and obstacles commonly faced by URMs within the ESS fields, as well as strategies for success were shared by MS PHD'S B-PhD mentors and guest speakers. Survey results indicate that MS PHD'S B-PhD participants appreciated not only the material covered during this pilot activity, but also appreciated the opportunity to become part of a community of young URM ESS professionals who are committed to achieving successful careers and supporting one another. This presentation will discuss outcomes from this pilot project, the use of social media to track and support ongoing MS PHD'S B-PhD activities, and "next steps" for the MS PHD'S B-PhD Professional Development Program.

Developing Discourses of Knowledge and Understanding: Longitudinal Studies of Ph.D. Supervision

ERIC Educational Resources Information Center

Kandiko, Camille B.; Kinchin, Ian M.

2013-01-01

Competing notions of what a Ph.D. has been, is and should be are undercurrents in doctoral education. A longitudinal study of Ph.D. supervision based on interviews and concept mapping was used to surface understandings of the purpose of a Ph.D. This research tracks change over time for both the student and the supervisor. The data were analysed…

Factors Contributing to High PhD Completion Rates: A Case Study in a Research-Intensive University in New Zealand

ERIC Educational Resources Information Center

Spronken-Smith, Rachel; Cameron, Claire; Quigg, Robin

2018-01-01

This exploratory study determined PhD completions at a research-intensive university in New Zealand and considered factors affecting PhD completions. Completion data were calculated for PhD cohorts at the University of Otago from 2000 to 2012 (n = 2770) and survival models determined whether gender, enrolment status, age at admission, citizenship,…

Trust Me, I'm a Doctor: A PhD Survival Guide

ERIC Educational Resources Information Center

Deconinck, Koen

2015-01-01

So, you have decided to do a PhD … now what? In this essay, the author provides some advice for beginning PhD students, basically sharing what he would tell his younger self. Doing a PhD is a transformative experience, but the process is challenging, not merely on an intellectual level but also psychologically. To overcome these challenges, one…

A National Content Analysis of PhD Program Objectives, Structures, and Curricula: Do Programs Address the Full Range of Social Work's Needs?

ERIC Educational Resources Information Center

Drisko, James; Hunnicutt, Christie; Berenson, Laura

2015-01-01

The Group for the Advancement of Doctoral Education (GADE) promotes excellence in PhD education in Social Work. GADE's 2013 Quality Guidelines for PhD Programs heavily emphasize preparation for research. Little is known, however, about the details of the contemporary social work PhD program structure and curriculum. Several prior surveys have…

The Purpose of the PhD: Theorising the Skills Acquired by Students

ERIC Educational Resources Information Center

Mowbray, Susan; Halse, Christine

2010-01-01

In the past decade there has been a marked push for the development of employability skills to be part of the PhD process. This push is generally by stakeholders from above and outside the PhD process, i.e. government and industry, who view skills as a "summative product" of the PhD. In contrast, our study interviewed stakeholders inside…

Cherry Featured in NCI’s Spotlight on Scientists Video Series | Poster

Cancer.gov

James Cherry, Ph.D., learned at an early age that education is crucial to success. He credits his mentors, some of whom include his grandmother, Shepherd University professor Burton Lidgerding, Ph.D., David Munroe, Ph.D., Frederick National Lab, and Robert J. Hohman, Ph.D., National Institute of Allergy and Infectious Diseases, for guiding him to the career he has today.

Clinical Investigation Program Annual Progress Report

DTIC Science & Technology

1989-10-01

Investigators: Linda K. Kullama, Ph.D., Dr. Kenneth T. Nakamura,MD; Dr. Venkataraman Balaraman, MD, Wayne M. Ichimura, Biomedical Engineer. Department/Section...Investigators: John R. Claybaugh, Ph.D.; Kenneth T. Nakamura, MD; Dr. Venkataraman Balaraman, M.D. Department/Section: Clinical Investigation/Physiology Key...Pigs and Rats Principal ’Investigator: Linda K. Kullama, Ph.D.; John R. Claybaugh, Ph.D. Associate Investigators: Dr. Venkataraman Balaraman, M.D.; Dr

Characterization of Bc1-2, Bc1-xL, and Bax Pore Formation and Their Role in Apoptosis Regulation

DTIC Science & Technology

2002-01-01

Bcl-2, Bcl-xL, and Bax Pore Formation and Their Role in Apoptosis Regulation PRINCIPAL INVESTIGATOR: Frank Stenner -Liewen, Ph.D. Sharon Schendel, Ph.D...AUTHOR(S) Frank Stenner -Liewen, Ph.D. Sharon Schendel, Ph.D. John C. Reed, M.D., Ph.D. 7. PERFORMING ORGANIZATION NAME(S) AND ADDRESS(ES) 8. PERFORMING

Optimal Autonomous Spacecraft Resiliency Maneuvers Using Metaheuristics

DTIC Science & Technology

2014-09-15

Optimization of Interplanetary Trajectories,” Journal of Spacecraft and Rockets, Vol. 46, No. 2, March-April 2009, pp. 365–372. [23] Subbarao , K . and...Black, PhD (Chairman) /signed/ Darryl K . Ahner, PhD (Member) /signed/ Raymond R. Hill, PhD (Member) /signed/ William E. Wiesel, PhD (Member) 29 Jul 2014...124 Appendix A: Derivation of Spherical Equations of Motion . . . . . . . . . . . . . . 126 Appendix B : Equations of

EXPERIMENTAL INDUCTION OF CHRONIC PULMONARY DISEASE IN GENETICALLY SUSCEPTIBLE RAT MODEL

EPA Science Inventory

Experimental induction of chronic pulmonary disease in genetically susceptible rat model. M.C.Schladweiler, BS 1, A.D.Ledbetter 1, K.E.Pinkerton, PhD 2, K.R.Smith, PhD 2, P.S.Gilmour, PhD 1, P.A.Evansky 1, D.L.Costa, ScD 1, W.P.Watkinson, PhD 1, J.P.Nolan 1 and U.P.Kodava...

Modelling Research: A Collaborative Approach to Helping PhD Students Develop Higher-Level Research Skills

ERIC Educational Resources Information Center

Garcia-Perez, Alexeis; Ayres, Robert

2012-01-01

A high proportion of PhD candidates in science and engineering fail to complete their degrees. This paper reports the results of a series of workshops where experienced researchers and supervisors were brought together with PhD students to discuss and develop a model of the PhD process. The objective was to help students develop a more rounded and…

Improving the Adaptability of Simulated Evolutionary Swarm Robots in Dynamically Changing Environments

PubMed Central

Yao, Yao; Marchal, Kathleen; Van de Peer, Yves

2014-01-01

One of the important challenges in the field of evolutionary robotics is the development of systems that can adapt to a changing environment. However, the ability to adapt to unknown and fluctuating environments is not straightforward. Here, we explore the adaptive potential of simulated swarm robots that contain a genomic encoding of a bio-inspired gene regulatory network (GRN). An artificial genome is combined with a flexible agent-based system, representing the activated part of the regulatory network that transduces environmental cues into phenotypic behaviour. Using an artificial life simulation framework that mimics a dynamically changing environment, we show that separating the static from the conditionally active part of the network contributes to a better adaptive behaviour. Furthermore, in contrast with most hitherto developed ANN-based systems that need to re-optimize their complete controller network from scratch each time they are subjected to novel conditions, our system uses its genome to store GRNs whose performance was optimized under a particular environmental condition for a sufficiently long time. When subjected to a new environment, the previous condition-specific GRN might become inactivated, but remains present. This ability to store ‘good behaviour’ and to disconnect it from the novel rewiring that is essential under a new condition allows faster re-adaptation if any of the previously observed environmental conditions is reencountered. As we show here, applying these evolutionary-based principles leads to accelerated and improved adaptive evolution in a non-stable environment. PMID:24599485

Exploring PHD fingers and H3K4me0 interactions with molecular dynamics simulations and binding free energy calculations: AIRE-PHD1, a comparative study.

PubMed

Spiliotopoulos, Dimitrios; Spitaleri, Andrea; Musco, Giovanna

2012-01-01

PHD fingers represent one of the largest families of epigenetic readers capable of decoding post-translationally modified or unmodified histone H3 tails. Because of their direct involvement in human pathologies they are increasingly considered as a potential therapeutic target. Several PHD/histone-peptide structures have been determined, however relatively little information is available on their dynamics. Studies aiming to characterize the dynamic and energetic determinants driving histone peptide recognition by epigenetic readers would strongly benefit from computational studies. Herein we focus on the dynamic and energetic characterization of the PHD finger subclass specialized in the recognition of histone H3 peptides unmodified in position K4 (H3K4me0). As a case study we focused on the first PHD finger of autoimmune regulator protein (AIRE-PHD1) in complex with H3K4me0. PCA analysis of the covariance matrix of free AIRE-PHD1 highlights the presence of a "flapping" movement, which is blocked in an open conformation upon binding to H3K4me0. Moreover, binding free energy calculations obtained through Molecular Mechanics/Poisson-Boltzmann Surface Area (MM/PBSA) methodology are in good qualitative agreement with experiments and allow dissection of the energetic terms associated with native and alanine mutants of AIRE-PHD1/H3K4me0 complexes. MM/PBSA calculations have also been applied to the energetic analysis of other PHD fingers recognizing H3K4me0. In this case we observe excellent correlation between computed and experimental binding free energies. Overall calculations show that H3K4me0 recognition by PHD fingers relies on compensation of the electrostatic and polar solvation energy terms and is stabilized by non-polar interactions.

Evolution of computational models in BioModels Database and the Physiome Model Repository.

PubMed

Scharm, Martin; Gebhardt, Tom; Touré, Vasundra; Bagnacani, Andrea; Salehzadeh-Yazdi, Ali; Wolkenhauer, Olaf; Waltemath, Dagmar

2018-04-12

A useful model is one that is being (re)used. The development of a successful model does not finish with its publication. During reuse, models are being modified, i.e. expanded, corrected, and refined. Even small changes in the encoding of a model can, however, significantly affect its interpretation. Our motivation for the present study is to identify changes in models and make them transparent and traceable. We analysed 13734 models from BioModels Database and the Physiome Model Repository. For each model, we studied the frequencies and types of updates between its first and latest release. To demonstrate the impact of changes, we explored the history of a Repressilator model in BioModels Database. We observed continuous updates in the majority of models. Surprisingly, even the early models are still being modified. We furthermore detected that many updates target annotations, which improves the information one can gain from models. To support the analysis of changes in model repositories we developed MoSt, an online tool for visualisations of changes in models. The scripts used to generate the data and figures for this study are available from GitHub https://github.com/binfalse/BiVeS-StatsGenerator and as a Docker image at https://hub.docker.com/r/binfalse/bives-statsgenerator/ . The website https://most.bio.informatik.uni-rostock.de/ provides interactive access to model versions and their evolutionary statistics. The reuse of models is still impeded by a lack of trust and documentation. A detailed and transparent documentation of all aspects of the model, including its provenance, will improve this situation. Knowledge about a model's provenance can avoid the repetition of mistakes that others already faced. More insights are gained into how the system evolves from initial findings to a profound understanding. We argue that it is the responsibility of the maintainers of model repositories to offer transparent model provenance to their users.

Hypoxia-inducible factor-1 (HIF-1) promotes its degradation by induction of HIF-α-prolyl-4-hydroxylases

PubMed Central

2004-01-01

An important regulator involved in oxygen-dependent gene expression is the transcription factor HIF (hypoxia-inducible factor), which is composed of an oxygen-sensitive α-subunit (HIF-1α or HIF-2α) and a constitutively expressed β-subunit. In normoxia, HIF-1α is destabilized by post-translational hydroxylation of Pro-564 and Pro-402 by a family of oxygen-sensitive dioxygenases. The three HIF-modifying human enzymes have been termed prolyl hydroxylase domain containing proteins (PHD1, PHD2 and PHD3). Prolyl hydroxylation leads to pVHL (von-Hippel-Lindau protein)-dependent ubiquitination and rapid proteasomal degradation of HIF-1α. In the present study, we report that human PHD2 and PHD3 are induced by hypoxia in primary and transformed cell lines. In the human osteosarcoma cell line, U2OS, selective suppression of HIF-1α expression by RNA interference resulted in a complete loss of hypoxic induction of PHD2 and PHD3. Induction of PHD2 by hypoxia was lost in pVHL-deficient RCC4 cells. These results suggest that hypoxic induction of PHD2 and PHD3 is critically dependent on HIF-α. Using a VHL capture assay, we demonstrate that HIF-α prolyl-4-hydroxylase capacity of cytoplasmic and nuclear protein extracts was enhanced by prolonged exposure to hypoxia. Degradation of HIF-1α after reoxygenation was accelerated, which demonstrates functional relevance of the present results. We propose a direct, negative regulatory mechanism, which limits accumulation of HIF-1α in hypoxia and leads to accelerated degradation on reoxygenation after long-term hypoxia. PMID:15104534

How to Conceptualize and Implement a PhD Program in Health Sciences—The Basel Approach

PubMed Central

Keller, Franziska; Dhaini, Suzanne; Briel, Matthias; Henrichs, Sina; Höchsmann, Christoph; Kalbermatten, Daniel; Künzli, Nino; Mollet, Annette; Puelacher, Christian; Schmidt-Trucksäss, Arno; von Niederhäusern, Belinda; De Geest, Sabina

2018-01-01

Objectives: Over the past decade, several excellent guidelines have been published on how to enhance the quality of PhD education in Europe. Aimed primarily at preparing students for innovative roles in their fields, they include variously structured approaches to curricular offerings, as well as other program components applicable across specialties (eg: supervisor support, scientific conduct, transferable skills). Since 2012, the interdisciplinary PhD Program in Health Sciences (PPHS) at the Faculty of Medicine of the University of Basel in Switzerland has focused on translating these guidelines into a 21st-century health sciences PhD program. Results: The PPHS started in 2012 based on the European Union (EU) guidelines for PhD education. This article describes the resulting interdisciplinary PhD program’s conceptual underpinnings, rationale, structures, and 10 building blocks, like student portfolios, thematic training, interdisciplinary research seminars, student-initiated interdisciplinary activities, financial support of course participation, top-up and extension stipends, PhD supervision, research integrity, alumni follow-up network, and promotional tools including a dedicated website. Students enter from Clinical Research, Medicine Development, Nursing Science, Epidemiology and Public Health including Insurance Medicine, Sport Science (all from the Faculty of Medicine), and Epidemiology (Faculty of Science). Discussion and Conclusion: The Basel PPHS exemplifies state-of-the-art PhD education in Health Sciences based on European guidelines and offers guidance to other groups from conceptualization to rollout of an interdisciplinary health sciences PhD program. PMID:29780889

Challenges of PhD Graduated Nurses for Role Acceptance as a Clinical Educator: A Qualitative Study.

PubMed

Haghighi Moghadam, Yousef; Atashzadeh-Shoorideh, Foroozan; Abbaszadeh, Abbas; Feizi, Aram

2017-06-01

Introduction: Clinical education is the core component of nursing education. PhD graduated nurses who are faculty members can play a main role in clinical instruction. However, there is not clear understanding about the challenges which they may encounter for accepting their role as clinical educator. The aim of this study was to explore the challenges of role acceptance by PhD aduated nurses who are faculty members. Methods: In this qualitative exploratory study a total of 13 participants (8 PhD graduated in nursing, 3 head of departments of nursing, one educational vice chancellor of nursing school, and one nurse) were selected by purposive sampling method. Data were collected by semi-structured, face to face interview and analyzed by conventional content analysis approach developed by Graneheim and Lundman. Results: The main theme emerged from data analysis was "identity threat". This theme had five categories including expectations beyond ability, lack of staff's rely on the performance of PhD graduated nurses, poor clinical competencies, doubtfulness, and obligation. Conclusion: PhD graduated nurses experienced some worries about their role as clinical educators and argued that they have not been prepared for their role. Therefore, policy makers and authorities of nursing schools should support PhD graduated nurses for accepting their new roles as clinical educators. Moreover, some changes in nursing PhD curriculum is needed to improve the clinical competencies of PhD graduated and prepare them for their role as a clinical educator.

Challenges of PhD Graduated Nurses for Role Acceptance as a Clinical Educator: A Qualitative Study

PubMed Central

Haghighi Moghadam, Yousef; Atashzadeh-Shoorideh, Foroozan; Abbaszadeh, Abbas; Feizi, Aram

2017-01-01

Introduction: Clinical education is the core component of nursing education. PhD graduated nurses who are faculty members can play a main role in clinical instruction. However, there is not clear understanding about the challenges which they may encounter for accepting their role as clinical educator. The aim of this study was to explore the challenges of role acceptance by PhD aduated nurses who are faculty members. Methods: In this qualitative exploratory study a total of 13 participants (8 PhD graduated in nursing, 3 head of departments of nursing, one educational vice chancellor of nursing school, and one nurse) were selected by purposive sampling method. Data were collected by semi-structured, face to face interview and analyzed by conventional content analysis approach developed by Graneheim and Lundman. Results: The main theme emerged from data analysis was "identity threat". This theme had five categories including expectations beyond ability, lack of staff’s rely on the performance of PhD graduated nurses, poor clinical competencies, doubtfulness, and obligation. Conclusion: PhD graduated nurses experienced some worries about their role as clinical educators and argued that they have not been prepared for their role. Therefore, policy makers and authorities of nursing schools should support PhD graduated nurses for accepting their new roles as clinical educators. Moreover, some changes in nursing PhD curriculum is needed to improve the clinical competencies of PhD graduated and prepare them for their role as a clinical educator. PMID:28680869

Strategic Studies Quarterly. Volume 8, Number 3, Fall 2014

DTIC Science & Technology

2014-01-01

Michael Guillot Measuring Military Power James Jay Carafano Strategy and Force Planning in a Time of Austerity BG Michael J . Meese, USA, Retired...Hudson, PhD Nori Katagiri, PhD Paul J . Springer, PhD Zachary J . Zwald, PhD Strategic Studies Quarterly (SSQ) (ISSN 1936-1815) is published quarterly...19 BG Michael J . Meese, USA, Retired Pensive Sword: Educating Officers in Austere Times ...................... 30 Stephen D. Chiabotti Feature

A Two-Level Structural Equation Model for Evaluating the External Effectiveness of PhD

ERIC Educational Resources Information Center

Chiandotto, Bruno; Masserini, Lucio

2011-01-01

In recent years the number of PhDs in Italy has significantly grown and purposes of PhD courses have expanded from the traditional ones. The analysis of the contribution of PhD title for job placement and employment condition of PhDs is an important tool for evaluating the quality and the effectiveness of PhD courses. For this reason, knowledge of…

A Brief History of the College of Education's Doctoral Degrees

ERIC Educational Resources Information Center

McEwan, Hunter; Slaughter, Helen

2004-01-01

The College of Education at the University of Hawai'i at Manoa has two doctoral degrees: the PhD in educational psychology and the PhD in education. Both degrees have been in existence for over 30 years. The PhD in education, however, began its life as the EdD and was renamed the PhD in 1999. As two of the articles in this issue make clear…

The Purpose of the Ph.D.--A South African Perspective

ERIC Educational Resources Information Center

Herman, Chaya

2012-01-01

The article sets out to explore how Ph.D. programme leaders in South Africa view the purpose of the Ph.D., and how their views shape their responses to recent policies with regard to the Ph.D. It refers in particular to the vision of the Department of Science and Technology for a five-fold increase in the number of Ph.D. graduates by 2018, and to…

Partnership for development: A peer mentorship model for PhD students.

PubMed

Lewinski, Allison A; Mann, Tara; Flores, Dalmacio; Vance, Ashlee; Bettger, Janet Prvu; Hirschey, Rachel

Formal mentoring relationships socialize Doctor of Philosophy (PhD) students to their current and future roles as nursing scholars. Despite formal mentoring, some students may desire or benefit from additional mentoring in an informal setting. Informal mentoring complements the one-to-one relationship students develop with a primary faculty mentor or dissertation chair. This manuscript describes the development, implementation, and evaluation of a student-driven, peer mentorship model, titled Partnership for Development. This small group, peer mentorship model was implemented in a PhD program at a School of Nursing during an academic year. Five student peer facilitators organized a total of 32 PhD students, 2 post-doctoral associates, and invited 5 faculty to participate. Data includes pre- and post-implementation surveys completed by the students and peer facilitator field notes. Student reported post-participation benefits included: getting to know faculty in an informal setting (n=6), socializing with students from other cohorts (n=6), and obtaining a sense of camaraderie with other PhD students (n=5). We recommend peer mentorship for other PhD programs as a way to socialize PhD students into the role of nurse scientist and assist students during their tenure as a PhD student. Copyright © 2017 Elsevier Inc. All rights reserved.

Architecture of the human interactome defines protein communities and disease networks

PubMed Central

Huttlin, Edward L.; Bruckner, Raphael J.; Paulo, Joao A.; Cannon, Joe R.; Ting, Lily; Baltier, Kurt; Colby, Greg; Gebreab, Fana; Gygi, Melanie P.; Parzen, Hannah; Szpyt, John; Tam, Stanley; Zarraga, Gabriela; Pontano-Vaites, Laura; Swarup, Sharan; White, Anne E.; Schweppe, Devin K.; Rad, Ramin; Erickson, Brian K.; Obar, Robert A.; Guruharsha, K.G.; Li, Kejie; Artavanis-Tsakonas, Spyros; Gygi, Steven P.; Harper, J. Wade

2017-01-01

The physiology of a cell can be viewed as the product of thousands of proteins acting in concert to shape the cellular response. Coordination is achieved in part through networks of protein-protein interactions that assemble functionally related proteins into complexes, organelles, and signal transduction pathways. Understanding the architecture of the human proteome has the potential to inform cellular, structural, and evolutionary mechanisms and is critical to elucidation of how genome variation contributes to disease1–3. Here, we present BioPlex 2.0 (Biophysical Interactions of ORFEOME-derived complexes), which employs robust affinity purification-mass spectrometry (AP-MS) methodology4 to elucidate protein interaction networks and co-complexes nucleated by more than 25% of protein coding genes from the human genome, and constitutes the largest such network to date. With >56,000 candidate interactions, BioPlex 2.0 contains >29,000 previously unknown co-associations and provides functional insights into hundreds of poorly characterized proteins while enhancing network-based analyses of domain associations, subcellular localization, and co-complex formation. Unsupervised Markov clustering (MCL)5 of interacting proteins identified more than 1300 protein communities representing diverse cellular activities. Genes essential for cell fitness6,7 are enriched within 53 communities representing central cellular functions. Moreover, we identified 442 communities associated with more than 2000 disease annotations, placing numerous candidate disease genes into a cellular framework. BioPlex 2.0 exceeds previous experimentally derived interaction networks in depth and breadth, and will be a valuable resource for exploring the biology of incompletely characterized proteins and for elucidating larger-scale patterns of proteome organization. PMID:28514442

Homeostatic and Circadian Modulation of Cognition: Integrating Mathematical and Computational Modeling Approaches

DTIC Science & Technology

2012-08-20

Leonid V. Kalachev, Ph.D. (University of Montana, not supported on grant) Daniel J. Mollicone, Ph.D. ( Pulsar Informatics, Inc., not supported on grant...project to Pulsar Informatics, Inc., who are providing an implementation suitable for integration with crew rostering to the U.S. Navy (key...individuals involved: Daniel Mollicone, Ph.D. and Mike Stubna, Ph.D. of Pulsar Informatics, Inc.).  We transitioned a numerical library for the mathematical

Tranexamic Acid for Trauma Patients: A Critical Review of the Literature

DTIC Science & Technology

2011-07-01

REVIEW ARTICLE Tranexamic Acid for Trauma Patients: A Critical Review of the Literature Andrew P. Cap, MD, PhD, David G. Baer, PhD, Jean A. Orman...MPH, ScD, James Aden, PhD, Kathy Ryan, PhD, and Lorne H. Blackbourne, MD Background: Tranexamic acid (TXA) is an antifibrinolytic that inhibits both...prospective clinical evidence to support this application. Key Words: Tranexamic acid , Antifibrinolytic agents, Hemorrhage/drug therapy, Wounds and injuries

International Humanitarian Award.

PubMed

2017-12-01

The International Humanitarian Award recognizes extraordinary humanitarian services and activism by psychologists, including professional and volunteer work conducted primarily in the field with underserved populations. Award recipients are psychologists who, by their extraordinary service at a difficult time, improve the lives and contribute to the well-being of people in a large or small geographic area anywhere in the world. The 2017 recipient of the APA International Humanitarian Award was selected by the 2016 Committee on International Relations in Psychology (CIRP). The members of the 2016 CIRP were Melissa Morgan Consoli, PhD, and Arpana G. Inman, PhD (Co-chairs); Rehman Abdulrehman, PhD; Gonzalo Bacigalupe, EdD; Frederic Bemak, EdD; Brigitte Khoury, PhD; Susan Nolan, PhD; Nancy Sidun, PsyD; and Danny Wedding, PhD. Dr. Morgan Consoli, Dr. Inman, Dr. Nolan, and Doctor Sidun were members of the subcommittee for the 2017 award. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

Qualitative methods in PhD theses from general practice in Scandinavia.

PubMed

Malterud, Kirsti; Hamberg, Katarina; Reventlow, Susanne

2017-12-01

Qualitative methodology is gaining increasing attention and esteem in medical research, with general practice research taking a lead. With these methods, human and social interaction and meaning can be explored and shared by systematic interpretation of text from talk, observation or video. Qualitative studies are often included in Ph.D. theses from general practice in Scandinavia. Still, the Ph.D. programs across nations and institutions offer only limited training in qualitative methods. In this opinion article, we draw upon our observations and experiences, unpacking and reflecting upon values and challenges at stake when qualitative studies are included in Ph.D. theses. Hypotheses to explain these observations are presented, followed by suggestions for standards of evaluation and improvement of Ph.D. programs. The authors conclude that multimethod Ph.D. theses should be encouraged in general practice research, in order to offer future researchers an appropriate toolbox.

Qualitative methods in PhD theses from general practice in Scandinavia

PubMed Central

Malterud, Kirsti; Hamberg, Katarina; Reventlow, Susanne

2017-01-01

Qualitative methodology is gaining increasing attention and esteem in medical research, with general practice research taking a lead. With these methods, human and social interaction and meaning can be explored and shared by systematic interpretation of text from talk, observation or video. Qualitative studies are often included in Ph.D. theses from general practice in Scandinavia. Still, the Ph.D. programs across nations and institutions offer only limited training in qualitative methods. In this opinion article, we draw upon our observations and experiences, unpacking and reflecting upon values and challenges at stake when qualitative studies are included in Ph.D. theses. Hypotheses to explain these observations are presented, followed by suggestions for standards of evaluation and improvement of Ph.D. programs. The authors conclude that multimethod Ph.D. theses should be encouraged in general practice research, in order to offer future researchers an appropriate toolbox. PMID:29094644

Doctoral Programs to Train Future Leaders in Clinical and Translational Science

PubMed Central

Switzer, Galen E.; Robinson, Georgeanna F.W.B.; Rubio, Doris M.; Fowler, Nicole R.; Kapoor, Wishwa N.

2013-01-01

Purpose Although the National Institutes of Health (NIH) has made extensive investments in educational programs related to clinical and translational science (CTS), there has been no systematic investigation of the number and characteristics of PhD programs providing training to future leaders in CTS. The authors undertook to determine the number of institutions that, having had received NIH-funded Clinical and Translational Science Awards (CTSAs), currently had or were developing PhD programs in CTS; to examine differences between programs developed before and after CTSA funding; and to provide detailed characteristics of new programs. Method In 2012, CTS program leaders at the 60 CTSA-funded institutions completed a cross-sectional survey focusing on four key domains related to PhD programs in CTS: program development and oversight; students; curriculum and research; and milestones. Results Twenty-two institutions had fully developed PhD programs in CTS, and 268 students were earning a PhD in this new field; 13 institutions were planning a PhD program. New programs were more likely to have fully developed PhD competencies and more likely to include students in medical school, students working only on their PhD, students working on a first doctoral degree, and students working in T1 translational research. They were less likely to include physicians and students working in clinical or T2 research. Conclusions Although CTS PhD programs have similarities, they also vary in their characteristics and management of students. This may be due to diversity in translational science itself or to the relative infancy of CTS as a discipline. PMID:23899901

MHC class I diversity in chimpanzees and bonobos.

PubMed

Maibach, Vincent; Hans, Jörg B; Hvilsom, Christina; Marques-Bonet, Tomas; Vigilant, Linda

2017-10-01

Major histocompatibility complex (MHC) class I genes are critically involved in the defense against intracellular pathogens. MHC diversity comparisons among samples of closely related taxa may reveal traces of past or ongoing selective processes. The bonobo and chimpanzee are the closest living evolutionary relatives of humans and last shared a common ancestor some 1 mya. However, little is known concerning MHC class I diversity in bonobos or in central chimpanzees, the most numerous and genetically diverse chimpanzee subspecies. Here, we used a long-read sequencing technology (PacBio) to sequence the classical MHC class I genes A, B, C, and A-like in 20 and 30 wild-born bonobos and chimpanzees, respectively, with a main focus on central chimpanzees to assess and compare diversity in those two species. We describe in total 21 and 42 novel coding region sequences for the two species, respectively. In addition, we found evidence for a reduced MHC class I diversity in bonobos as compared to central chimpanzees as well as to western chimpanzees and humans. The reduced bonobo MHC class I diversity may be the result of a selective process in their evolutionary past since their split from chimpanzees.

Organtropic Metastatic Secretomes and Exosomes in Breast Cancer

DTIC Science & Technology

2016-10-01

MD, PhD CONTRACTING ORGANIZATION: Joan & Sanford I Weill Medical College of Cornell University New York, NY 10065 REPORT DATE: October 2016 TYPE...STATEMENT: Approved for Public Release; Distribution Unlimited The views, opinions and/or findings contained in this report are those of the author( s ) and...Cancer 5b. GRANT NUMBER N/A 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR( S ) 5d. PROJECT NUMBER David Lyden, MD, PhD, Ayuko Hoshino, PhD, Irina Matei, PhD

The Role of the Novel Nuclear Tyrosine Kinase, RAK, in Breast Cancer Biology (TR950012)

DTIC Science & Technology

1999-07-01

INVESTIGATOR: Paul M. Armistead, Ph.D. Holden H. Thorp, Ph.D. CONTRACTING ORGANIZATION : University of North Carolina Chapel Hill, North Carolina 27599...Biology (TR950012) 6. AUTHOR(S) Paul M. Armistead, Ph.D.. Holden H. Thorp, Ph.D. 7. PERFORMING ORGANIZATION NAME(S) AND ADDRESS(ES) University of...Materiel Command Fort Detrick, Maryland 21702-5012 5. FUNDING NUMBERS DAMD17-96-1-6067 8. PERFORMING ORGANIZATION REPORT NUMBER 10. SPONSORING

The status of PhD education in economic, social, and administrative sciences between 2005 and 2008.

PubMed

Farley, Joel F; Wang, Chi-Chuan; Blalock, Susan J

2010-09-10

To describe the funding, education, enrollment, and graduation patterns from economic, social, and administrative sciences PhD programs in colleges and schools of pharmacy in the United States. Economic, social, and administrative sciences PhD programs were identified from the American Association of Colleges of Pharmacy (AACP) Web site. A 41-item online survey instrument was sent to the director of graduate studies of each identified program. Only programs offering a PhD degree were included in the study. Of the 26 programs surveyed, 20 (77%) provided useable responses to the survey instrument. Approximately 91% of PhD programs guarantee funding to incoming students with an average commitment of 2.9 years. On average, students were paid a stipend of $18,000 per year for commitments to research and teaching assistantships, each averaging approximately 2 years in length. Programs admitted an average of 3.5 students per year and graduated approximately 85% of entering students. The majority of students are non-US citizens and accept positions in either academic or industrial positions after graduation. Most economic, social, and administrative sciences PhD programs guarantee funding to incoming PhD candidates. Programs offering funding packages significantly below the average may be at a competitive disadvantage. It is unclear whether the number of students graduating from PhD programs is adequate to fulfill academic and industrial needs.

Short Hairpin RNA Gene Silencing of Prolyl Hydroxylase-2 with a Minicircle Vector Improves Neovascularization of Hindlimb Ischemia

PubMed Central

Lijkwan, Maarten A.; Hellingman, Alwine A.; Bos, Ernst J.; van der Bogt, Koen E.A.; Huang, Mei; Kooreman, Nigel G.; de Vries, Margreet R.; Peters, Hendrika A.B.; Robbins, Robert C.; Quax, Paul H.A.

2014-01-01

Abstract In this study, we target the hypoxia inducible factor-1 alpha (HIF-1-alpha) pathway by short hairpin RNA interference therapy targeting prolyl hydroxylase-2 (shPHD2). We use the minicircle (MC) vector technology as an alternative for conventional nonviral plasmid (PL) vectors in order to improve neovascularization after unilateral hindlimb ischemia in a murine model. Gene expression and transfection efficiency of MC and PL, both in vitro and in vivo, were assessed using bioluminescence imaging (BLI) and firefly luciferase (Luc) reporter gene. C57Bl6 mice underwent unilateral electrocoagulation of the femoral artery and gastrocnemic muscle injection with MC-shPHD2, PL-shPHD2, or phosphate-buffered saline (PBS) as control. Blood flow recovery was monitored using laser Doppler perfusion imaging, and collaterals were visualized by immunohistochemistry and angiography. MC-Luc showed a 4.6-fold higher in vitro BLI signal compared with PL-Luc. BLI signals in vivo were 4.3×105±3.3×105 (MC-Luc) versus 0.4×105±0.3×105 (PL-Luc) at day 28 (p=0.016). Compared with PL-shPHD2 or PBS, MC-shPHD2 significantly improved blood flow recovery, up to 50% from day 3 until day 14 after ischemia induction. MC-shPHD2 significantly increased collateral density and capillary density, as monitored by alpha-smooth muscle actin expression and CD31+ expression, respectively. Angiography data confirmed the histological findings. Significant downregulation of PHD2 mRNA levels by MC-shPHD2 was confirmed by quantitative polymerase chain reaction. Finally, Western blot analysis confirmed significantly higher levels of HIF-1-alpha protein by MC-shPHD2, compared with PL-shPHD2 and PBS. This study provides initial evidence of a new potential therapeutic approach for peripheral artery disease. The combination of HIF-1-alpha pathway targeting by shPHD2 with the robust nonviral MC plasmid improved postischemic neovascularization, making this approach a promising potential treatment option for critical limb ischemia. PMID:24090375

The methyltransferase NSD3 has chromatin-binding motifs, PHD5-C5HCH, that are distinct from other NSD (nuclear receptor SET domain) family members in their histone H3 recognition.

PubMed

He, Chao; Li, Fudong; Zhang, Jiahai; Wu, Jihui; Shi, Yunyu

2013-02-15

The NSD (nuclear receptor SET domain-containing) family members, consisting of NSD1, NSD2 (MMSET/WHSC1), and NSD3 (WHSC1L1), are SET domain-containing methyltransferases and aberrant expression of each member has been implicated in multiple diseases. They have specific mono- and dimethylase activities for H3K36, whereas play nonredundant roles during development. Aside from the well characterized catalytic SET domain, NSD proteins have multiple potential chromatin-binding motifs that are clinically relevant, including the fifth plant homeodomain (PHD5) and the adjacent Cys-His-rich domain (C5HCH) located at the C terminus. Herein, we report the crystal structures of the PHD5-C5HCH module of NSD3, in the free state and in complex with H3(1-7) (H3 residues 1-7), H3(1-15) (H3 residues 1-15), and H3(1-15)K9me3 (H3 residues 1-15 with trimethylation on K9) peptides. These structures reveal that the PHD5 and C5HCH domains fold into a novel integrated PHD-PHD-like structural module with H3 peptide bound only on the surface of PHD5 and provide the molecular basis for the recognition of unmodified H3K4 and trimethylated H3K9 by NSD3 PHD5. Structural studies and binding assays show that differences exist in histone binding specificity of the PHD5 domain between three members of the NSD family. For NSD2, the PHD5-C5HCH:H3 N terminus interaction is largely conserved, although with a stronger preference for unmethylated H3K9 (H3K9me0) than trimethylated H3K9 (H3K9me3), and NSD1 PHD5-C5HCH does not bind to H3 peptides. Our results shed light on how NSD proteins that mediate H3K36 methylation are localized to specific genomic sites and provide implications for the mechanism of functional diversity of NSD proteins.

Factors that facilitate or inhibit interest of domestic students in the engineering PhD: A mixed methods study

NASA Astrophysics Data System (ADS)

Howell Smith, Michelle C.

Given the increasing complexity of technology in our society, the United States has a growing demand for a more highly educated technical workforce. Unfortunately, the proportion of United States citizens earning a PhD in engineering has been declining and there is concern about meeting the economic, national security and quality of life needs of our country. This mixed methods sequential exploratory instrument design study identified factors that facilitate or inhibit interest in engineering PhD programs among domestic engineering undergraduate students in the United States. This study developed a testable theory for how domestic students become interested in engineering PhD programs and a measure of that process, the Exploring Engineering Interest Inventory (EEII). The study was conducted in four phases. The first phase of the study was a qualitative grounded theory exploration of interest in the engineering PhD. Qualitative data were collected from domestic engineering students, engineering faculty and industry professional who had earned a PhD in engineering. The second phase, instrument development, developed the Exploring Engineering Interest Inventory (EEII), a measurement instrument designed with good psychometric properties to test a series of preliminary hypotheses related to the theory generated in the qualitative phase. In the third phase of the study, the EEII was used to collect data from a larger sample of junior and senior engineering majors. The fourth phase integrated the findings from the qualitative and quantitative phases. Four factors were identified as being significant influences of interest in the engineering PhD: Personal characteristics, educational environment, misperceptions of the economic and personal costs, and misperceptions of engineering work. Recommendations include increasing faculty encouragement of students to pursue an engineering PhD and programming to correct the misperceptions of the costs of the engineering PhD and the nature of the work that PhD engineers do. The tested model provides engineering educators with information to help them prioritize their efforts to increase interest in the engineering PhD among domestic students.

Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger.

PubMed

Wang, Gang G; Song, Jikui; Wang, Zhanxin; Dormann, Holger L; Casadio, Fabio; Li, Haitao; Luo, Jun-Li; Patel, Dinshaw J; Allis, C David

2009-06-11

Histone H3 lysine 4 methylation (H3K4me) has been proposed as a critical component in regulating gene expression, epigenetic states, and cellular identities1. The biological meaning of H3K4me is interpreted by conserved modules including plant homeodomain (PHD) fingers that recognize varied H3K4me states. The dysregulation of PHD fingers has been implicated in several human diseases, including cancers and immune or neurological disorders. Here we report that fusing an H3K4-trimethylation (H3K4me3)-binding PHD finger, such as the carboxy-terminal PHD finger of PHF23 or JARID1A (also known as KDM5A or RBBP2), to a common fusion partner nucleoporin-98 (NUP98) as identified in human leukaemias, generated potent oncoproteins that arrested haematopoietic differentiation and induced acute myeloid leukaemia in murine models. In these processes, a PHD finger that specifically recognizes H3K4me3/2 marks was essential for leukaemogenesis. Mutations in PHD fingers that abrogated H3K4me3 binding also abolished leukaemic transformation. NUP98-PHD fusion prevented the differentiation-associated removal of H3K4me3 at many loci encoding lineage-specific transcription factors (Hox(s), Gata3, Meis1, Eya1 and Pbx1), and enforced their active gene transcription in murine haematopoietic stem/progenitor cells. Mechanistically, NUP98-PHD fusions act as 'chromatin boundary factors', dominating over polycomb-mediated gene silencing to 'lock' developmentally critical loci into an active chromatin state (H3K4me3 with induced histone acetylation), a state that defined leukaemia stem cells. Collectively, our studies represent, to our knowledge, the first report that deregulation of the PHD finger, an 'effector' of specific histone modification, perturbs the epigenetic dynamics on developmentally critical loci, catastrophizes cellular fate decision-making, and even causes oncogenesis during mammalian development.

Self-reported needs for improving the supervision competence of PhD supervisors from the medical sciences in Denmark.

PubMed

Raffing, Rie; Jensen, Thor Bern; Tønnesen, Hanne

2017-10-23

Quality of supervision is a major predictor for successful PhD projects. A survey showed that almost all PhD students in the Health Sciences in Denmark indicated that good supervision was important for the completion of their PhD study. Interestingly, approximately half of the students who withdrew from their program had experienced insufficient supervision. This led the Research Education Committee at the University of Copenhagen to recommend that supervisors further develop their supervision competence. The aim of this study was to explore PhD supervisors' self-reported needs and wishes regarding the content of a new program in supervision, with a special focus on the supervision of PhD students in medical fields. A semi-structured interview guide was developed, and 20 PhD supervisors from the Graduate School of Health and Medical Sciences at the Faculty of Health and Medical Sciences at the University of Copenhagen were interviewed. Empirical data were analysed using qualitative methods of analysis. Overall, the results indicated a general interest in improved competence and development of a new supervision programme. Those who were not interested argued that, due to their extensive experience with supervision, they had no need to participate in such a programme. The analysis revealed seven overall themes to be included in the course. The clinical context offers PhD supervisors additional challenges that include the following sub-themes: patient recruitment, writing the first article, agreements and scheduled appointments and two main groups of students, in addition to the main themes. The PhD supervisors reported the clear need and desire for a competence enhancement programme targeting the supervision of PhD students at the Faculty of Health and Medical Sciences. Supervision in the clinical context appeared to require additional competence. The Scientific Ethical Committee for the Capital Region of Denmark. Number: H-3-2010-101, date: 2010.09.29.

Forecasting of the development of professional medical equipment engineering based on neuro-fuzzy algorithms

NASA Astrophysics Data System (ADS)

Vaganova, E. V.; Syryamkin, M. V.

2015-11-01

The purpose of the research is the development of evolutionary algorithms for assessments of promising scientific directions. The main attention of the present study is paid to the evaluation of the foresight possibilities for identification of technological peaks and emerging technologies in professional medical equipment engineering in Russia and worldwide on the basis of intellectual property items and neural network modeling. An automated information system consisting of modules implementing various classification methods for accuracy of the forecast improvement and the algorithm of construction of neuro-fuzzy decision tree have been developed. According to the study result, modern trends in this field will focus on personalized smart devices, telemedicine, bio monitoring, «e-Health» and «m-Health» technologies.

Natural Fatigue Crack Initiation and Detection in High Quality Spur Gears

DTIC Science & Technology

2012-06-01

Natural Fatigue Crack Initiation and Detection in High Quality Spur Gears by David “Blake” Stringer, Ph.D., Kelsen E. LaBerge, Ph.D., Cory...0383 June 2012 Natural Fatigue Crack Initiation and Detection in High Quality Spur Gears David “Blake” Stringer and Ph.D., Kelsen E. LaBerge...Quality Spur Gears 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) David “Blake” Stringer, Ph.D., Kelsen E

Joint Services Electronics Program

DTIC Science & Technology

1993-07-31

Angela M.S. 91 Liang. Chunlin Ph.D. 90 Liang, Guo Chun Ph.D. 90 Lin, Hong Ph.D. 92 Moon, J.E. Ph.D. 90 Noriego-Asturias, Jorge M.S. 92 Raghunath ...1 11, December 3, 1990. M.T. Raghunath and Abhiram Ranade, "A Simulation-Based Comparison of Interconncction Networks," Proceedings of the 2nd IEEE...Bipolar Transistor Fabricated on SIMOX," EDL-14. No. 1, p. 33. Jan. 1993. M.T. Raghunath and Abhiram Ranade, "Customizing Interconnection Networks to

Differential Splicing of Oncogenes and Tumor Suppressor Genes in African- and Caucasian-American Populations: Contributing Factor in Prostate Cancer Disparities

DTIC Science & Technology

2015-10-01

Populations: Contributing Factor in Prostate Cancer Disparities? PRINCIPAL INVESTIGATOR: Norman H Lee, Ph.D. CONTRACTING ORGANIZATION: George Washington...Prostate Cancer Disparities? 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) Norman H Lee, PhD; Bi-Dar Wang, PhD; Jacqueline Olender (PhD graduate...suppressor genes in prostate cancer disparities between African American (AA) and Caucasian American (CA) prostate cancer (PCa). In year 1 of this award

Annual Progress Report FY-91. Volume 1 and 2.

DTIC Science & Technology

1992-03-12

Pulmonary Med Tech 11 0644 GS Berger, TA Allergy Microbiologist 12 0403 GS Billups, L Flow Cytom Chemist 12 1320 GS Vacant Pulmonary Kyle Metabolic Unit...Reactions 11 (11/89) 3349 Salata, Kalman PhD. Mitogen-Inducible T Suppressor Cell 12 Assay by Flow Cytometry (12/89) 3350 Salata, Kalman PhD. Flow ...3/90) 3354 Salata, Kalman PhD. Two Way Mixed Lymphocyte Culture: 17 Analysis by Two Color Flow Cytometry (4/90) 3355 Salata, Kalman PhD. Effect of

In Vitro and In Vivo Activity of Omadacycline Against Two Biothreat Pathogens: Bacillus Anthracis and Yersinia Pestis

DTIC Science & Technology

2013-02-27

Judith Steenbergen, PhD1; S. Ken Tanaka, PhD1; Lynda L. Miller2; Stephanie A.Halasohoris2; Jeremy R. Hershfield, PhD2 1Paratek Pharmaceuticals...Address correspondence to: Judith Steenbergen, PhD Paratek Pharmaceuticals 1000 First Avenue, Suite 400 King of Prussia, PA Judith.steenbergen...on Civilian Biodefense. JAMA. 1999;281(18):1735-45. Jernigan DB, Raghunathan PL, Bell BP, Brechner R, Bresnitz EA, Butler JC, Cetron M, Cohen M

Proceedings of the AMEDD Clinical Psychology Short Course Held at San Francisco, California on 4-8 March 1985.

DTIC Science & Technology

1985-03-01

133 Intermediate solutions and Expanding Roles 0 CPT Fred N. Garland, Ph.D. Psychological Aspects of Terrorism: Terrorist groups and Personnel 141 MAJ...Robert P. O’Brien, Ph.D. The Psychological Aspects of Terrorism 155 MAJ Robert J. Rankin, Ph.D. A Factor-analytic Study of Deployment Attitudes of the...Kinesthetic Disassociation Technique in the 331 Treatment of Post-Traumatic Stress Disorder CPT Jean P. Wycoff, Ph.D. Behavioral Management of Chronic

Combat Readiness Check (CRC): Development of a Dual Task Assessment Protocol to Assist with Return-to-Duty Decision-Making After Traumatic Brain Injury

DTIC Science & Technology

2010-10-01

injury CO-PRINCIPAL INVESTIGATORS: Mary Vining Radomski, PhD, OTR/L and Maggie Weightman, PT, PhD (Sister Kenny Research Center [SKRC]) CO...INVESTIGATORS: Leslie Davidson PhD (Cand), MS, OTR/L (Riverbend); MAJ Sarah Goldman PhD, OTR/L, CHT (United States Army Research Institute of Environmental...of Minnesota) ASSISTED BY: Dr. Kristin Heaton and Amanda Antczak (USARIEM) and Marsha Finkelstein (health services researcher ), Michelle Pose, and

Stability of Tranexamic Acid after 12-Week Storage at Temperatures from -20 deg C to 50 deg C

DTIC Science & Technology

2013-07-01

PRELIMINARY REPORTS STABILITY OF TRANEXAMIC ACID AFTER 12-WEEK STORAGE AT TEMPERATURES FROM –20◦C TO 50◦C Rodolfo de Guzman, Jr., MT, I. Amy...Polykratis, BS, Jill L. Sondeen, PhD, Daniel N. Darlington, PhD, Andrew P. Cap, MD, PhD, Michael A. Dubick, PhD ABSTRACT Background. Tranexamic acid (TXA) is... tranexamic acid ; temperature stability; HPLC; thromboelastography; storage PREHOSPITAL EMERGENCY CARE 2013;17:394–400 BACKGROUND Hemorrhage is the leading

Spray and Combustion of Gelled Hypergolic Propellants

DTIC Science & Technology

2014-10-20

Anderson Postdoc tlnu 2/09 Ast:I·ium Mau DeRidder Anderson Postdoc tlnu 5110 Spacex Chenzhou Lian Merkle Postdoc tlnu 8/10 IBM Watson Labs Changjin Yoon...Heister PhD, 1211 1 GE Global Research Center - 5 - - 6 - Erik Dambach Heister/Pourpoint PhD, 5/11 SpaceX Paulo Santos Campanella PhD, 8/11...Yair Solomon Anderson MS, 8/12 Technion Jordan Forness Heister/Pourpoint MS, 5/13 SpaceX Jennifer Mallory Sojka PhD, 5/12 Western New England

Resistive flex sensors: a survey

NASA Astrophysics Data System (ADS)

Saggio, Giovanni; Riillo, Francesco; Sbernini, Laura; Quitadamo, Lucia Rita

2016-01-01

Resistive flex sensors can be used to measure bending or flexing with relatively little effort and a relatively low budget. Their lightness, compactness, robustness, measurement effectiveness and low power consumption make these sensors useful for manifold applications in diverse fields. Here, we provide a comprehensive survey of resistive flex sensors, taking into account their working principles, manufacturing aspects, electrical characteristics and equivalent models, useful front-end conditioning circuitry, and physic-bio-chemical aspects. Particular effort is devoted to reporting on and analyzing several applications of resistive flex sensors, related to the measurement of body position and motion, and to the implementation of artificial devices. In relation to the human body, we consider the utilization of resistive flex sensors for the measurement of physical activity and for the development of interaction/interface devices driven by human gestures. Concerning artificial devices, we deal with applications related to the automotive field, robots, orthosis and prosthesis, musical instruments and measuring tools. The presented literature is collected from different sources, including bibliographic databases, company press releases, patents, master’s theses and PhD theses.

MidSouth/Southeast BioEnergy Consortium DE-FG3608GO88036 Final Report

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

Carrier, Julie; Tappe, Phil

2014-11-30

GO88036 project was conducted at three universities: Arkansas State University, University of Arkansas and University of Georgia from 2009 to 2012, and University of Arkansas from 2012 to 2014. The funds were used at all three universities to build capacity: 1) infrastructure, such as purchase of laboratory equipment and laboratory set-up; and, 2) agronomic capabilities, including the establishment of field trials and acquisition of harvesting equipment. This infrastructure was critical to ramping bioenergy activities at all three universities. Thermochemical and biochemical conversion were investigated; algal, woody, annual and perennial herbaceous energy crops were established and monitored; educational and outreach eventsmore » were organized; co-product production and extraction were investigated; and, the nutritional qualities of biorefinery coproducts were evaluated. Funding from this project enabled 15 graduate students to submit PhD or MSc level theses; publication of one book and six book chapters; generation of 19 published abstracts; production of three lay press articles; and, dissemination of 31 peer-reviewed articles in good quality scientific journals.« less

Detection of gravitational waves: a hundred year journey

NASA Astrophysics Data System (ADS)

Mavalvala, Nergis

2016-05-01

In February 2016, scientists announced the first ever detection of gravitational waves from colliding black holes, launching a new era of gravitational wave astronomy and unprecedented tests of Einstein's theory of general relativity. I will describe the science and technology, and also the human story, behind the long quest that led to this discovery. Bio: Nergis Mavalvala is Professor of Physics at the Massachusetts Institute of Technology (MIT). Her research links the world of quantum mechanics, usually apparent only at the atomic scale, with gravitational waves, arising from some of the most powerful, yet elusive, forces in the cosmos. In 2016, she was part of the team that announced the first detection of gravitational waves from colliding black holes. She received a B.A. from Wellesley College in 1990 and a Ph.D. from MIT in 1997. She was a postdoctoral fellow and research scientist at the California Institute of Technology between 1997 and 2002. Since 2002, she has been on the Physics faculty at MIT, and was named a MacArthur Fellow in 2010. She is a Fellow of the American Physical Society and the Optical Society of America.

Genome-Wide Identification of the PHD-Finger Family Genes and Their Responses to Environmental Stresses in Oryza sativa L.

PubMed Central

Sun, Mingzhe; Yang, Junkai; Cui, Na; Zhu, Yanming

2017-01-01

The PHD-finger family has been demonstrated to be involved in regulating plant growth and development. However, little information is given for its role in environmental stress responses. Here, we identified a total of 59 PHD family genes in the rice genome. These OsPHDs genes were located on eleven chromosomes and synteny analysis only revealed nine duplicated pairs within the rice PHD family. Phylogenetic analysis of all OsPHDs and PHDs from other species revealed that they could be grouped into two major clusters. Furthermore, OsPHDs were clustered into eight groups and members from different groups displayed a great divergence in terms of gene structure, functional domains and conserved motifs. We also found that with the exception of OsPHD6, all OsPHDs were expressed in at least one of the ten tested tissues and OsPHDs from certain groups were expressed in specific tissues. Moreover, our results also uncovered differential responses of OsPHDs expression to environmental stresses, including ABA (abscisic acid), water deficit, cold and high Cd. By using quantitative real-time PCR, we further confirmed the differential expression of OsPHDs under these stresses. OsPHD1/7/8/13/33 were differentially expressed under water deficit and Cd stresses, while OsPHD5/17 showed altered expression under water deficit and cold stresses. Moreover, OsPHD3/44/28 displayed differential expression under ABA and Cd stresses. In conclusion, our results provide valuable information on the rice PHD family in plant responses to environmental stress, which will be helpful for further characterizing their biological roles in responding to environmental stresses.

NCCU/BBRI-Duke/Urology Partnership In Prostate Cancer Research

DTIC Science & Technology

2011-06-01

Joellen Schildkraut, Ph.D.; David Tulis , Ph.D.; Leon Sun, Ph 5f. WORK UNIT NUMBER 7. PERFORMING ORGANIZATION NAME(S) AND ADDRESS(ES...Following Radical Prostatectomy among Men with Localized Prostate Cancer: A Community- Based Intervention Investigators: Dave Tulis Ph.D., NCCU/BBRI

PHD domain-mediated E3 ligase activity directs intramolecular sumoylation of an adjacent bromodomain required for gene silencing.

PubMed

Ivanov, Alexey V; Peng, Hongzhuang; Yurchenko, Vyacheslav; Yap, Kyoko L; Negorev, Dmitri G; Schultz, David C; Psulkowski, Elyse; Fredericks, William J; White, David E; Maul, Gerd G; Sadofsky, Moshe J; Zhou, Ming-Ming; Rauscher, Frank J

2007-12-14

Tandem PHD and bromodomains are often found in chromatin-associated proteins and have been shown to cooperate in gene silencing. Each domain can bind specifically modified histones: the mechanisms of cooperation between these domains are unknown. We show that the PHD domain of the KAP1 corepressor functions as an intramolecular E3 ligase for sumoylation of the adjacent bromodomain. The RING finger-like structure of the PHD domain is required for both Ubc9 binding and sumoylation and directs modification to specific lysine residues in the bromodomain. Sumoylation is required for KAP1-mediated gene silencing and functions by directly recruiting the SETDB1 histone methyltransferase and the CHD3/Mi2 component of the NuRD complex via SUMO-interacting motifs. Sumoylated KAP1 stimulates the histone methyltransferase activity of SETDB1. These data provide a mechanistic explanation for the cooperation of PHD and bromodomains in gene regulation and describe a function of the PHD domain as an intramolecular E3 SUMO ligase.

Integrative research on environmental and landscape change: PhD students' motivations and challenges.

PubMed

Tress, Bärbel; Tress, Gunther; Fry, Gary

2009-07-01

The growing demand for integrative (interdisciplinary or transdisciplinary) approaches in the field of environmental and landscape change has increased the number of PhD students working in this area. Yet, the motivations to join integrative projects and the challenges for PhD students have so far not been investigated. The aims of this paper were to identify the understanding of PhD students with regard to integrative research, their motivations to join integrative projects, their expectations in terms of integration and results, and to reveal the challenges they face in integrative projects. We collected data by a questionnaire survey of 104 PhD students attending five PhD Master Classes held from 2003 to 2006. We used manual content analysis to analyse the free-text answers. The results revealed that students lack a differentiated understanding of integrative approaches. The main motivations to join integrative projects were the dissertation subject, the practical relevance of the project, the intellectual stimulation of working with different disciplines, and the belief that integrative research is more innovative. Expectations in terms of integration were high. Core challenges for integration included intellectual and external challenges such as lack of knowledge of other disciplines, knowledge transfer, reaching depth, supervision, lack of exchange with other students and time demands. To improve the situation for PhD students, we suggest improving knowledge on integrative approaches, balancing practical applicability with theoretical advancement, providing formal introductions to other fields of research, and enhancing institutional support for integrative PhD projects.

76 FR 63314 - Center for Scientific Review Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-10-12

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2012-02-14

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2010-07-01

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Richard J. French, Ph.D. | NREL

Science.gov Websites

J. French, Ph.D. Photo of Richard J. French Rick French Researcher IV-Chemistry Richard.French Laboratory equipment design and construction Computer-aided design (CAD) Education Ph.D., Chemistry, Oregon State University B.S., Chemistry, Wheaton College Professional Experience Research Scientist, National

77 FR 74675 - Center for Scientific Review; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2012-12-17

... Rockledge Drive, Bethesda, MD 20892, (Telephone Conference Call). Contact Person: Rajiv Kumar, Ph.D., Chief... Chaudhari, Ph.D., Scientific Review Officer, Center for Scientific Review, National Institutes of Health... Conference Call). Contact Person: Syed M Quadri, Ph.D., Scientific Review Officer, Center for Scientific...

Prostate Cancer Research Training Program

DTIC Science & Technology

2010-05-14

David M. Lubaroff, PhD, Principal Investigator, Paul Heidger, PhD, University of Iowa Faculty Advisor, Derek Swinton, PhD, Lincoln University...discussed the options for each of them based upon their experience and their desire for the type o f future they envisioned for themselves. Am ong the top

The Ph.D. Dilemma in Canada Revisited

ERIC Educational Resources Information Center

von Zur-Muehlen, Max

1978-01-01

An oversupply of Canadian Ph.D. graduates, particularly in higher education, has occurred. Historical trends in the employment of Canada's Ph.D. holders and future prospects are discussed. Enrollment ratios in different disciplines, support programs for doctoral students, and the immigration of university teachers are covered. (SW)

Characterization of Hepatitis C Virus (HCV) Envelope Diversification from Acute to Chronic Infection within a Sexually Transmitted HCV Cluster by Using Single-Molecule, Real-Time Sequencing

PubMed Central

Ho, Cynthia K. Y.; Raghwani, Jayna; Koekkoek, Sylvie; Liang, Richard H.; Van der Meer, Jan T. M.; Van Der Valk, Marc; De Jong, Menno; Pybus, Oliver G.

2016-01-01

ABSTRACT In contrast to other available next-generation sequencing platforms, PacBio single-molecule, real-time (SMRT) sequencing has the advantage of generating long reads albeit with a relatively higher error rate in unprocessed data. Using this platform, we longitudinally sampled and sequenced the hepatitis C virus (HCV) envelope genome region (1,680 nucleotides [nt]) from individuals belonging to a cluster of sexually transmitted cases. All five subjects were coinfected with HIV-1 and a closely related strain of HCV genotype 4d. In total, 50 samples were analyzed by using SMRT sequencing. By using 7 passes of circular consensus sequencing, the error rate was reduced to 0.37%, and the median number of sequences was 612 per sample. A further reduction of insertions was achieved by alignment against a sample-specific reference sequence. However, in vitro recombination during PCR amplification could not be excluded. Phylogenetic analysis supported close relationships among HCV sequences from the four male subjects and subsequent transmission from one subject to his female partner. Transmission was characterized by a strong genetic bottleneck. Viral genetic diversity was low during acute infection and increased upon progression to chronicity but subsequently fluctuated during chronic infection, caused by the alternate detection of distinct coexisting lineages. SMRT sequencing combines long reads with sufficient depth for many phylogenetic analyses and can therefore provide insights into within-host HCV evolutionary dynamics without the need for haplotype reconstruction using statistical algorithms. IMPORTANCE Next-generation sequencing has revolutionized the study of genetically variable RNA virus populations, but for phylogenetic and evolutionary analyses, longer sequences than those generated by most available platforms, while minimizing the intrinsic error rate, are desired. Here, we demonstrate for the first time that PacBio SMRT sequencing technology can be used to generate full-length HCV envelope sequences at the single-molecule level, providing a data set with large sequencing depth for the characterization of intrahost viral dynamics. The selection of consensus reads derived from at least 7 full circular consensus sequencing rounds significantly reduced the intrinsic high error rate of this method. We used this method to genetically characterize a unique transmission cluster of sexually transmitted HCV infections, providing insight into the distinct evolutionary pathways in each patient over time and identifying the transmission-associated genetic bottleneck as well as fluctuations in viral genetic diversity over time, accompanied by dynamic shifts in viral subpopulations. PMID:28077634

National Center for Mathematics and Science - who we are

Science.gov Websites

. Carpenter, PhD University of Wisconsin-Madison Former Director (1996-1999), Thomas A. Romberg, PhD University of Wisconsin-Madison Associate Director, James Stewart, PhD University of Wisconsin-Madison University of Wisconsin-Madison Collaborating Institutions Researchers from these institutions collaborate on

Understanding Gulf War Illness: An Integrative Modeling Approach

DTIC Science & Technology

2014-10-01

Broderick , PhD, James O’Callaghan, 5d. PROJECT NUMBER PhD and James Blount 5e. TASK NUMBER E-Mail:mmorris1@nova.edu, jblountjr...charge of the animal research. Oversees hiring of all personnel. Funding Support: NIH Name: Gordon Broderick , PhD Project Role: Co-Director

Symposium on PhD Education in Chemistry: A Four-Year Model for the PhD Degree Program in Chemistry.

ERIC Educational Resources Information Center

Burke, James D.

1988-01-01

Proposes an educational model for chemistry PhD education that emphasizes productivity and centrality of research. Supports greater development of communication skills and suggests a four-year timeline. Listed is a curriculum usable for most sciences. (ML)

76 FR 38405 - Center for Scientific Review; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-06-30

..., 6701 Rockledge Drive, Bethesda, MD 20892 (Virtual Meeting). Contact Person: Michael H Chaitin, PhD... (Virtual Meeting). Contact Person: David L Williams, PhD, Scientific Review Officer, Center for Scientific... Health, 6701 Rockledge Drive, Bethesda, MD 20817 (Virtual Meeting). Contact Person: David L Williams, PhD...

The Importance of Having a Ph.D., Career Advice

USDA-ARS?s Scientific Manuscript database

A presentation on the importance of having a PhD to motivate Initiative to Maximize Student Diversity Program (IMSD) undergrads towards conducting research, pursuing careers in the biomedical field, applying to grad school, and getting a Ph.D., based upon ARS scientist's experiences as a student, a ...

Characterization and remediation of Soil Contaminated with Explosives: Development of Practical Technologies

DTIC Science & Technology

2001-07-06

Chemistry Agnes Renoux, Ph.D. Ecotoxicology Bernard Lachance, Ph. D. Ecotoxicology Ping Gong, Ph. D. Ecotoxicology Pierre-Yves Robidoux, Ph.D... Ecotoxicology Tamara Sheremata, Ph. D. Env. Engineering Diane Fournier, Ph.D. Microbiology Annamaria Halasz, M.Sc. Chemistry Louise Paquet, B.Sc...12 Chapter 4: Applied Ecotoxicology

The Ph.D. Production Function: The Case at Berkeley.

ERIC Educational Resources Information Center

Breneman, David W.

This report analyzes departmental variations in time to degree and attrition in Ph.D. programs at Berkeley. An alternative hypothesis, the Ph.D. production function, is examined by cross-section econometric analysis of 28 departments. The inputs included in the production function were student variables--quality and percent males; faculty…

76 FR 77544 - Center for Scientific Review; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-12-13

... 20892 (Virtual Meeting). Contact Person: John Firrell, Ph.D., Scientific Review Officer, Center for..., Bethesda, MD 20892 (Virtual Meeting). Contact Person: Aruna K Behera, Ph.D., Scientific Review Officer... Wharf, 2620 Jones Street, San Francisco, CA 94133. Contact Person: Joseph D Mosca, Ph.D., Scientific...

Cherry Featured in NCI’s Spotlight on Scientists Video Series | Poster

Cancer.gov

James Cherry, Ph.D., learned at an early age that education is crucial to success. He credits his mentors, some of whom include his grandmother, Shepherd University professor Burton Lidgerding, Ph.D., David Munroe, Ph.D., Frederick National Lab, and Robert J. Hohman, Ph.D., National Institute of Allergy and Infectious Diseases, for guiding him to the career he has today. Cherry, scientific program director, Office of Scientific Operations (OSO), NCI at Frederick, is one of the scientists featured in NCI’s Spotlight on Scientists video series.

Short hairpin RNA interference therapy for ischemic heart disease.

PubMed

Huang, Mei; Chan, Denise A; Jia, Fangjun; Xie, Xiaoyan; Li, Zongjin; Hoyt, Grant; Robbins, Robert C; Chen, Xiaoyuan; Giaccia, Amato J; Wu, Joseph C

2008-09-30

During hypoxia, upregulation of hypoxia inducible factor-1 alpha transcriptional factor can activate several downstream angiogenic genes. However, hypoxia inducible factor-1 alpha is naturally degraded by prolyl hydroxylase-2 (PHD2) protein. Here we hypothesize that short hairpin RNA (shRNA) interference therapy targeting PHD2 can be used for treatment of myocardial ischemia and this process can be followed noninvasively by molecular imaging. PHD2 was cloned from mouse embryonic stem cells by comparing the homolog gene in human and rat. The best candidate shRNA sequence for inhibiting PHD2 was inserted into the pSuper vector driven by the H1 promoter followed by a separate hypoxia response element-incorporated promoter driving a firefly luciferase reporter gene. This construct was used to transfect mouse C2C12 myoblast cell line for in vitro confirmation. Compared with the control short hairpin scramble (shScramble) as control, inhibition of PHD2 increased levels of hypoxia inducible factor-1 alpha protein and several downstream angiogenic genes by >30% (P<0.01). Afterward, shRNA targeting PHD2 (shPHD2) plasmid was injected intramyocardially following ligation of left anterior descending artery in mice. Animals were randomized into shPHD2 experimental group (n=25) versus shScramble control group (n=20). Bioluminescence imaging detected plasmid-mediated transgene expression for 4 to 5 weeks. Echocardiography showed the shPHD2 group had improved fractional shortening compared with the shScramble group at Week 4 (33.7%+/-1.9% versus 28.4%+/-2.8%; P<0.05). Postmortem analysis showed increased presence of small capillaries and venules in the infarcted zones by CD31 staining. Finally, Western blot analysis of explanted hearts also confirmed that animals treated with shPHD2 had significantly higher levels of hypoxia inducible factor-1 alpha protein. This is the first study to image the biological role of shRNA therapy for improving cardiac function. Inhibition of PHD2 by shRNA led to significant improvement in angiogenesis and contractility by in vitro and in vivo experiments. With further validation, the combination of shRNA therapy and molecular imaging can be used to track novel cardiovascular gene therapy applications in the future.

Short hairpin RNA interference therapy for ischemic heart disease

PubMed Central

Huang, Mei; Chan, Denise; Jia, Fangjun; Xie, Xiaoyan; Li, Zongjin; Hoyt, Grant; Robbins, Robert C.; Chen, Xiaoyuan; Giaccia, Amato; Wu, Joseph C.

2013-01-01

Background During hypoxia, upregulation of hypoxia inducible factor-1 alpha (HIF-1α) transcriptional factor can activate several downstream angiogenic genes. However, HIF-1α is naturally degraded by prolyl hydroxylase-2 (PHD2) protein. Here we hypothesize that short hairpin RNA (shRNA) interference therapy targeting PHD2 can be used for treatment of myocardial ischemia and this process can be followed noninvasively by molecular imaging. Methods and Results PHD2 was cloned from mouse embryonic stem (ES) cells by comparing the homolog gene in human and rat. The best candidate shRNA sequence for inhibiting PHD2 was inserted into the pSuper vector driven by the H1 promoter, followed by a separate hypoxia response element (HRE)-incorporated promoter driving a firefly luciferase (Fluc) reporter gene. This construct was used to transfect mouse C2C12 myoblast cell line for in vitro confirmation. Compared to the control short hairpin scramble (shScramble) as control, inhibition of PHD2 increased levels of HIF-1α protein and several downstream angiogenic genes by >30% (P<0.01). Afterwards, shRNA targeting PHD2 (shPHD2) plasmid was injected intramyocardially following ligation of left anterior descending (LAD) artery in mice. Animals were randomized into shPHD2 group (n=20) versus shScramble sequence as control (n=20). Bioluminescence imaging detected transgene expression for 4–5 weeks. Echocardiographic study showed the shPHD2 group had improved fractional shortening compared with the shScramble group at week 4 (33.7%±1.9% vs. 28.4%±2.8%; P<0.05). Postmortem analysis showed increased presence of small capillaries and venules in the infarcted zones by CD31 staining. Finally, Western blot anlaysis of explanted hearts also confirm that animals treated with shPHD2 had significantly higher levels of HIF-1α protein. Conclusions This is the first study to image the biological role of shRNA therapy for improving cardiac function. Inhibition of PHD2 by shRNA led to significant improvement in angiogenesis and contractility by in vitro and in vivo experiments. With further validation, the combination of shRNA therapy and molecular imaging can be used to track novel cardiovascular gene therapy applications in the future. PMID:18824759

FAST: FAST Analysis of Sequences Toolbox

PubMed Central

Lawrence, Travis J.; Kauffman, Kyle T.; Amrine, Katherine C. H.; Carper, Dana L.; Lee, Raymond S.; Becich, Peter J.; Canales, Claudia J.; Ardell, David H.

2015-01-01

FAST (FAST Analysis of Sequences Toolbox) provides simple, powerful open source command-line tools to filter, transform, annotate and analyze biological sequence data. Modeled after the GNU (GNU's Not Unix) Textutils such as grep, cut, and tr, FAST tools such as fasgrep, fascut, and fastr make it easy to rapidly prototype expressive bioinformatic workflows in a compact and generic command vocabulary. Compact combinatorial encoding of data workflows with FAST commands can simplify the documentation and reproducibility of bioinformatic protocols, supporting better transparency in biological data science. Interface self-consistency and conformity with conventions of GNU, Matlab, Perl, BioPerl, R, and GenBank help make FAST easy and rewarding to learn. FAST automates numerical, taxonomic, and text-based sorting, selection and transformation of sequence records and alignment sites based on content, index ranges, descriptive tags, annotated features, and in-line calculated analytics, including composition and codon usage. Automated content- and feature-based extraction of sites and support for molecular population genetic statistics make FAST useful for molecular evolutionary analysis. FAST is portable, easy to install and secure thanks to the relative maturity of its Perl and BioPerl foundations, with stable releases posted to CPAN. Development as well as a publicly accessible Cookbook and Wiki are available on the FAST GitHub repository at https://github.com/tlawrence3/FAST. The default data exchange format in FAST is Multi-FastA (specifically, a restriction of BioPerl FastA format). Sanger and Illumina 1.8+ FastQ formatted files are also supported. FAST makes it easier for non-programmer biologists to interactively investigate and control biological data at the speed of thought. PMID:26042145

A Discrete Fruit Fly Optimization Algorithm for the Traveling Salesman Problem.

PubMed

Jiang, Zi-Bin; Yang, Qiong

2016-01-01

The fruit fly optimization algorithm (FOA) is a newly developed bio-inspired algorithm. The continuous variant version of FOA has been proven to be a powerful evolutionary approach to determining the optima of a numerical function on a continuous definition domain. In this study, a discrete FOA (DFOA) is developed and applied to the traveling salesman problem (TSP), a common combinatorial problem. In the DFOA, the TSP tour is represented by an ordering of city indices, and the bio-inspired meta-heuristic search processes are executed with two elaborately designed main procedures: the smelling and tasting processes. In the smelling process, an effective crossover operator is used by the fruit fly group to search for the neighbors of the best-known swarm location. During the tasting process, an edge intersection elimination (EXE) operator is designed to improve the neighbors of the non-optimum food location in order to enhance the exploration performance of the DFOA. In addition, benchmark instances from the TSPLIB are classified in order to test the searching ability of the proposed algorithm. Furthermore, the effectiveness of the proposed DFOA is compared to that of other meta-heuristic algorithms. The results indicate that the proposed DFOA can be effectively used to solve TSPs, especially large-scale problems.

A Discrete Fruit Fly Optimization Algorithm for the Traveling Salesman Problem

PubMed Central

Jiang, Zi-bin; Yang, Qiong

2016-01-01

The fruit fly optimization algorithm (FOA) is a newly developed bio-inspired algorithm. The continuous variant version of FOA has been proven to be a powerful evolutionary approach to determining the optima of a numerical function on a continuous definition domain. In this study, a discrete FOA (DFOA) is developed and applied to the traveling salesman problem (TSP), a common combinatorial problem. In the DFOA, the TSP tour is represented by an ordering of city indices, and the bio-inspired meta-heuristic search processes are executed with two elaborately designed main procedures: the smelling and tasting processes. In the smelling process, an effective crossover operator is used by the fruit fly group to search for the neighbors of the best-known swarm location. During the tasting process, an edge intersection elimination (EXE) operator is designed to improve the neighbors of the non-optimum food location in order to enhance the exploration performance of the DFOA. In addition, benchmark instances from the TSPLIB are classified in order to test the searching ability of the proposed algorithm. Furthermore, the effectiveness of the proposed DFOA is compared to that of other meta-heuristic algorithms. The results indicate that the proposed DFOA can be effectively used to solve TSPs, especially large-scale problems. PMID:27812175

Meaningful Engagement to Enhance Diversity: Broadened Impact Actualized

NASA Astrophysics Data System (ADS)

Whitney, V. W.; Pyrtle, A. J.

2008-12-01

The MS PHD'S Professional Development Program was established by and for UR/US populations to facilitate increased and sustained participation within the Earth system science community. MS PHD'S is jointly funded by NSF and NASA. Fourteen (14) minority Earth system scientists served as Program mentors and one- hundred fifteen (115) minority and non-minority scientists served as Meeting Mentors to student participants. Representatives from fifty-six (56) agencies and institutions provided support and exposure to MS PHD'S student participants. Two hundred fifty-eight (258) highly qualified UR/US students completed on-line applications to participate in the MS PHD'S Professional Development Program. Because of funding limitations, slightly fewer than 50% of the applicants were selected to participate. One-hundred twenty-six (126) undergraduate and graduate students from 26 states and Puerto Rico participated in the MS PHD'S program. Sixty-eight (68) MS PHD'S student participants self-identified as African American; thirty-four (34) as Puerto Rican; nine (9) as Hispanic/Mexican American, ten (10) as Native American and one (1) each as African, Asian, Pacific Islander, Hispanic and Multi-Ethnic. During the five year span of MS PHD'S programming, sixteen (16) student participants completed BS degrees, twelve (12) completed MS degrees and ten (10) completed the Doctoral degrees. How did MS PHD'S establish meaningful engagement to enhance diversity within the Earth system science community? This case study reveals replicable processes and constructs to enhance the quality of meaningful collaboration and engagement. In addition, the study addresses frequently asked questions (FAQ's) on outreach, recruitment, engagement, retention and success of students from underrepresented populations within diversity-focused programs.

Doctoral programs to train future leaders in clinical and translational science.

PubMed

Switzer, Galen E; Robinson, Georgeanna F W B; Rubio, Doris M; Fowler, Nicole R; Kapoor, Wishwa N

2013-09-01

Although the National Institutes of Health (NIH) has made extensive investments in educational programs related to clinical and translational science (CTS), there has been no systematic investigation of the number and characteristics of PhD programs providing training to future leaders in CTS. The authors undertook to determine the number of institutions that, having had received NIH-funded Clinical and Translational Science Awards (CTSAs), currently had or were developing PhD programs in CTS; to examine differences between programs developed before and after CTSA funding; and to provide detailed characteristics of new programs. In 2012, CTS program leaders at the 60 CTSA-funded institutions completed a cross-sectional survey focusing on four key domains related to PhD programs in CTS: program development and oversight; students; curriculum and research; and milestones. Twenty-two institutions had fully developed PhD programs in CTS, and 268 students were earning PhDs in this new field; 13 institutions were planning PhD programs. New programs were more likely to have fully developed PhD competencies and more likely to include students in medical school, students working only on their PhD, students working on a first doctoral degree, and students working in T1 translational research. They were less likely to include physicians and students working in clinical or T2 research. Although CTS PhD programs have similarities, they also vary in their characteristics and management of students. This may be due to diversity in translational science itself or to the relative infancy of CTS as a discipline.

Building the capacity to solve complex health challenges in sub-Saharan Africa: CARTA's multidisciplinary PhD training.

PubMed

Fonn, Sharon; Egesah, Omar; Cole, Donald; Griffiths, Frances; Manderson, Lenore; Kabiru, Caroline; Ezeh, Alex; Thorogood, Margaret; Izugbara, Chimaraoke

2016-12-27

To develop a curriculum (Joint Advanced Seminars [JASs]) that produced PhD fellows who understood that health is an outcome of multiple determinants within complex environments and that approaches from a range of disciplines is required to address health and development within the Consortium for Advanced Research Training in Africa (CARTA). We sought to attract PhD fellows, supervisors and teaching faculty from a range of disciplines into the program. Multidisciplinary teams developed the JAS curriculum. CARTA PhD fellowships were open to academics in consortium member institutions, irrespective of primary discipline, interested in doing a PhD in public and population health. Supervisors and JAS faculty were recruited from CARTA institutions. We use routine JAS evaluation data (closed and open-ended questions) collected from PhD fellows at every JAS, a survey of one CARTA cohort, and an external evaluation of CARTA to assess the impact of the JAS curriculum on learning. We describe our pedagogic approach, arguing its centrality to an appreciation of multiple disciplines, and illustrate how it promotes working in multidisciplinary ways. CARTA has attracted PhD fellows, supervisors and JAS teaching faculty from across a range of disciplines. Evaluations indicate PhD fellows have a greater appreciation of how disciplines other than their own are important to understanding health and its determinants and an appreciation and capacity to employ mixed methods research. In the short term, we have been effective in promoting an understanding of multidisciplinarity, resulting in fellows using methods from beyond their discipline of origin. This curriculum has international application.

Deficiency of the oxygen sensor prolyl hydroxylase 1 attenuates hypercholesterolaemia, atherosclerosis, and hyperglycaemia.

PubMed

Marsch, Elke; Demandt, Jasper A F; Theelen, Thomas L; Tullemans, Bibian M E; Wouters, Kristiaan; Boon, Mariëtte R; van Dijk, Theo H; Gijbels, Marion J; Dubois, Ludwig J; Meex, Steven J R; Mazzone, Massimiliano; Hung, Gene; Fisher, Edward A; Biessen, Erik A L; Daemen, Mat J A P; Rensen, Patrick C N; Carmeliet, Peter; Groen, Albert K; Sluimer, Judith C

2016-10-14

Normalization of hypercholesterolaemia, inflammation, hyperglycaemia, and obesity are main desired targets to prevent cardiovascular clinical events. Here we present a novel regulator of cholesterol metabolism, which simultaneously impacts on glucose intolerance and inflammation. Mice deficient for oxygen sensor HIF-prolyl hydroxylase 1 (PHD1) were backcrossed onto an atherogenic low-density lipoprotein receptor (LDLR) knockout background and atherosclerosis was studied upon 8 weeks of western-type diet. PHD1 -/- LDLR -/- mice presented a sharp reduction in VLDL and LDL plasma cholesterol levels. In line, atherosclerotic plaque development, as measured by plaque area, necrotic core expansion and plaque stage was hampered in PHD1 -/- LDLR -/- mice. Mechanistically, cholesterol-lowering in PHD1 deficient mice was a result of enhanced cholesterol excretion from blood to intestines and ultimately faeces. Additionally, flow cytometry of whole blood of these mice revealed significantly reduced counts of leucocytes and particularly of Ly6C high pro-inflammatory monocytes. In addition, when studying PHD1 -/- in diet-induced obesity (14 weeks high-fat diet) mice were less glucose intolerant when compared with WT littermate controls. Overall, PHD1 knockout mice display a metabolic phenotype that generally is deemed protective for cardiovascular disease. Future studies should focus on the efficacy, safety, and gender-specific effects of PHD1 inhibition in humans, and unravel the molecular actors responsible for PHD1-driven, likely intestinal, and regulation of cholesterol metabolism. Published on behalf of the European Society of Cardiology. All rights reserved. © The Author 2016. For permissions please email: journals.permissions@oup.com.

University Curricula in the Marine Sciences and Related Fields. Academic Years 1969-70 and 1970-71.

DTIC Science & Technology

1971-01-01

Associate Professor Krause , Dale C., Associate Professor 112 McMaster, Robert L., Ph.D., Associate Professor Smayda, Theodore J., Dr., Philos...Associate Professor of Zoology Division of Physical Sciences Allison, Edwin C., Ph.D., Professor of Geology Berger, Wolfgang , Ph.D., Assistant Professor of

The PhD Viva: A Space for Academic Development

ERIC Educational Resources Information Center

Share, Michelle

2016-01-01

This study examined the viva experiences of 87 social science PhD graduates from three Irish higher education institutions through a questionnaire that assessed outcome, preparation, conduct and post-viva. The majority were awarded their PhD with minor corrections, considered their viva as a summative assessment, and emphasised its purpose as…

Research Collaboration and Commercialization: The PhD Candidate Perspective

ERIC Educational Resources Information Center

Dooley, Lawrence; Kenny, Breda

2015-01-01

This paper explores PhD students' perceptions of their entrepreneurial and commercial capabilities, their attitude towards university supports and the extent to which they engage in external collaboration. The study concentrated on current PhD researchers at one university in Ireland as a unit of analysis and provides encouraging evidence from the…

Tracking the PhD Students' Daily Computer Use

ERIC Educational Resources Information Center

Sim, Kwong Nui; van der Meer, Jacques

2015-01-01

This study investigated PhD students' computer activities in their daily research practice. Software that tracks computer usage (Manic Time) was installed on the computers of nine PhD students, who were at their early, mid and final stage in doing their doctoral research in four different discipline areas (Commerce, Humanities, Health Sciences and…

Strategic Studies Quarterly. Volume 5, Number 3. Fall 2011

DTIC Science & Technology

2011-01-01

Christopher M. Hemmer, PhD Kimberly A. Hudson, PhD Col Basil S. Norris Jr., USAF, Retired Gary J. Schaub, PhD Strategic Studies Quarterly (SSQ...29). Sloterdijk goes on to describe a direct progression from the wartime use of poi­ son gas to the postwar development of pesticides and of Zyklon

The Structure of PhD Conclusion Chapters

ERIC Educational Resources Information Center

Bunton, David

2005-01-01

This paper considers the generic structure of "Conclusion" chapters in PhD theses or dissertations. From a corpus of 45 PhD theses covering a range of disciplines, chapters playing a concluding role were identified and analysed for their functional moves and steps. Most "Conclusions" were found to restate purpose, consolidate research space with a…

76 FR 54240 - National Institute of Allergy and Infectious Diseases; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-08-31

...: Robert G. Keefe, PhD, Scientific Review Officer, Scientific Review Program, DEA/NIAID/NIH/DHHS, Room 3256... Conference Call). Contact Person: Robert G. Keefe, PhD, Scientific Review Officer, Scientific Review Program... Drive, Bethesda, MD 20817 (Telephone Conference Call). Contact Person: Robert G. Keefe, PhD, Scientific...

Sensory Dysfunction in Early Parkinson’s Disease

DTIC Science & Technology

2011-07-01

Hall, Ph.D., Neil T. Shepard , Ph.D., Allen Osman, Ph.D. 5e. TASK NUMBER E-Mail: doty@mail.med.upenn.edu 5f. WORK UNIT NUMBER 7. PERFORMING...scores of this measure. 4b. Spatial Tactile Sensation JVP domes (Lafayette Instrument Co., Chicago , IL) were used to assess spatial tactile

A Renaissance in Engineering PhD Education

ERIC Educational Resources Information Center

Akay, Adnan

2008-01-01

This paper addresses the role of engineering PhD education and its relationship to innovation and technology, and the need to reconsider how we educate PhD engineers. Much of the effort on engineering education in the last two decades focused on undergraduate education with a few exceptions that relate to master degree programs. Doctoral education…

Superstar of the Sloan Minority Ph.D. Program.

PubMed

Greenwood, Ted

2013-01-01

In AY 1994-95 the Alfred P. Sloan Foundation launched a program, later known as the Minority Ph.D. Program, to increase the number of underrepresented minority students earning Ph.D.s in natural sciences, engineering and mathematics (SEM). This program emerged from a recognition that African Americans, Hispanic Americans and American Indians were very underrepresented at all levels and in all aspects of SEM disciplines and that, although undergraduate education had received and continued to received much attention by universities, private funders and government agencies, there was still relatively little attention being paid to the graduate and especially the Ph.D. level. Because earning the Ph.D. is a necessary milestone along the pathway to a faculty position and the effort to diversify the graduates of SEM disciplines depends, in large part, on diversifying the faculty at American universities, this relative lack of attention to Ph.D. education was, in the opinion of the Sloan Foundation, a significant deficiency of national efforts. As a Program Director at the Sloan Foundation, I initiated this Minority Ph.D. Program and ran it until my retirement in June 2011.

[MD PhD programs: Providing basic science education for ophthalmologists].

PubMed

Spaniol, K; Geerling, G

2015-06-01

Enrollment in MD PhD programs offers the opportunity of a basic science education for medical students and doctors. These programs originated in the USA where structured programs have been offered for many years, but now German universities also run MD PhD programs. The MD PhD programs provided by German universities were investigated regarding entrance requirements, structure and financing modalities. An internet and telephone-based search was carried out. Out of 34 German universities 22 offered MD PhD programs. At 15 of the 22 universities a successfully completed course of studies in medicine was required for enrollment, 7 programs admitted medical students in training and 7 programs required a medical doctoral thesis, which had to be completed with at least a grade of magna cum laude in 3 cases. Financing required scholarships in many cases. Several German universities currently offer MD PhD programs; however, these differ considerably regarding entrance requirements, structure and financing. A detailed analysis investigating the success rates of these programs (e.g. successful completion and career paths of graduates) would be of benefit.

The Production Rate and Employment of Ph.D. Astronomers

NASA Astrophysics Data System (ADS)

Metcalfe, Travis S.

2008-02-01

In an effort to encourage self-regulation of the astronomy job market, I examine the supply of, and demand for, astronomers over time. On the supply side, I document the production rate of Ph.D. astronomers from 1970 to 2006 using the UMI Dissertation Abstracts database, along with data from other independent sources. I compare the long-term trends in Ph.D. production with federal astronomy research funding over the same time period, and I demonstrate that additional funding is correlated with higher subsequent Ph.D. production. On the demand side, I monitor the changing patterns of employment using statistics about the number and types of jobs advertised in the AAS Job Register from 1984 to 2006. Finally, I assess the sustainability of the job market by normalizing this demand by the annual Ph.D. production. The most recent data suggest that there are now annual advertisements for about one postdoctoral job, half a faculty job, and half a research/support position for every new domestic Ph.D. recipient in astronomy and astrophysics. The average new astronomer might expect to hold up to 3 jobs before finding a steady position.

PHD Domain-Mediated E3 Ligase Activity Directs Intramolecular Sumoylation of an Adjacent Bromodomain which is Required for Gene Silencing

PubMed Central

Ivanov, Alexey V.; Peng, Hongzhuang; Yurchenko, Vyacheslav; Yap, Kyoko L.; Negorev, Dmitri G.; Schultz, David C.; Psulkowski, Elyse; Fredericks, William J.; White, David E.; Maul, Gerd G.; Sadofsky, Moshe J.; Zhou, Ming-Ming; Rauscher, Frank J.

2015-01-01

SUMMARY Tandem PHD and bromodomains are often found in chromatin-associated proteins and have been shown to cooperate in gene silencing. Each domain can bind specifically modified histones: the mechanisms of cooperation between these domains are unknown. We show that the PHD domain of the KAP1 corepressor functions as an intramolecular E3 ligase for sumoylation of the adjacent bromodomain. The RING finger-like structure of the PHD domain is required for both Ubc9 binding and sumoylation and directs modification to specific lysine residues in the bromodomain. Sumoylation is required for KAP1-mediated gene silencing and functions by directly recruiting the SETDB1 histone methyltransferase and the CHD3/Mi2 component of the NuRD complex via SUMO interacting motifs. Sumoylated KAP1 stimulates the histone methyltransferase activity of SETDB1. These data provide a mechanistic explanation for the cooperation of PHD and bromodomains in gene regulation and describe a new function of the PHD domain as an intramolecular E3 SUMO ligase. PMID:18082607

Who wants to enroll in health care PhD programs? An analysis of a nationwide graduate destination survey.

PubMed

Pan, Ying-Ju; Lee, Lung-Sheng

2012-06-01

PhD training is important for national human resource development in the era of the "knowledge economy". However, it is not clear what factors are associated with the decision of a master's degree graduate to pursue a PhD degree in health care, including medicine, public health, and nursing. It is postulated that the intention to pursue a PhD degree in health care is associated with a graduate's attributes, academic publication, socioeconomic status, and extent of financial support. A cross-sectional investigation was conducted to analyze data from the 2007 nationwide graduate destination survey in Taiwan. Logistic regression with a forward stepwise model selection strategy was applied to identify those significant factors related to the intention of master's degree graduates to pursue a PhD degree in health care. The predictive validity of the selected model was evaluated using the receiver operating characteristics curve analysis. Of the 1668 master's degree graduates who responded to the survey, only 240 (14.4%) indicated a desire to pursue a PhD degree. Seven factors are identified to be independently associated with the intention to pursue a PhD degree in health care, including female gender [odds ratio (OR)=0.18, 95% confidence interval: 0.13-0.26], more than 2 years in graduate school (OR=0.46), working during graduate school (OR=0.47), submission of conference and journal articles (OR=1.61 and 1.48, respectively), tuition source, and parents' educational level. The predictive validity of the selected model was 0.77. These findings provide an overview of potential PhD students in the field of health care. Based on this assessment, effective strategies need to be developed to attract and retain qualified candidates, as well as other types of PhD students who are in demand in this field. Copyright © 2012. Published by Elsevier B.V.

Structural Insight Into Histone Recognition by the ING PHD Fingers

PubMed Central

Champagne, Karen S.; Kutateladze, Tatiana G.

2009-01-01

The Inhibitor of Growth (ING) tumor suppressors are implicated in oncogenesis, control of DNA damage repair, cellular senescence and apoptosis. All members of the ING family contain unique amino-terminal regions and a carboxy-terminal plant homeodomain (PHD) finger. While the amino-terminal domains associate with a number of protein effectors including distinct components of histone deacetylase (HDAC) and histone acetyltransferase (HAT) complexes, the PHD finger binds strongly and specifically to histone H3 trimethylated at lysine 4 (H3K4me3). In this review we describe the molecular mechanism of H3K4me3 recognition by the ING1-5 PHD fingers, analyze the determinants of the histone specificity and compare the biological activities and structures within subsets of PHD fingers. The atomic-resolution structures of the ING PHD fingers in complex with a H3K4me3 peptide reveal that the histone tail is bound in a large and deep binding site encompassing nearly one-third of the protein surface. An extensive network of intermolecular hydrogen bonds, hydrophobic and cation-π contacts, and complementary surface interactions coordinate the first six residues of the H3K4me3 peptide. The trimethylated Lys4 occupies an elongated groove, formed by the highly conserved aromatic and hydrophobic residues of the PHD finger, whereas the adjacent groove accommodates Arg2. The two grooves are connected by a narrow channel, the small size of which defines the PHD finger’s specificity, excluding interactions with other modified histone peptides. Binding of the ING PHD fingers to H3K4me3 plays a critical role in regulating chromatin acetylation. The ING proteins function as tethering molecules that physically link the HDAC and HAT enzymatic complexes to chromatin. In this review we also highlight progress recently made in understanding the molecular basis underlying biological and tumorigenic activities of the ING tumor suppressors. PMID:19442115

PHD-2 Suppression in Mesenchymal Stromal Cells Enhances Wound Healing.

PubMed

Ko, Sae Hee; Nauta, Allison C; Morrison, Shane D; Hu, Michael S; Zimmermann, Andrew S; Chung, Michael T; Glotzbach, Jason P; Wong, Victor W; Walmsley, Graham G; Peter Lorenz, H; Chan, Denise A; Gurtner, Geoffrey C; Giaccia, Amato J; Longaker, Michael T

2018-01-01

Cell therapy with mesenchymal stromal cells is a promising strategy for tissue repair. Restoration of blood flow to ischemic tissues is a key step in wound repair, and mesenchymal stromal cells have been shown to be proangiogenic. Angiogenesis is critically regulated by the hypoxia-inducible factor (HIF) superfamily, consisting of transcription factors targeted for degradation by prolyl hydroxylase domain (PHD)-2. The aim of this study was to enhance the proangiogenic capability of mesenchymal stromal cells and to use these modified cells to promote wound healing. Mesenchymal stromal cells harvested from mouse bone marrow were transduced with short hairpin RNA (shRNA) against PHD-2; control cells were transduced with scrambled shRNA (shScramble) construct. Gene expression quantification, human umbilical vein endothelial cell tube formation assays, and wound healing assays were used to assess the effect of PHD knockdown mesenchymal stromal cells on wound healing dynamics. PHD-2 knockdown mesenchymal stromal cells overexpressed HIF-1α and multiple angiogenic factors compared to control (p < 0.05). Human umbilical vein endothelial cells treated with conditioned medium from PHD-2 knockdown mesenchymal stromal cells exhibited increased formation of capillary-like structures and enhanced migration compared with human umbilical vein endothelial cells treated with conditioned medium from shScramble-transduced mesenchymal stromal cells (p < 0.05). Wounds treated with PHD-2 knockdown mesenchymal stromal cells healed at a significantly accelerated rate compared with wounds treated with shScramble mesenchymal stromal cells (p < 0.05). Histologic studies revealed increased blood vessel density and increased cellularity in the wounds treated with PHD-2 knockdown mesenchymal stromal cells (p < 0.05). Silencing PHD-2 in mesenchymal stromal cells augments their proangiogenic potential in wound healing therapy. This effect appears to be mediated by overexpression of HIF family transcription factors and up-regulation of multiple downstream angiogenic factors.

Hypoxia Inducible Factor-2 Alpha and Prolinhydroxylase 2 Polymorphisms in Patients with Acute Respiratory Distress Syndrome (ARDS).

PubMed

Dötsch, Annika; Eisele, Lewin; Rabeling, Miriam; Rump, Katharina; Walstein, Kai; Bick, Alexandra; Cox, Linda; Engler, Andrea; Bachmann, Hagen S; Jöckel, Karl-Heinz; Adamzik, Michael; Peters, Jürgen; Schäfer, Simon T

2017-06-14

Hypoxia-inducible-factor-2α (HIF-2α) and HIF-2 degrading prolyl-hydroxylases (PHD) are key regulators of adaptive hypoxic responses i.e., in acute respiratory distress syndrome (ARDS). Specifically, functionally active genetic variants of HIF-2α (single nucleotide polymorphism (SNP) [ch2:46441523(hg18)]) and PHD2 (C/T; SNP rs516651 and T/C; SNP rs480902) are associated with improved adaptation to hypoxia i.e., in high-altitude residents. However, little is known about these SNPs' prevalence in Caucasians and impact on ARDS-outcome. Thus, we tested the hypotheses that in Caucasian ARDS patients SNPs in HIF-2α or PHD2 genes are (1) common, and (2) independent risk factors for 30-day mortality. After ethics-committee approval, 272 ARDS patients were prospectively included, genotyped for PHD2 (Taqman SNP Genotyping Assay) and HIF-2α -polymorphism (restriction digest + agarose-gel visualization), and genotype dependent 30-day mortality was analyzed using Kaplan-Meier-plots and multivariate Cox-regression analyses. Frequencies were 99.62% for homozygous HIF-2α CC-carriers (CG: 0.38%; GG: 0%), 2.3% for homozygous PHD2 SNP rs516651 TT-carriers (CT: 18.9%; CC: 78.8%), and 3.7% for homozygous PHD2 SNP rs480902 TT-carriers (CT: 43.9%; CC: 52.4%). PHD2 rs516651 TT-genotype in ARDS was independently associated with a 3.34 times greater mortality risk (OR 3.34, CI 1.09-10.22; p = 0.034) within 30-days, whereas the other SNPs had no significant impact ( p = ns). The homozygous HIF-2α GG-genotype was not present in our Caucasian ARDS cohort; however PHD2 SNPs exist in Caucasians, and PHD2 rs516651 TT-genotype was associated with an increased 30-day mortality suggesting a relevance for adaptive responses in ARDS.

Production Potential of 47Sc Using Spallation Neutron Flux at the Los Alamos Isotope Production Facility

DTIC Science & Technology

2014-03-27

Kowash, PhD (Chairman) Date //signed// 14 March 2014 LTC Stephen McHale, PhD (Member) Date //signed// 10 March 2014 Dr. Jonathan Engle, PhD (Member) Date ...signed// 14 March 2014 Dr. Justin Clinton, PhD (Member) Date AFIT-ENP-14-M-02 Abstract Scandium-47 (T1/2 = 3.41d) forms stable complexes with...0.2 µCi g−1 µAh−1 in the 47Ti and 50Ti-oxide samples, respectively. Radioisotopic purities of 47Sc in excess of 90% are achieved by activation of 47Ti

Prolyl hydroxylase regulates axonal rewiring and motor recovery after traumatic brain injury

PubMed Central

Miyake, S; Muramatsu, R; Hamaguchi, M; Yamashita, T

2015-01-01

Prolyl 4-hydroxylases (PHDs; PHD1, PHD2, and PHD3) are a component of cellular oxygen sensors that regulate the adaptive response depending on the oxygen concentration stabilized by hypoxia/stress-regulated genes transcription. In normoxic condition, PHD2 is required to stabilize hypoxia inducible factors. Silencing of PHD2 leads to the activation of intracellular signaling including RhoA and Rho-associated protein kinase (ROCK), which are key regulators of neurite growth. In this study, we determined that genetic or pharmacological inhibition of PHD2 in cultured cortical neurons prevents neurite elongation through a ROCK-dependent mechanism. We then explored the role of PHDs in axonal reorganization following a traumatic brain injury in adult mice. Unilateral destruction of motor cortex resulted in behavioral deficits due to disruption of the corticospinal tract (CST), a part of the descending motor pathway. In the spinal cord, sprouting of fibers from the intact side of the CST into the denervated side is thought to contribute to the recovery process following an injury. Intracortical infusion of PHD inhibitors into the intact side of the motor cortex abrogated spontaneous formation of CST collaterals and functional recovery after damage to the sensorimotor cortex. These findings suggest PHDs have an important role in the formation of compensatory axonal networks following an injury and may represent a new molecular target for the central nervous system disorders. PMID:25675298

Implementation methodology for interoperable personal health devices with low-voltage low-power constraints.

PubMed

Martinez-Espronceda, Miguel; Martinez, Ignacio; Serrano, Luis; Led, Santiago; Trigo, Jesús Daniel; Marzo, Asier; Escayola, Javier; Garcia, José

2011-05-01

Traditionally, e-Health solutions were located at the point of care (PoC), while the new ubiquitous user-centered paradigm draws on standard-based personal health devices (PHDs). Such devices place strict constraints on computation and battery efficiency that encouraged the International Organization for Standardization/IEEE11073 (X73) standard for medical devices to evolve from X73PoC to X73PHD. In this context, low-voltage low-power (LV-LP) technologies meet the restrictions of X73PHD-compliant devices. Since X73PHD does not approach the software architecture, the accomplishment of an efficient design falls directly on the software developer. Therefore, computational and battery performance of such LV-LP-constrained devices can even be outperformed through an efficient X73PHD implementation design. In this context, this paper proposes a new methodology to implement X73PHD into microcontroller-based platforms with LV-LP constraints. Such implementation methodology has been developed through a patterns-based approach and applied to a number of X73PHD-compliant agents (including weighing scale, blood pressure monitor, and thermometer specializations) and microprocessor architectures (8, 16, and 32 bits) as a proof of concept. As a reference, the results obtained in the weighing scale guarantee all features of X73PHD running over a microcontroller architecture based on ARM7TDMI requiring only 168 B of RAM and 2546 B of flash memory.

NEAT: a spatial telescope to detect nearby exoplanets using astrometry

NASA Astrophysics Data System (ADS)

Crouzier, Antoine

2015-01-01

With the present state of exoplanet detection techniques, none of the rocky planets of the Solar System would be discovered, yet their presence is a very strong constraint on the scenarios of formation of planetary systems. Astrometry, by measuring the reflex effect of planets on their central host stars, lead us to the mass of planets and to their orbit determination. This technique is used frequently and is very successful to determine the masses and the orbits of binary stars. From space, it is possible to use differential astrometry around nearby Solar-type stars to detect exoplanets down to one Earth mass in habitable zone, where the sensitivity of the technique is optimal. Finding habitable Earths in the Solar neighborhood would be a major step forward for exoplanet detection and these planets would be prime targets for attempting to find life outside of the Solar System, by searching for bio-markers in their atmospheres. A scientific consortium has formed to promote this kind of astrometric space mission. A mission called NEAT (Nearby Earth Astrometric Telescope) has been proposed to ESA in 2010. A laboratory testbed called NEAT-demo was assembled at IPAG, its main goal is to demonstrate CCD detector calibration to the required accuracy. During my PhD, my activities were related to astrophysical aspects as well as instrumental aspects of the mission. Regarding the scientific case, I compiled a catalog of mission target stars and reference stars (needed for the differential astrometric measurements) and I estimated the scientific return of NEAT-like missions in terms of number of detected exoplanets and their parameter distributions. The second aspect of the PhD is relative to the testbed, which mimics the NEAT telescope configuration. I am going to present the testbed itself, the data analysis methods and the results. An accuracy of 3e-4 pixel was obtained for the relative positions of artificial stars and we have determined that measures of pixel positions by the metrology is currently limited by stray light.

Enhancing the Industrial PhD Programme as a Policy Tool for University-Industry Cooperation

ERIC Educational Resources Information Center

Roolaht, Tõnu

2015-01-01

The changing role of universities in society includes the increasing expectation that academic institutions should engage in collaboration with companies. Industrial PhD programmes are educational tools for building bridges between the academic sector and industry. In these programmes, the PhD student studies and carries out research while being…

Creating Entrepreneurial Networks: Academic Entrepreneurship, Mobility and Collaboration during PhD Education

ERIC Educational Resources Information Center

Bienkowska, Dzamila; Klofsten, Magnus

2012-01-01

Network-building activities of PhD students are an important area of study in furthering our understanding of academic entrepreneurship. This paper focuses on PhD students' participation in network-building activities defined as mobility and collaboration, as well as own interest in and perceived grade of support for commercialisation from various…

Differing Motivations and Requirements in PhD Student Cohorts: A Case Study

ERIC Educational Resources Information Center

Naylor, Ryan; Chakravarti, Sumone; Baik, Chi

2016-01-01

The PhD student experience is an increasingly important area of education research in Australia and internationally. Although many factors supporting the PhD experience have been identified, there has been a tendency towards examining the issue through a cohort-wide lens, in which the nuances of experience of smaller groups and individuals may be…

The Undergraduate Origins of PhD Economists: The Berkeley Experience

ERIC Educational Resources Information Center

Olney, Martha L.

2015-01-01

The University of California, Berkeley sends more undergraduate students to economics PhD programs than any other public university. While this fact is surely a function of its size, there may be lessons from the Berkeley experience that others could adopt. To investigate why Berkeley generates so many economics PhD students, the author convened…

Assessing the Quality of PhD Dissertations. A Survey of External Committee Members

ERIC Educational Resources Information Center

Kyvik, Svein; Thune, Taran

2015-01-01

This article reports on a study of the quality assessment of doctoral dissertations, and asks whether examiner characteristics influence assessment of research quality in PhD dissertations. Utilising a multi-dimensional concept of quality of PhD dissertations, we look at differences in assessment of research quality, and particularly test whether…

In Memoriam: Amar J.S. Klar, Ph.D. | Center for Cancer Research

Cancer.gov

In Memoriam: Amar J.S. Klar, Ph.D. The Center for Cancer Research mourns the recent death of colleague and friend Amar J.S. Klar, Ph.D.  Dr. Klar was a much-liked and respected member of the NCI community as part of the Gene Regulation and Chromosome Biology Laboratory since 1988.

A Game of Simon Says: Latin America’s Left Turn and Its Effects on US Security

DTIC Science & Technology

2008-05-01

Fred P. Stone, Lt Col, PhD, Director of Research John T. Ackerman, PhD, Series Editor Kathleen Mahoney-Norris, PhD, Essay Advisor Air University...lopsided than even the lyrics from the 966 Beatles’ song “Taxman” envisioned. Alvaro Hurtado of the Interna- tional Labour Organization states that

Expected Position Error for an Onboard Satellite GPS Receiver

DTIC Science & Technology

2015-03-01

Committee Membership: Dr. Alan Jennings, PhD Chairman Dr. Eric D. Swenson, Ph.D. Member Dr. Marshall E. Haker , Ph.D. Member AFIT-ENY-MS-15-M-029 Abstract...acknowledge both Dr. Jennings and Maj Haker for taking on the role of being my advisor and as well as committee member at various times during this

Understanding Non-Traditional PhD Students Habitus--Implications for PhD Programmes

ERIC Educational Resources Information Center

Naidoo, Devika

2015-01-01

Against the background of vast changes in doctoral education and the emergence of non-traditional doctoral programmes, this paper investigates the habitus of non-traditional PhD students at a South African university. Bourdieu's conceptual tool of habitus informed the study. In-depth and open-ended interviews were conducted with 10 non-traditional…

Examiner Comment on the Literature Review in Ph.D. Theses

ERIC Educational Resources Information Center

Holbrook, Allyson; Bourke, Sid; Fairbairn, Hedy; Lovat, Terry

2007-01-01

The review of literature, so central to scholarly work and disciplined inquiry, is expected of the Ph.D. student, but how far along the road are they expected to travel? This article investigates the expectations of "the literature" in research and scholarship at Ph.D. level from the examiner and assessment perspective. The analysis…

Completing PhDs: The Perils and Enduring Promise of Deep Study

ERIC Educational Resources Information Center

Butler, Jon

2009-01-01

What is a PhD? People answer this question too often by succumbing to the bureaucratic lure. They describe formal processes, "outcomes", time to degree, funding, training in teaching--indeed, almost everything except central intellectual attraction and personal focus of the PhD enterprise: deep study. Certainly in United States PhD programs, the…

The Undergraduate Origins of PhD Economists Revisited

ERIC Educational Resources Information Center

Stock, Wendy A.; Siegfried, John J.

2015-01-01

The authors update prior analyses of the undergraduate origins of individuals who earn a PhD in economics in the United States. They include the list of the top institutions worldwide graduating the largest number of undergraduates who subsequently earn an economics PhD from a U.S. university and lists of American institutions with the largest…

Digital Doctorates? An Exploratory Study of PhD Candidates' Use of Online Tools

ERIC Educational Resources Information Center

Dowling, Robyn; Wilson, Michael

2017-01-01

Online environments are transforming learning, including doctoral education. Yet the ways in which the PhD experience is shaped and transformed through these digital modes of engagement is seldom addressed, and not systematically understood. In this article, we explore PhD students' perceptions and use of digital tools. Drawing on the results of…

Psi Chi/APA Edwin B. Newman Graduate Research Award.

PubMed

2017-12-01

The Edwin B. Newman Graduate Research Award is sponsored jointly by Psi Chi, the national honor society in psychology, and the APA. The award is presented annually to the psychology graduate student who submits the best research paper that was published or presented at a national, regional, or state psychological association conference during the past calendar year. The Edwin B. Newman Graduate Research Award was established in 1979. The award was established to recognize young researchers at the beginning of their professional lives and to commemorate both the 50th anniversary of Psi Chi and the 100th anniversary of psychology as a science (dating from the founding of Wundt's laboratory). It was named for Dr. Edwin B. Newman, the first national president of Psi Chi (1929) and one of its founders. He was a prolific researcher and a long-time chair of the Department of Psychology at Harvard University. Newman was a member of APA's Board of Directors, served as recording secretary of the board from 1962 to 1967, and was parliamentarian for the APA Council of Representatives for many years. He served both Psi Chi and APA in a distinguished manner for half a century. The Edwin B. Newman Graduate Research Award is given jointly by Psi Chi and APA. Members of the 2017 Edwin B. Newman Award Committee were Shawn Carlton, PhD, Psi Chi representative; Christina Frederick-Recascino, PhD; John Norcross, PhD, APA representative; Karenna Malavanti, PhD, Psi Chi representative; Steven Kohn, PhD, Psi Chi representative; Warren Fass, PhD, Psi Chi representative; Chris Lovelace, PhD, Psi Chi representative; and Cathy Epkins, PhD, APA representative. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

Infrared focal plane performance in the South Atlantic anomaly

NASA Technical Reports Server (NTRS)

Junga, Frank A.

1989-01-01

Proton-induced pulse height distributions (PHD's) in Si:XX detectors were studied analytically and experimentally. In addition, a preliminary design for a flight experiment to characterize the response of Si:XX detectors to the trapped proton environment and verify PHD models was developed. PHD's were computed for two orbit altitudes for a variety of shielding configurations. Most of the proton-induced pulses have amplitudes less that about 3.5 x 10(exp 5) e-h pairs. Shielding has a small effect on the shape of the PHD's. The primary effect of shielding is to reduce the total number of pulses produced. Proton-induced PHD's in a Si:Sb focal plane array bombarded by a unidirectional 67-MeV beam were measured. The maximum pulse height recorded was 6 x 10(exp 5) pairs. The distribution had two peaks: the larger peak corresponded to 3.8 x 10(exp 5) pairs and the smaller peak to 1.2 x 10(exp 5) pairs. The maximum pulse height and the larger peak are within a factor of two of predicted values. The low-energy peak was not expected, but is believed to be an artifact of inefficient charge collection in the detector. The planned flight experiment will be conducted on a Space Shuttle flight. Lockheed's helium extended life dewar (HELD) will be used to provide the required cryogenic environment for the detector. Two bulk Si:Sb arrays and two Si:As impurity band conduction arrays will be tested. The tests will be conducted while the Space Shuttle passes through the South Atlantic Anomaly. PHD's will be recorded and responsivity changes tracked. This experiment will provide a new database on proton-induced PHD's, compare two infrared detector technologies in a space environment, and provide the data necessary to validate PHD modeling.

Targeting Ligandable Pockets on Plant Homeodomain (PHD) Zinc Finger Domains by a Fragment-Based Approach

PubMed Central

2018-01-01

Plant homeodomain (PHD) zinc fingers are histone reader domains that are often associated with human diseases. Despite this, they constitute a poorly targeted class of readers, suggesting low ligandability. Here, we describe a successful fragment-based campaign targeting PHD fingers from the proteins BAZ2A and BAZ2B as model systems. We validated a pool of in silico fragments both biophysically and structurally and solved the first crystal structures of PHD zinc fingers in complex with fragments bound to an anchoring pocket at the histone binding site. The best-validated hits were found to displace a histone H3 tail peptide in competition assays. This work identifies new chemical scaffolds that provide suitable starting points for future ligand optimization using structure-guided approaches. The demonstrated ligandability of the PHD reader domains could pave the way for the development of chemical probes to drug this family of epigenetic readers. PMID:29529862

Targeting Ligandable Pockets on Plant Homeodomain (PHD) Zinc Finger Domains by a Fragment-Based Approach.

PubMed

Amato, Anastasia; Lucas, Xavier; Bortoluzzi, Alessio; Wright, David; Ciulli, Alessio

2018-04-20

Plant homeodomain (PHD) zinc fingers are histone reader domains that are often associated with human diseases. Despite this, they constitute a poorly targeted class of readers, suggesting low ligandability. Here, we describe a successful fragment-based campaign targeting PHD fingers from the proteins BAZ2A and BAZ2B as model systems. We validated a pool of in silico fragments both biophysically and structurally and solved the first crystal structures of PHD zinc fingers in complex with fragments bound to an anchoring pocket at the histone binding site. The best-validated hits were found to displace a histone H3 tail peptide in competition assays. This work identifies new chemical scaffolds that provide suitable starting points for future ligand optimization using structure-guided approaches. The demonstrated ligandability of the PHD reader domains could pave the way for the development of chemical probes to drug this family of epigenetic readers.

A "footprint" of plant carbon fixation cycle functions during the development of a heterotrophic fungus.

PubMed

Lyu, Xueliang; Shen, Cuicui; Xie, Jiatao; Fu, Yanping; Jiang, Daohong; Hu, Zijin; Tang, Lihua; Tang, Liguang; Ding, Feng; Li, Kunfei; Wu, Song; Hu, Yanping; Luo, Lilian; Li, Yuanhao; Wang, Qihua; Li, Guoqing; Cheng, Jiasen

2015-08-11

Carbon fixation pathway of plants (CFPP) in photosynthesis converts solar energy to biomass, bio-products and biofuel. Intriguingly, a large number of heterotrophic fungi also possess enzymes functionally associated with CFPP, raising the questions about their roles in fungal development and in evolution. Here, we report on the presence of 17 CFPP associated enzymes (ten in Calvin-Benson-Basham reductive pentose phosphate pathway and seven in C4-dicarboxylic acid cycle) in the genome of Sclerotinia sclerotiorum, a heterotrophic phytopathogenic fungus, and only two unique enzymes: ribulose-1, 5-bisphosphate carboxylase-oxygenase (Rubisco) and phosphoribulokinase (PRK) were absent. This data suggested an incomplete CFPP-like pathway (CLP) in fungi. Functional profile analysis demonstrated that the activity of the incomplete CLP was dramatically regulated during different developmental stages of S. sclerotiorum. Subsequent experiments confirmed that many of them were essential to the virulence and/or sclerotial formation. Most of the CLP associated genes are conserved in fungi. Phylogenetic analysis showed that many of them have undergone gene duplication, gene acquisition or loss and functional diversification in evolutionary history. These findings showed an evolutionary links in the carbon fixation processes of autotrophs and heterotrophs and implicated the functions of related genes were in course of continuous change in different organisms in evolution.

Synthetic Astrobiology

NASA Technical Reports Server (NTRS)

Rothschild, Lynn J.

2015-01-01

Synthetic biology - the design and construction of new biological parts and systems and the redesign of existing ones for useful purposes - has the potential to transform fields from pharmaceuticals to fuels. Our lab has focused on the potential of synthetic biology to revolutionize all three major parts of astrobiology: Where do we come from? Where are we going? and Are we alone? For the first and third, synthetic biology is allowing us to answer whether the evolutionary narrative that has played out on planet earth is likely to have been unique or universal. For example, in our lab we are re-evolving the biosynthetic pathways of amino acids in order to understand potential capabilities of an early organism with a limited repertoire of amino acids and developing techniques for the recovery of metals from spent electronics on other planetary bodies. In the future synthetic biology will play an increasing role in human activities both on earth, in fields as diverse as human health and the industrial production of novel bio-composites. Beyond earth, we will rely increasingly on biologically-provided life support, as we have throughout our evolutionary history. In order to do this, the field will build on two of the great contributions of astrobiology: studies of the origin of life and life in extreme environments.

The PhD Conundrum in South African Academia

ERIC Educational Resources Information Center

Breier, Mignonne; Herman, Chaya

2017-01-01

South African universities need more academics with PhDs, from historically disadvantaged population groups in particular, but they face a conundrum. In order to have more staff with PhDs, they need to produce more PhD graduates. But in order to produce more PhD graduates, they need more staff with PhDs to supervise. This article explores this…

Delivering an Organizational Leadership PhD Program at a Distance: University of Oklahoma

ERIC Educational Resources Information Center

Rodgers, Joseph Lee; Williams, T. H. Lee

2011-01-01

In this chapter, the authors identify and review a number of key features in the successful development and maintenance of a PhD program delivered at a distance. The University of Oklahoma's PhD program in organizational leadership was developed in the early 1990s and delivered (primarily, but not completely) to military personnel and families…

Research(er) at Home: Auto/Ethnography of (My) PhD

ERIC Educational Resources Information Center

Benová, Kamila

2014-01-01

This article deals with the PhD phase of tertiary higher education (in Slovakia), which is here considered as the specific phase of the academic career. It tries to answer the question: what is the PhD, in the context of research, theoretically and methodologically approached as a critical ethnography of higher education. It is focused on the…

Gentlemen We Are Out of Money...Now We Have to Think - Prioritization of Objectives in a Resource Constrained Environment

DTIC Science & Technology

2012-02-15

Additionally I would like to thank Dr. Greg Parnell, Ph.D., MAJ Melanie Vinton, COL William Sorrells, COL Simon Goerger, Ph.D., COL Chris Hill, Ph.D., and... Klein , J. Orasanu, R. Calderwood, & C. E. Zsambok (Eds.), Decision Making in Action: Models and Methods (pp. 327-345). Norwood, NJ: Ablex Publishers

Preparing for Graduate-Level Training in Professional Psychology: Comparisons across Clinical PhD, Counseling PhD, and Clinical PsyD Programs

ERIC Educational Resources Information Center

Karazsia, Bryan T.; Smith, Lena

2016-01-01

In the present study, faculty who teach in clinical and counseling doctor of philosophy (PhD) or doctor of psychology (PsyD) programs completed surveys regarding preferences for prospective student preparations to graduate programs. Faculty expectations of minimum and ideal undergraduate training were highest for scientific methods, though…

A Qualitative Study of the Experiences of Gatekeeping among PhD Counselor Educators

ERIC Educational Resources Information Center

Erbes, Carol A.

2013-01-01

The purpose of this study was to examine the gatekeeping experiences of a group of PhD counselor educators, by utilizing a phenomenological approach. This design was chosen as it could best examine the lived experiences of the participants. Nine PhD counselor educators participated in this study through a series of two interviews. All of the…

Learning from a Lived Experience of a PhD: A Reflexive Ethnography of Two Journeys

ERIC Educational Resources Information Center

Aziato, Lydia

2015-01-01

Introduction: Nurses globally have strived to obtain a Doctor of Philosophy Degree (PhD) especially those in academia. Few publications have focused on lived experiences of nurses especially those reporting failed attempts. Thus, this paper presents how lessons learnt from a failed attempt of a PhD in Nursing was used to achieve an outstanding…

The Benefits of Publishing Systematic Quantitative Literature Reviews for PhD Candidates and Other Early-Career Researchers

ERIC Educational Resources Information Center

Pickering, Catherine; Byrne, Jason

2014-01-01

Universities increasingly expect students to publish during a PhD candidature because it benefits the candidate, supervisor, institution, and wider community. Here, we describe a method successfully used by early-career researchers including PhD candidates to undertake and publish literature reviews--a challenge for researchers new to a field. Our…

ANALYSIS OR THE POTENTIAL SPERM BIOMARKER, SP22, IN HUMAN SEMEN

EPA Science Inventory

ANALYSIS OF THE POTENTIAL SPERM BIOMARKER SP22 IN HUMAN SEMEN
Rebecca A. Morris Ph.D.1, Gary R. Klinefelter Ph.D.1, Naomi L. Roberts 1, Juan D. Suarez 1,
Lillian F. Strader 1, Susan C. Jeffay 1 and Sally D. Perreault Ph.D.1

1 U.S. EPA / ORD / National Health a...

Kashlev Named First Deputy Chief, GRCBL | Poster

Cancer.gov

By Nancy Parrish, Staff Writer Editor’s note: The text for this article was adapted from an e-mail announcement to the Center for Cancer Research community from Robert Wiltrout, Ph.D., on September 8, 2014. Robert Wiltrout, Ph.D., director, NCI Center for Cancer Research (CCR), recently announced the appointment of Mikhail Kashlev, Ph.D., to deputy chief of the Gene Regulation

Ph.D. and Ed.D. Program Adaptations for College Teachers.

ERIC Educational Resources Information Center

Dressel, Paul L.; Guiste, Evelyn B.

The extent to which the Ph.D. and/or Ed.D. programs have been adapted to assist in preparing students for college teaching was surveyed. Of 309 universities, 122 responded, and of these, 72 had no adaptations. However, 50 universities indicated the availability, in at least one discipline or field, of modifications in the Ph.D. and/or Ed.D.…

Innovation in PhD Completion: The Hardy Shall Succeed (And Be Happy!)

ERIC Educational Resources Information Center

Kearns, Hugh; Gardiner, Maria; Marshall, Kelly

2008-01-01

What is it that makes a PhD such a difficult process, and prevents candidates from completing on time? In this paper, we propose that self-sabotaging behaviours, including overcommitting, procrastination and perfectionism, have a role to play. At Flinders University, we have developed a program in which we work with PhD students to help to reduce…

Intercultural PhD Supervision: Exploring the Hidden Curriculum in a Social Science Faculty Doctoral Programme

ERIC Educational Resources Information Center

Kidman, Joanna; Manathunga, Catherine; Cornforth, Sue

2017-01-01

International knowledge markets rely heavily on a ready supply of highly mobile doctoral students, many of whom are from the global South, to bring in revenue. The supervision of these PhD students, however, can reproduce neo-colonial knowledge relations, often in subtle ways. In settler nations, international PhD students may find that they are…

Pipelines or Pipe Dreams? PhD Production and Other Matters in a South African Dental Research Institute 1954-2006

ERIC Educational Resources Information Center

Grossman, Elly S.; Cleaton-Jones, Peter E.

2011-01-01

This retrospective study documents the Masters and PhD training of 131 Dental Research Institute (DRI) postgraduates (1954-2006) to establish demographics, throughput and research outcomes for future PhD pipeline strategies using the DRI database. Descriptive statistics show four degree-based groups of postgraduates: 18 PhDs; 55 MScs; 42 MDents…

[Stop the compulsive PhD trajectory for junior doctors].

PubMed

Clevers, J C Hans

2014-01-01

It has become the rule rather than the exception that junior doctors in training spend 3-4 years on a research project, culminating in a thesis. Without a PhD, clinical career prospects within and outside academia look rather bleak. Here I argue that PhD degrees should be pursued only by the most talented and motivated young clinicians.

Searching for "A Third Space": A Creative Pathway towards International PhD Students' Academic Acculturation

ERIC Educational Resources Information Center

Elliot, Dely Lazarte; Baumfield, Vivienne; Reid, Kate

2016-01-01

Undertaking a PhD is a challenging endeavour. Pursuing a doctoral education in a "foreign" context tends to increase the demands of this intellectual venture. The nature of research-based PhD programmes, often characterised by a lack of formal curricula where academic supervision lasts several years, may add another layer of complexity.…

An Exploratory Investigation of the Research Self-Efficacy, Interest in Research, and Research Knowledge of Ph.D. in Education Students

ERIC Educational Resources Information Center

Lambie, Glenn W.; Hayes, B. Grant; Griffith, Catherine; Limberg, Dodie; Mullen, Patrick R.

2014-01-01

Faculty members in higher education are called to be effective researchers; however, there is limited research examining the research development of Ph.D. students. The cross-sectional, correlational investigation we report here examined levels of research self-efficacy, interest in research, and research knowledge of Ph.D. in education students…

Predicting Computer Science Ph.D. Completion: A Case Study

ERIC Educational Resources Information Center

Cox, G. W.; Hughes, W. E., Jr.; Etzkorn, L. H.; Weisskopf, M. E.

2009-01-01

This paper presents the results of an analysis of indicators that can be used to predict whether a student will succeed in a Computer Science Ph.D. program. The analysis was conducted by studying the records of 75 students who have been in the Computer Science Ph.D. program of the University of Alabama in Huntsville. Seventy-seven variables were…

HEALTH EFFECTS OF CHRONIC EXPOSURE TO ARSENIC VIA DRINKING WATER IN INNER MONGOLIA: II. VIBROTACTILE AND VISUAL MEASURES FINAL DOCUMENT TITLE.

EPA Science Inventory

HEALTH EFFECTS OF CHRONIC EXPOSURE TO ARSENIC IN DRINKING WATER IN INNER MONGOLIA: II. VIBROTACTILE AND VISUAL MEASURES.

David Otto, Ph.D., Judy Mumford, Ph.D., Richard Kwok, M.S.P.H., Ken Hudnell, Ph.D.,
U.S. Environmental Protection Agency; Yanhong Li, M.D., Yajuan ...

The Value of Preparing PhD Students as Research Mentors: Application of Kram's Temporal Mentoring Model.

PubMed

Abbott-Anderson, Kristen; Gilmore-Bykovskyi, Andrea; Lyles, Annmarie A

The ability to successfully mentor others is an essential skill necessary for building and strengthening an infrastructure of well-prepared nurse faculty to accelerate advancements in nursing science. Mentoring is a fundamental part of the nurse faculty role, but new faculty are often unprepared to take on mentoring roles early in their academic career. Applied training in research mentoring initiated during doctor of philosophy (PhD) programs may better prepare future faculty to manage teaching and mentoring responsibilities earlier and with greater confidence. The unique opportunity exists for PhD students to engage in research mentoring with undergraduate nursing students, with probable benefits for both the mentor and the mentee. This manuscript uses Kram's temporal mentoring model as a guide to examine the training experiences of 3 PhD students mentoring undergraduate nursing students and discusses the benefits and challenges associated with these mentoring relationships. Collectively, these experiences provide preliminary support and guidance for the development and adoption of formal PhD mentor training programs to better prepare future PhD nursing faculty for their mentoring responsibilities. Copyright © 2016 Elsevier Inc. All rights reserved.

Employability of genetic counselors with a PhD in genetic counseling.

PubMed

Wallace, Jody P; Myers, Melanie F; Huether, Carl A; Bedard, Angela C; Warren, Nancy Steinberg

2008-06-01

The development of a PhD in genetic counseling has been discussed for more than 20 years, yet the perspectives of employers have not been assessed. The goal of this qualitative study was to gain an understanding of the employability of genetic counselors with a PhD in genetic counseling by conducting interviews with United States employers of genetic counselors. Study participants were categorized according to one of the following practice areas: academic, clinical, government, industry, laboratory, or research. All participants were responsible for hiring genetic counselors in their institutions. Of the 30 employers interviewed, 23 envisioned opportunities for individuals with a PhD degree in genetic counseling, particularly in academic and research settings. Performing research and having the ability to be a principal investigator on a grant was the primary role envisioned for these individuals by 22/30 participants. Employers expect individuals with a PhD in genetic counseling to perform different roles than MS genetic counselors with a master's degree. This study suggests there is an employment niche for individuals who have a PhD in genetic counseling that complements, and does not compete with, master's prepared genetic counselors.

Predicting the "graduate on time (GOT)" of PhD students using binary logistics regression model

NASA Astrophysics Data System (ADS)

Shariff, S. Sarifah Radiah; Rodzi, Nur Atiqah Mohd; Rahman, Kahartini Abdul; Zahari, Siti Meriam; Deni, Sayang Mohd

2016-10-01

Malaysian government has recently set a new goal to produce 60,000 Malaysian PhD holders by the year 2023. As a Malaysia's largest institution of higher learning in terms of size and population which offers more than 500 academic programmes in a conducive and vibrant environment, UiTM has taken several initiatives to fill up the gap. Strategies to increase the numbers of graduates with PhD are a process that is challenging. In many occasions, many have already identified that the struggle to get into the target set is even more daunting, and that implementation is far too ideal. This has further being progressing slowly as the attrition rate increases. This study aims to apply the proposed models that incorporates several factors in predicting the number PhD students that will complete their PhD studies on time. Binary Logistic Regression model is proposed and used on the set of data to determine the number. The results show that only 6.8% of the 2014 PhD students are predicted to graduate on time and the results are compared wih the actual number for validation purpose.

Science PhD Career Preferences: Levels, Changes, and Advisor Encouragement

PubMed Central

Sauermann, Henry; Roach, Michael

2012-01-01

Even though academic research is often viewed as the preferred career path for PhD trained scientists, most U.S. graduates enter careers in industry, government, or “alternative careers.” There has been a growing concern that these career patterns reflect fundamental imbalances between the supply of scientists seeking academic positions and the availability of such positions. However, while government statistics provide insights into realized career transitions, there is little systematic data on scientists' career preferences and thus on the degree to which there is a mismatch between observed career paths and scientists' preferences. Moreover, we lack systematic evidence whether career preferences adjust over the course of the PhD training and to what extent advisors exacerbate imbalances by encouraging their students to pursue academic positions. Based on a national survey of PhD students at tier-one U.S. institutions, we provide insights into the career preferences of junior scientists across the life sciences, physics, and chemistry. We also show that the attractiveness of academic careers decreases significantly over the course of the PhD program, despite the fact that advisors strongly encourage academic careers over non-academic careers. Our data provide an empirical basis for common concerns regarding labor market imbalances. Our results also suggest the need for mechanisms that provide PhD applicants with information that allows them to carefully weigh the costs and benefits of pursuing a PhD, as well as for mechanisms that complement the job market advice advisors give to their current students. PMID:22567149

PhD7Faster: predicting clones propagating faster from the Ph.D.-7 phage display peptide library.

PubMed

Ru, Beibei; 't Hoen, Peter A C; Nie, Fulei; Lin, Hao; Guo, Feng-Biao; Huang, Jian

2014-02-01

Phage display can rapidly discover peptides binding to any given target; thus, it has been widely used in basic and applied research. Each round of panning consists of two basic processes: Selection and amplification. However, recent studies have showed that the amplification step would decrease the diversity of phage display libraries due to different propagation capacity of phage clones. This may induce phages with growth advantage rather than specific affinity to appear in the final experimental results. The peptides displayed by such phages are termed as propagation-related target-unrelated peptides (PrTUPs). They would mislead further analysis and research if not removed. In this paper, we describe PhD7Faster, an ensemble predictor based on support vector machine (SVM) for predicting clones with growth advantage from the Ph.D.-7 phage display peptide library. By using reduced dipeptide composition (ReDPC) as features, an accuracy (Acc) of 79.67% and a Matthews correlation coefficient (MCC) of 0.595 were achieved in 5-fold cross-validation. In addition, the SVM-based model was demonstrated to perform better than several representative machine learning algorithms. We anticipate that PhD7Faster can assist biologists to exclude potential PrTUPs and accelerate the finding of specific binders from the popular Ph.D.-7 library. The web server of PhD7Faster can be freely accessed at http://immunet.cn/sarotup/cgi-bin/PhD7Faster.pl.

Science PhD career preferences: levels, changes, and advisor encouragement.

PubMed

Sauermann, Henry; Roach, Michael

2012-01-01

Even though academic research is often viewed as the preferred career path for PhD trained scientists, most U.S. graduates enter careers in industry, government, or "alternative careers." There has been a growing concern that these career patterns reflect fundamental imbalances between the supply of scientists seeking academic positions and the availability of such positions. However, while government statistics provide insights into realized career transitions, there is little systematic data on scientists' career preferences and thus on the degree to which there is a mismatch between observed career paths and scientists' preferences. Moreover, we lack systematic evidence whether career preferences adjust over the course of the PhD training and to what extent advisors exacerbate imbalances by encouraging their students to pursue academic positions. Based on a national survey of PhD students at tier-one U.S. institutions, we provide insights into the career preferences of junior scientists across the life sciences, physics, and chemistry. We also show that the attractiveness of academic careers decreases significantly over the course of the PhD program, despite the fact that advisors strongly encourage academic careers over non-academic careers. Our data provide an empirical basis for common concerns regarding labor market imbalances. Our results also suggest the need for mechanisms that provide PhD applicants with information that allows them to carefully weigh the costs and benefits of pursuing a PhD, as well as for mechanisms that complement the job market advice advisors give to their current students.

PhD Crisis Discourse: A Critical Approach to the Framing of the Problem and Some Australian "Solutions"

ERIC Educational Resources Information Center

Cuthbert, Denise; Molla, Tebeje

2015-01-01

A feature of HE reform discourse is the tendency to construct the rationale for reform in terms of averting calamity and risk. We refer to this risk talk as "crisis discourse." This study examines the formulation of PhD crisis discourse internationally and in Australia. We find that a key feature of PhD crisis discourse is that…

PhD by Publication as an Argument for Innovation and Technology Transfer: With Emphasis on Africa

ERIC Educational Resources Information Center

Asongu, Simplice A.; Nwachukwu, Jacinta C.

2018-01-01

The contribution of African researchers to knowledge by means of scientific publications is low compared to other regions of the world. This paper presents an argument in favour of PhD by publication as a tool for innovation and technology transfer. The conception of PhD by publication used in this study is more suited for doctorates in science…

Ohio Army National Guard Mental Health Initiative: Risk and Resilience Factors for Combat-Related Posttraumatic Psychopathology and Post Combat Adjustment

DTIC Science & Technology

2011-10-01

Goldmann, M.P.H., Edwin Shirley, Ph.D., Thomas Fine, M.A., Toyomi Goto, M.A., Kimberly Wilson, MSW, Stephen Ganocy, Ph.D., Philip Chan, M.S., Alphonse ...Kimberly Wilson, MSW, Stephen Ganocy, Ph.D., Philip Chan, M.S., Alphonse Derus, B.S., Mary Beth Serrano, M.A., Sandro Galea, M.D. Literature

Are MS in Economics Programs in Departments That Also Have a PhD Program in Economics Different from Their Counterparts?

ERIC Educational Resources Information Center

Milkman, Martin I.; Marjadi, Riza; McCoy, James P.

2016-01-01

This is the first article that compares terminal master's degree programs in economics from universities that have a PhD program in economics with those that do not offer PhD programs in economics. The authors compare these differences based on surveys in 2002 and 2012. They examine differences in general program characteristics, department…

The South Carolina Collaborative Undergraduate HBCU Student Summer Training Program

DTIC Science & Technology

2016-02-01

oral presentations, a poster session, roundtable discussions, and an interactive presentation by an NIH National Library of Medicine representative... Herbals & Cancer Michael Wargovich, PhD- July 18 (C) Cancer Disparities Marvella Ford, PhD July 19 (N) Addiction & Drugs Kimber Price, PhD July 20 (C...Department of Medicine , Division of Biostatistics and Epidemiology Tuesday, June 12, 2012 WEEK 3 (Academic Planning Lecture) Funding Opportunities

Social Policy in Social Work PhD Programs in the United States

ERIC Educational Resources Information Center

Lightfoot, Elizabeth; Gal, John; Weiss-Gal, Idit

2018-01-01

While there has been a long-standing concern about the role of policy within social work education and social work practice, most of the emphasis has been on social work education at the BSW and MSW levels. This article examines policy education at the PhD level. It first explores how policy is taught in social work PhD programs in the United…

How the PhD Came to Britain. A Century of Struggle for Postgraduate Education. SRHE Monograph 54.

ERIC Educational Resources Information Center

Simpson, Renate

The development of postgraduate studies and the establishment of the Ph.D. in Britain are discussed. Events leading to the introduction of the Ph.D. degree between 1917 and 1920 are traced, and Germany and America's influence on the acceptance of postgraduate education and research in Britain is addressed. An analysis of the highly developed…

Clinical Investigation Program, Reports Control Symbol MED-300(R1), Fiscal Year 1988

DTIC Science & Technology

1988-10-01

Dr. Venkataraman Balaraman, M.D. Department/Section: Clinical Investigation Key Words: arginine vasopressin (AVP); vascular smooth muscle responses...Kullama, Ph.D. Associate Investigators: Dr. Venkataraman Balaraman, M.D.; Dr. Kenneth T. Nakamura, M.D.; John R. Claybaugh, Ph.D. Department/Section...Harrison Hassell, MC Associate Investigators: John R. Claybaugh, Ph.D.; Arnold Siemsen, MD; Jon Streltzer, MD Department/Section: Medicine/ Nephrology

Early Careers of Recent U.S. Social Science PhDs

ERIC Educational Resources Information Center

Morrison, Emory; Rudd, Elizabeth; Nerad, Maresi

2011-01-01

In this article, we analyse findings of the largest, most comprehensive survey of the career paths of social science PhD graduates to date, "Social Science PhDs--Five+Years Out (SS5)". "SS5" surveyed more than 3,000 graduates of U.S. PhD programmes in six social science fields six to ten years after earning their PhD. The…

Eric Freed Named Deputy Director of HIV Drug Resistance Program | Poster

Cancer.gov

Editor’s note: The text for this article was adapted from an e-mail announcement to the Center for Cancer Research community from Robert Wiltrout, Ph.D., on September 8, 2014. Robert Wiltrout, Ph.D., director, NCI Center for Cancer Research (CCR), recently announced the appointment of Eric Freed, Ph.D., as deputy director of the HIV Drug Resistance Program (HIV DRP). Freed

Leadership Lessons at Division Command Level - 2004

DTIC Science & Technology

2004-11-05

9 Four domains of “emotional intelligence” are described by Goleman , Daniel et. al. in Primal Leadership: Realizing the Power of...Campbell, Ph.D. Senior Fellow, Center for Creative Leadership Diane F. DiClemente, Ph.D. Visiting Professor of Psychology , USAWC T. Owen Jacobs, Ph.D. Leo...35 The Armed Forces Officer , USGPO, 1960. Page 50. 36 See for example, “ Psychological Orientations and Leadership: Thinking Style That

Academic Experiences of International PhD Students in Australian Higher Education: From an EAP Program to a PhD Program

ERIC Educational Resources Information Center

Son, Jeong-Bae; Park, Sang-Soon

2014-01-01

For the last few decades, Australia has played a pivotal role in the supply of quality education to international students and other educational industries associated with them. In the higher education sector, in particular, international PhD student numbers continue to increase. However, the limited availability of resources for the students and…

Suitability Screening Test for Marine Corps Air Traffic Controllers

DTIC Science & Technology

2012-12-01

Approved for public release; distribution is unlimited. Navy Personnel Research, Studies, and Technology 5720 Integrity Drive  Millington...Karen M. Walker, Ph.D. William L. Farmer, Ph.D. Rebecca C. Roberts, MS Navy Personnel Research, Studies, and Technology NPRST-TR-13-1...Roberts, MS Navy Personnel Research, Studies, and Technology Reviewed by David Alderton, Ph.D. Approved and released by D. M. Cashbaugh Assistant

Determinants of the Job Satisfaction of PhD Holders: An Analysis by Gender, Employment Sector, and Type of Satisfaction in Spain

ERIC Educational Resources Information Center

Escardíbul, Josep-Oriol; Afcha, Sergio

2017-01-01

We analyze the determinants of job satisfaction of PhD holders in Spain. Specifically, we consider overall job satisfaction as well as basic and motivational satisfaction, following Herzberg's typology (based on Maslow's hierarchy of needs). Using representative data for Spain's PhD population--collected from the Spanish Survey on Human Resources…

High Surplus Energy Status Blocks Protective Breast Cancer Gene | Center for Cancer Research

Cancer.gov

High caloric intake, weight gain, and obesity are associated with increased risk of postmenopausal breast cancer, but little is known about the molecular processes through which these metabolic factors contribute to cancer. Li-Jun Di, Ph.D., and Alfonso Fernandez, Ph.D., postdoctoral fellows working with Kevin Gardner, M.D., Ph.D., in CCR's Laboratory of Receptor Biology and

The Enemy Below: Preparing Ground Forces for Subterranean Warfare

DTIC Science & Technology

2013-12-01

Thesis Advisor: Leo Blanken Second Reader: John Arquilla THIS PAGE INTENTIONALLY LEFT BLANK REPORT DOCUMENTATION PAGE Form Approved OMB No. 0704...Approved by: Leo Blanken, PhD Thesis Advisor John Arquilla, PhD Second Reader John Arquilla, PhD Chair, Department of Defense Analysis iii...Professor Leo Blanken, whose direction and patience was deeply appreciated throughout the capstone process. We are also grateful to our second

Characterization of a streptomycin-sulfonamide resistance plasmid from Actinobacillus pleuropneumoniae.

PubMed Central

Willson, P J; Deneer, H G; Potter, A; Albritton, W

1989-01-01

An Actinobacillus pleuropneumoniae strain contained a plasmid (pHD8.1) conferring resistance to streptomycin and sulfonamide. Restriction endonuclease mapping and DNA-DNA hybridization showed that pHD8.1 is related to RSF1010 from Salmonella panama, which also confers resistance to streptomycin and sulfonamide, and to pHD148 from Haemophilus ducreyi, which confers resistance only to sulfonamide. Images PMID:2541656

What Matters for Excellence in PhD Programs? Latent Constructs of Doctoral Program Quality Used by Early Career Social Scientists

ERIC Educational Resources Information Center

Morrison, Emory; Rudd, Elizabeth; Zumeta, William; Nerad, Maresi

2011-01-01

This paper unpacks how social science doctorate-holders come to evaluate overall excellence in their PhD training programs based on their domain-specific assessments of aspects of their programs. Latent class analysis reveals that social scientists 6-10 years beyond their PhD evaluate the quality of their doctoral program with one of two…

Deconstructing doctoral dissertations: how many papers does it take to make a PhD?

PubMed

Hagen, Nils T

2010-11-01

A collection of coauthored papers is the new norm for doctoral dissertations in the natural and biomedical sciences, yet there is no consensus on how to partition authorship credit between PhD candidates and their coauthors. Guidelines for PhD programs vary but tend to specify only a suggested range for the number of papers to be submitted for evaluation, sometimes supplemented with a requirement for the PhD candidate to be the principal author on the majority of submitted papers. Here I use harmonic counting to quantify the actual amount of authorship credit attributable to individual PhD graduates from two Scandinavian universities in 2008. Harmonic counting corrects for the inherent inflationary and equalizing biases of routine counting methods, thereby allowing the bibliometrically identifiable amount of authorship credit in approved dissertations to be analyzed with unprecedented accuracy. Unbiased partitioning of authorship credit between graduates and their coauthors provides a post hoc bibliometric measure of current PhD requirements, and sets a de facto baseline for the requisite scientific productivity of these contemporary PhD's at a median value of approximately 1.6 undivided papers per dissertation. Comparison with previous census data suggests that the baseline has shifted over the past two decades as a result of a decrease in the number of submitted papers per candidate and an increase in the number of coauthors per paper. A simple solution to this shifting baseline syndrome would be to benchmark the amount of unbiased authorship credit deemed necessary for successful completion of a specific PhD program, and then monitor for departures from this level over time. Harmonic partitioning of authorship credit also facilitates cross-disciplinary and inter-institutional analysis of the scientific output from different PhD programs. Juxtaposing bibliometric benchmarks with current baselines may thus assist the development of harmonized guidelines and transparent transnational quality assurance procedures for doctoral programs by providing a robust and meaningful standard for further exploration of the causes of intra- and inter-institutional variation in the amount of unbiased authorship credit per dissertation.

Customizing Process to Align with Purpose and Program: The 2003 MS PHD'S in Ocean Sciences Program Evaluative Case Study

NASA Astrophysics Data System (ADS)

Williamson, V. A.; Pyrtle, A. J.

2004-12-01

How did the 2003 Minorities Striving and Pursuing Higher Degrees of Success (MS PHD'S) in Ocean Sciences Program customize evaluative methodology and instruments to align with program goals and processes? How is data captured to document cognitive and affective impact? How are words and numbers utilized to accurately illustrate programmatic outcomes? How is compliance with implicit and explicit funding regulations demonstrated? The 2003 MS PHD'S in Ocean Sciences Program case study provides insightful responses to each of these questions. MS PHD'S was developed by and for underrepresented minorities to facilitate increased and sustained participation in Earth system science. Key components of this initiative include development of a community of scholars sustained by face-to-face and virtual mentoring partnerships; establishment of networking activities between and among undergraduate, graduate, postgraduate students, scientists, faculty, professional organization representatives, and federal program officers; and provision of forums to address real world issues as identified by each constituent group. The evaluative case study of the 2003 MS PHD'S in Ocean Sciences Program consists of an analysis of four data sets. Each data set was aligned to document progress in the achievement of the following program goals: Goal 1: The MS PHD'S Ocean Sciences Program will successfully market, recruit, select, and engage underrepresented student and non-student participants with interest/ involvement in Ocean Sciences; Goal 2: The MS PHD'S Ocean Sciences Program will provide meaningful engagement for participants as determined by quantitative analysis of user-feedback; Goal 3: The MS PHD'S Ocean Sciences Program will provide meaningful engagement for participants as determined by qualitative analysis of user-feedback, and; Goal 4: The MS PHD'S Ocean Sciences Program will develop a constituent base adequate to demonstrate evidence of interest, value, need and sustainability in its vision, mission, goals and activities. In addition to the documentation of evaluative process, the case study also provides insight on the establishment of mutually supportive principal investigator and evaluator partnerships as necessary foundations for building effective teams. The study addresses frequently asked questions (FAQ's) on the formation and sustenance of partnerships among visionaries and evaluators and the impact of this partnership on the achievement of program outcomes.

Eric Freed Named Deputy Director of HIV Drug Resistance Program | Poster

Cancer.gov

Editor’s note: The text for this article was adapted from an e-mail announcement to the Center for Cancer Research community from Robert Wiltrout, Ph.D., on September 8, 2014. Robert Wiltrout, Ph.D., director, NCI Center for Cancer Research (CCR), recently announced the appointment of Eric Freed, Ph.D., as deputy director of the HIV Drug Resistance Program (HIV DRP). Freed will join Stephen Hughes, Ph.D., director of HIV DRP, in leading this CCR program that focuses on understanding HIV replication and pathogenesis, with the goal of developing more effective strategies for treating HIV infections, and also builds on the existing strength of HIV and retrovirus research within NCI.

Kashlev Named First Deputy Chief, GRCBL | Poster

Cancer.gov

By Nancy Parrish, Staff Writer Editor’s note: The text for this article was adapted from an e-mail announcement to the Center for Cancer Research community from Robert Wiltrout, Ph.D., on September 8, 2014. Robert Wiltrout, Ph.D., director, NCI Center for Cancer Research (CCR), recently announced the appointment of Mikhail Kashlev, Ph.D., to deputy chief of the Gene Regulation and Chromosome Biology Laboratory (GRCBL). The first deputy chief to be named in the GRCBL, Kashlev joins Jeff Strathern, Ph.D., GRCBL chief, in leading the laboratory in an active research environment that focuses on chromosome dynamics (recombination, chromosome segregation, and transposable elements) and regulation (transcription, silencing, and cell cycle control).

Mid-Career PhD Physicists: Academia & Beyond

NASA Astrophysics Data System (ADS)

White, Susan

2017-01-01

What jobs do mid-career PhD physicists hold? In a first-ever study, we collected data in 2011 from over 1,500 physics PhD recipients from the classes of 1996, 1997, 2000, and 2001. About 45% of the physics PhD recipients in these classes immediately took jobs that were not temporary, and over 40% accepted postdocs. How does taking a postdoc affect mid-career employment? What is the relationship between first job (after any postdocs) and mid-career employment? How do physicists' actual jobs compare with what they thought they would be doing when they graduated? Using our initial employment and mid-career data, I will answer these questions and more.

Molecular imaging of RNA interference therapy targeting PHD2 for treatment of myocardial ischemia.

PubMed

Huang, Mei; Wu, Joseph C

2011-01-01

Coronary artery disease is the number one cause of morbidity and mortality in the Western world. It typically occurs when heart muscle receives inadequate blood supply due to rupture of atherosclerotic plaques. During ischemia, up-regulation of hypoxia inducible factor-1 alpha (HIF-1α) transcriptional factor can activate several downstream angiogenic genes. However, HIF-1α is naturally degraded by prolyl hydroxylase-2 (PHD2) protein. Recently, we cloned the mouse PHD2 gene by comparing the homolog gene in human and rat. The best candidate shRNA sequence for inhibiting PHD2 was inserted behind H1 promoter, followed by a separate hypoxia response element (HRE)-incorporated promoter driving a firefly luciferase (Fluc) reporter gene. This construct allowed us to monitor gene expression noninvasively and was used to test the hypothesis that inhibition of PHD2 by short hairpin RNA interference (shRNA) can lead to significant improvement in angiogenesis and contractility as revealed by in vitro and in vivo experiments.

A Student’s t Mixture Probability Hypothesis Density Filter for Multi-Target Tracking with Outliers

PubMed Central

Liu, Zhuowei; Chen, Shuxin; Wu, Hao; He, Renke; Hao, Lin

2018-01-01

In multi-target tracking, the outliers-corrupted process and measurement noises can reduce the performance of the probability hypothesis density (PHD) filter severely. To solve the problem, this paper proposed a novel PHD filter, called Student’s t mixture PHD (STM-PHD) filter. The proposed filter models the heavy-tailed process noise and measurement noise as a Student’s t distribution as well as approximates the multi-target intensity as a mixture of Student’s t components to be propagated in time. Then, a closed PHD recursion is obtained based on Student’s t approximation. Our approach can make full use of the heavy-tailed characteristic of a Student’s t distribution to handle the situations with heavy-tailed process and the measurement noises. The simulation results verify that the proposed filter can overcome the negative effect generated by outliers and maintain a good tracking accuracy in the simultaneous presence of process and measurement outliers. PMID:29617348

Molecular Imaging of RNA Interference Therapy Targeting PHD2 for Treatment of Myocardial Ischemia

PubMed Central

Huang, Mei; Wu, Joseph C.

2011-01-01

Summary Coronary artery disease is the number one cause of morbidity and mortality in the Western world. It typically occurs when heart muscle receives inadequate blood supply due to rupture of atherosclerotic plaques. During ischemia, up-regulation of hypoxia inducible factor-1 alpha (HIF-1α) transcriptional factor can activate several downstream angiogenic genes. However, HIF-1α is naturally degraded by prolyl hydroxylase-2 (PHD2) protein. Recently, we cloned the mouse PHD2 gene by comparing the homolog gene in human and rat. The best candidate shRNA sequence for inhibiting PHD2 was inserted behind H1 promoter, followed by a separate hypoxia response element (HRE)-incorporated promoter driving a firefly luciferase (Fluc) reporter gene. This construct allowed us to monitor gene expression noninvasively and was used to test the hypothesis that inhibition of PHD2 by short hairpin RNA interference (shRNA) can lead to significant improvement in angiogenesis and contractility as revealed by in vitro and in vivo experiments. PMID:21194030

Sequential Electrolytic Degradation of Energetic Compounds in Groundwater

DTIC Science & Technology

2004-11-12

Investigators: Dave Gilbert, Ph.D. and Tom Sale, Ph.D. Date: November 12, 2004 Revision: 1.0 Distribution Statement A: Approved for...Degradation of Energetic Compounds in Groundwater 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) Dave Gilbert, Ph.D. and...catholyte include MNX and nitramide indicating that reduction pathways suggested by others are likely ( Bonin , et al., 2004). As in the TNT

Human Factors Issues in Aircraft Maintenance and Inspection

DTIC Science & Technology

1989-10-01

Unaided, Colin G. Drury , Ph.D .......................................... A-65 Vigilance and Inspection Performance, Earl L. Wiener, Ph.D .... A-72 Human...effective in the various environments in which they will be used. We also take into account cost of equipment to the airlines and training requirements...Inspection and Review A- 64 The Human Operator as an Inspector: Aided and Unaided Colin G. Drury , Ph.D. Professor of Industrial Engineering SUNY, Buffalo

Optimal Semi-Adaptive Search With False Targets

DTIC Science & Technology

2017-12-01

we do not execute a full experimental design to attempt to build a response surface for the performance of these model under various combinations of...the degree of MASTER OF SCIENCE IN OPERATIONS RESEARCH from the NAVAL POSTGRADUATE SCHOOL December 2017 Approved by: Johannes O. Royset, Ph.D. Thesis...Advisor Dashi I. Singham, Ph.D. Second Reader Patricia A. Jacobs, Ph.D. Chair, Department of Operations Research iii THIS PAGE INTENTIONALLY LEFT

Laser Induced Patterning of Transparent Ceramics and Metallic Thin Films for Photonic and Sensing Applications

DTIC Science & Technology

2014-01-31

Department Chair Mechanical Engineering UC Riverside gaguilar@engr.ucr.edu Javier Garay Program Chair Materials and Engineering UC Riverside...Students: Miroslava Cano-Lara (PhD CICESE) # Yasmin Esqueda-Barron ( MSc , PhD CICESE)* Gabriel Castillo-Vega ( MSc CICESE, PhD USAL) # Rene Rodriguez...Beltran ( MSc , CICESE) # Lidia Sanchez-Hernandez (BSc UAEM) # Adela Reyes-Contreras (BSc UAEM) # Postdocs: Israel Perez (Postdoc, 4 months) USA

Techniques in Linear and Nonlinear Partial Differential Equations

DTIC Science & Technology

1991-10-21

theory. J. Grotowski (a student) studied the heat flow approach to harmonic maps betv:een manifolds: between spheres. and from the ball B’ in R 3 into...T. Yau; S. Kichenessamy: F. H. Lin. L. Sadun: Wu. Sigue; Yi. Fang. Also these graduate students: Li, Cong Ming, received Ph.D. in 1989. J. Grotowski . received Ph.D. in 1990. I. Birindelli, working on Ph.D. thesis. 5

$200,000 Grants Awarded to CCR Researchers for HIV/AIDS Studies | Poster

Cancer.gov

By Nancy Parrish, Staff Writer Earlier this year, the Office of AIDS Research (OAR) awarded two, two-year grants of $200,000 each to Anu Puri, Ph.D., and Robert Blumenthal, Ph.D., both of the Center for Cancer Research (CCR) Nanobiology Program, and to Eric Freed, Ph.D., of the HIV Drug Resistance Program, for their research on potential new treatments for HIV.

Rational Design of Rho Protein Inhibitors

DTIC Science & Technology

2006-09-01

X- ray crystallographic techniques for structure determination. This training regimen has consisted of formal training either individually from...facility (Brenda Temple, Ph.D.), members of the LDDN at Harvard University (Ross Stein, Ph.D. and Li-An Yeh, Ph.D.), the director of the X- ray core...initiation but essential for metastasis. Genes Dev, 2005. Electronic publication ahead of print. 23. Zhang J-H, Chung TDY, and Oldenburg KR. A

ELEMENTAL ANALYSIS OF RESPIRABLE TIRE PARTICLES AND ASSESSMENT OF CARDIO-PULMONARY TOXICITY IN RATS

EPA Science Inventory

Elemental Analysis of Respirable Tire Particles and Assessment of Cardio-pulmonary Toxicity in Rats

R.R. Gottipolu, PhD1, E. Landa, PhD2, J.K. McGee, MS1, M.C. Schladweiler, BS1, J.G. Wallenborn, MS3, A.D. Ledbetter, BS1, J.E. Richards, MS1 and U.P. Kodavanti, PhD1. 1NHEER...

MYOCARDIAL INJURY FROM INHALED COMBUSTION PARTICLES: IS THERE A ROLE FOR ZINC?

EPA Science Inventory

Myocardial injury from inhaled combustion particles: Is there a role for zinc?
U.P.Kodavanti, PhD 1, C.F.Moyer, PhD, DVM 2, A.D.Ledbetter, BS 1, M.C.Schladweiler, BS
1, P.S.Gilmour, PhD 1, R.Hauser, ScD, MPH 3, D.C.Christiani, MPH, MS 3, D.L.Costa, ScD
1 and A.Ny...

Serving Many Masters: The PhD on the Labour Market, the Everlasting Need of Inequality, and the Premature Death of Humboldt.

ERIC Educational Resources Information Center

Enders, Jurgen

2002-01-01

Surveyed German doctoral degree holders to examine the processes and outcomes of doctoral training and their impact on subsequent careers and work affiliations. Found a positive outcome of the Ph.D. on the labor market, and that selection for doctoral training is biased by social origin while later career attainment among Ph.D. holders is not. (EV)

Navigating the Path to a Biomedical Science Career

NASA Astrophysics Data System (ADS)

Zimmerman, Andrea McNeely

The number of biomedical PhD scientists being trained and graduated far exceeds the number of academic faculty positions and academic research jobs. If this trend is compelling biomedical PhD scientists to increasingly seek career paths outside of academia, then more should be known about their intentions, desires, training experiences, and career path navigation. Therefore, the purpose of this study was to understand the process through which biomedical PhD scientists are trained and supported for navigating future career paths. In addition, the study sought to determine whether career development support efforts and opportunities should be redesigned to account for the proportion of PhD scientists following non-academic career pathways. Guided by the social cognitive career theory (SCCT) framework this study sought to answer the following central research question: How does a southeastern tier 1 research university train and support its biomedical PhD scientists for navigating their career paths? Key findings are: Many factors influence PhD scientists' career sector preference and job search process, but the most influential were relationships with faculty, particularly the mentor advisor; Planned activities are a significant aspect of the training process and provide skills for career success; and Planned activities provided skills necessary for a career, but influential factors directed the career path navigated. Implications for practice and future research are discussed.

Preparing Postbaccalaureates for Entry and Success in Biomedical PhD Programs

PubMed Central

Hall, Joshua D.; Harrell, Jessica R.; Cohen, Kimberley W.; Miller, Virginia L.; Phelps, Patricia V.; Cook, Jeanette G.

2016-01-01

Certain racial and ethnic groups, individuals with disabilities, and those from low socioeconomic backgrounds remain underrepresented (UR) in the biomedical sciences. This underrepresentation becomes more extreme at each higher education stage. To support UR scholars during the critical transition from baccalaureate to PhD, we established an intensive, 1-yr postbaccalaureate training program. We hypothesized that this intervention would strengthen each participant’s competitiveness for leading PhD programs and build a foundation of skills and self-efficacy important for success during and after graduate school. Scholar critical analysis skills, lab technique knowledge, and Graduate Record Examination scores all improved significantly during the program. Scholars reported significant confidence growth in 21 of 24 categories related to success in research careers. In 5 yr, 91% (41/45) of scholars transitioned directly into PhD programs. Importantly, 40% (18/45) of participating postbaccalaureate scholars had previously been declined acceptance into graduate school; however, 17/18 of these scholars directly entered competitive PhD programs following our training program. Alumni reported they were “extremely well” prepared for graduate school, and 95% (39/41) are currently making progress to graduation with a PhD. In conclusion, we report a model for postbaccalaureate training that could be replicated to increase participation and success among UR scholars in the biomedical sciences. PMID:27496358

The bachelor's to Ph.D. STEM pipeline no longer leaks more women than men: a 30-year analysis.

PubMed

Miller, David I; Wai, Jonathan

2015-01-01

For decades, research and public discourse about gender and science have often assumed that women are more likely than men to "leak" from the science pipeline at multiple points after entering college. We used retrospective longitudinal methods to investigate how accurately this "leaky pipeline" metaphor has described the bachelor's to Ph.D. transition in science, technology, engineering, and mathematics (STEM) fields in the U.S. since the 1970s. Among STEM bachelor's degree earners in the 1970s and 1980s, women were less likely than men to later earn a STEM Ph.D. However, this gender difference closed in the 1990s. Qualitatively similar trends were found across STEM disciplines. The leaky pipeline metaphor therefore partially explains historical gender differences in the U.S., but no longer describes current gender differences in the bachelor's to Ph.D. transition in STEM. The results help constrain theories about women's underrepresentation in STEM. Overall, these results point to the need to understand gender differences at the bachelor's level and below to understand women's representation in STEM at the Ph.D. level and above. Consistent with trends at the bachelor's level, women's representation at the Ph.D. level has been recently declining for the first time in over 40 years.

The plant homeodomain fingers of fission yeast Msc1 exhibit E3 ubiquitin ligase activity.

PubMed

Dul, Barbara E; Walworth, Nancy C

2007-06-22

The DNA damage checkpoint pathway governs how cells regulate cell cycle progression in response to DNA damage. A screen for suppressors of a fission yeast chk1 mutant defective in the checkpoint pathway identified a novel Schizosaccharomyces pombe protein, Msc1. Msc1 contains 3 plant homeodomain (PHD) finger motifs, characteristically defined by a C4HC3 consensus similar to RING finger domains. PHD finger domains in viral proteins and in the cellular protein kinase MEKK1 (mitogen-activated protein kinase/extracellular signal-regulated kinase kinase kinase 1) have been implicated as ubiquitin E3 protein ligases that affect protein stability. The close structural relationship of PHD fingers to RING fingers suggests that other PHD domain-containing proteins might share this activity. We show that each of the three PHD fingers of Msc1 can act as ubiquitin E3 ligases, reporting for the first time that PHD fingers from a nuclear protein exhibit E3 ubiquitin ligase activity. The function of the PHD fingers of Msc1 is needed to rescue the DNA damage sensitivity of a chk1Delta strain. Msc1 co-precipitates Rhp6, the S. pombe homologue of the human ubiquitin-conjugating enzyme Ubc2. Strikingly, deletion of msc1 confers complete suppression of the slow growth phenotype, UV and hydroxyurea sensitivities of an rhp6 deletion strain and restores deficient histone H3 methylation observed in the rhp6Delta mutant. We speculate that the target of the E3 ubiquitin ligase activity of Msc1 is likely to be a chromatin-associated protein.

T7 lytic phage-displayed peptide libraries exhibit less sequence bias than M13 filamentous phage-displayed peptide libraries.

PubMed

Krumpe, Lauren R H; Atkinson, Andrew J; Smythers, Gary W; Kandel, Andrea; Schumacher, Kathryn M; McMahon, James B; Makowski, Lee; Mori, Toshiyuki

2006-08-01

We investigated whether the T7 system of phage display could produce peptide libraries of greater diversity than the M13 system of phage display due to the differing processes of lytic and filamentous phage morphogenesis. Using a bioinformatics-assisted computational approach, collections of random peptide sequences obtained from a T7 12-mer library (X(12)) and a T7 7-mer disulfide-constrained library (CX(7)C) were analyzed and compared with peptide populations obtained from New England BioLabs' M13 Ph.D.-12 and Ph.D.-C7C libraries. Based on this analysis, peptide libraries constructed with the T7 system have fewer amino acid biases, increased peptide diversity, and more normal distributions of peptide net charge and hydropathy than the M13 libraries. The greater diversity of T7-displayed libraries provides a potential resource of novel binding peptides for new as well as previously studied molecular targets. To demonstrate their utility, several of the T7-displayed peptide libraries were screened for streptavidin- and neutravidin-binding phage. Novel binding motifs were identified for each protein.

Broader Impact Actualized: Collaborative Efforts that Facilitate Successful Movement of Underrepresented Students Through the Pipeline

NASA Astrophysics Data System (ADS)

Pyrtle, A. J.; Whitney, V. W.

2007-12-01

The Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science Initiative \\(MS PHD'S)\\ was established by and for underrepresented minorities to facilitate increased and sustained participation in Earth system science community. Based on successful experiences of students within the SOARS program, the MS PHD'S 2003 pilot project incorporated a team mentoring structure. Student interaction with multiple mentors resulted in exposure to multiple learning perspectives and increased one-on-one, mentee/mentor interaction. Since program inception, eleven \\(11)\\ minority Earth system scientists have served as Program mentors and eighty-two (82) minority and non-minority scientists have served as Meeting Mentors to MS PHD'S student participants A total of ninety-nine \\(99)\\ undergraduate and graduate students from underrepresented populations have participated in the MS PHD'S program. Twenty-five undergraduate and graduate students participated in the MS PHD'S pilot program in 2003 as Cohort I. During FY 04-05, Cohort II consisted of twenty-seven students and twenty-three students formed Cohort III. FY 06-07, twenty-four (24) students formed Cohort IV. Of the ninety-nine \\(99)\\ student participants, fifty-four \\(54)\\ MS PHD'S student participants self-identified as African American, twenty-seven \\(27)\\ as Puerto Rican, six \\(6)\\ as Hispanic/Mexican American, eight \\(8)\\ as Native American and one \\(1)\\ each as African, Asian, Pacific Islander and Multi-Ethnic. During the five \\(5)\\ year span of MS PHD'S programming, fourteen \\(14)\\ student participants completed BS degrees, ten (10) completed MS degrees and seven \\(7\\ completed the Doctoral degrees. How did MS PHD'S establish meaningful engagement of the science community to enhance diversity within the Earth system science community? This case study reveals replicable processes and constructs to enhance the quality of meaningful collaboration and engagement. In addition, the study addresses frequently asked questions \\ (FAQ's)\\ on outreach, recruitment, engagement, retention and success of students from underrepresented populations within diversity-focused programs.

Synchronous microbial vanadium (V) reduction and denitrification in groundwater using hydrogen as the sole electron donor.

PubMed

Jiang, Yufeng; Zhang, Baogang; He, Chao; Shi, Jiaxin; Borthwick, Alistair G L; Huang, Xueyang

2018-05-21

Groundwater co-contaminated by vanadium (V) (V(V)) and nitrate requires efficient remediation to prevent adverse environmental impacts. However, little is known about simultaneous bio-reductions of V(V) and nitrate supported by gaseous electron donors in aquifers. This study is among the first to examine microbial V(V) reduction and denitrification with hydrogen as the sole electron donor. V(V) removal efficiency of 91.0 ± 3.2% was achieved in test bioreactors within 7 d, with synchronous, complete removal of nitrate. V(V) was reduced to V(IV), which precipitated naturally under near-neutral conditions, and nitrate tended to be converted to nitrogen, both of which processes helped to purify the groundwater. Volatile fatty acids (VFAs) were produced from hydrogen oxidation. High-throughput 16S rRNA gene sequencing and metagenomic analyses revealed the evolutionary behavior of microbial communities and functional genes. The genera Dechloromonas and Hydrogenophaga promoted bio-reductions of V(V) and nitrate directly coupled to hydrogen oxidation. Enriched Geobacter and denitrifiers also indicated synergistic mechanism, with VFAs acting as organic carbon sources for heterotrophically functional bacteria while reducing V(V) and nitrate. These findings are likely to be useful in revealing biogeochemical fates of V(V) and nitrate in aquifer and developing technology for removing them simultaneously from groundwater. Copyright © 2018 Elsevier Ltd. All rights reserved.

Long-term field study of sea kraits in New Caledonia: fundamental issues and conservation.

PubMed

Bonnet, Xavier

2012-08-01

This short review focuses on the findings associated with a long-term field study on two species of sea kraits in New Caledonia. Since 2002, more than 30 sites in the lagoon have been sampled, and in most places mark-recapture was implemented. We collected detailed data on more than 14,000 marked individuals (>6000 recaptures) and used different techniques (stable isotopes, bio-logging, analyses of diet). The objective was fundamental: to examine how amphibious snakes cope with both terrestrial and aquatic environments. As access to abundant food is likely the main evolutionary driver for the return transition toward the sea in marine tetrapods, foraging ecology was an important part of the research and novel information was obtained on this subject. Rapidly however, field observations revealed the potential interest of sea kraits for conservation issues. Our results show that these snakes are useful bio-indicators of marine biodiversity; they also provide a useful signal to monitor levels of contamination by heavy metals in the lagoon, and more generally as a means of studying the functioning of reef ecosystems. Importantly, anecdotal observations (e.g., a krait drinking during rain) provided unsuspected physiological insights of general importance to fundamental problems and conservation. One of the lessons of this long-term study is that key results emerged in an unexpected way, but all were dependent on intensive field work.

Hybrid soft computing systems for electromyographic signals analysis: a review.

PubMed

Xie, Hong-Bo; Guo, Tianruo; Bai, Siwei; Dokos, Socrates

2014-02-03

Electromyographic (EMG) is a bio-signal collected on human skeletal muscle. Analysis of EMG signals has been widely used to detect human movement intent, control various human-machine interfaces, diagnose neuromuscular diseases, and model neuromusculoskeletal system. With the advances of artificial intelligence and soft computing, many sophisticated techniques have been proposed for such purpose. Hybrid soft computing system (HSCS), the integration of these different techniques, aims to further improve the effectiveness, efficiency, and accuracy of EMG analysis. This paper reviews and compares key combinations of neural network, support vector machine, fuzzy logic, evolutionary computing, and swarm intelligence for EMG analysis. Our suggestions on the possible future development of HSCS in EMG analysis are also given in terms of basic soft computing techniques, further combination of these techniques, and their other applications in EMG analysis.

Hybrid soft computing systems for electromyographic signals analysis: a review

PubMed Central

2014-01-01

Electromyographic (EMG) is a bio-signal collected on human skeletal muscle. Analysis of EMG signals has been widely used to detect human movement intent, control various human-machine interfaces, diagnose neuromuscular diseases, and model neuromusculoskeletal system. With the advances of artificial intelligence and soft computing, many sophisticated techniques have been proposed for such purpose. Hybrid soft computing system (HSCS), the integration of these different techniques, aims to further improve the effectiveness, efficiency, and accuracy of EMG analysis. This paper reviews and compares key combinations of neural network, support vector machine, fuzzy logic, evolutionary computing, and swarm intelligence for EMG analysis. Our suggestions on the possible future development of HSCS in EMG analysis are also given in terms of basic soft computing techniques, further combination of these techniques, and their other applications in EMG analysis. PMID:24490979

Gene Targets in Prostate Tumor Cells that Mediate Aberrant Growth and Invasiveness

DTIC Science & Technology

2005-02-01

Craig A. Hauser , Ph.D. Gabriele Foos, Ph.D. CONTRACTING ORGANIZATION: The Burnham Institute La Jolla, California 92037 REPORT DATE: February 2005 TYPE...NUMBERS Gene Targets in Prostate Tumor Cells that Mediate DAMD17-02-1-0019 Aberrant Growth and Invasiveness 6. AUTHOR(S) Craig A. Hauser , Ph.D. Gabriele...REPORTABLE OUTCOMES Foos G, Hauser CA (2004) The role of Ets transcription factors in mediating cellular transformation. In: Handbook of Experimental

Launching a Career or Reflecting on Life? Reasons, Issues and Outcomes for Candidates Undertaking PhD Studies Mid-Career or after Retirement Compared to the Traditional Early Career Pathway

ERIC Educational Resources Information Center

Stehlik, Tom

2011-01-01

The Commonwealth government provides fee exemption for any Australian who undertakes a PhD. This policy is presumably based on the "clever country" assumption that an educated population will develop and contribute to social and economic capital. Enrolment numbers therefore continue to increase, and a PhD is no longer an elite…

Basic and Applied Research in the Field of Electronics and Communications

DTIC Science & Technology

1998-02-18

Epitaxy on Semiconductor Surfaces Song, S. Ph.D., 1996 Optical Frequency Metrology Lutwak , R. Ph.D., 1996 Precision Physical Measurements...Systems." J. Opt. Soc. Am. 514(8): 2167-2173 (1997). Lutwak , R., J. Holley, P.P. Chang, S. Paine, D. Kleppner, and T. Ducas. "Circular States of...Domain Analysis of Electromagnetic Interference and Radiation Problems. Ph.D. diss., Dept. of Electr. Eng. and Comput. Sei., MIT, 1995. Lutwak , R

Sparse Representation of Multimodality Sensing Databases for Data Mining and Retrieval

DTIC Science & Technology

2015-04-09

Savarese. Estimating the Aspect Layout of Object Categories, EEE Conference on Computer Vision and Pattern Recognition (CVPR). 19-JUN-12...Time Equivalent (FTE) support provided by this agreement, and total for each category): (a) Graduate Students Liang Mei, 50% FTE, EE : systems...PhD candidate Min Sun, 50% FTE, EE : systems, PhD candidate Yu Xiang, 50% FTE, EE : systems, PhD candidate Dae Yon Jung, 50% FTE, EE : systems, PhD

A Synopsis of Personalized Medicine Projects Within the United States Air Force

DTIC Science & Technology

2017-06-16

MDW/SGVU SUBJECT: Professional Presentation Approval 17 MAY 2017 1. Your paper, entitled A Synopsis of Personalized Medicine Projects within the...3039 must be submitted for review and approval.) 6. TITLE OF MA TE RIAL TO BE PUBLISHED OR PRESENTED: A SYNOPSIS OF PERSONALIZED MEDICINE PROJECTS ...PERSONALIZED MEDICINE PROJECTS WITHIN THE UNITED STATES AIR FORCE Sandra Valtier, Ph.D., G. Jilani Chaudry, Ph.D., Lisa Lott, Ph.D., Manuel Caballero

Baccalaureate Origins of PhDs, 1920-1980: A New Study. College Rankings by Educational Productivity.

ERIC Educational Resources Information Center

Hanson, Todd C.

A report on the undergraduate origins of PhD holders for the periods of 1920-1980 and 1970-1980 is presented. Its three goals are to show how many of each of the 1,200 U.S. colleges had graduates who earned the PhD during the two time periods; to calculate the proportion of each college's graduates who had earned the PhD during the two time…

Practical Recommendations for Trait-Level Estimation in the Navy Computer Adaptive Personality Scales (NCAPS)

DTIC Science & Technology

2010-11-30

www.nprst.navy.mil NPRST-TN-11-1 November 2010 Practical Recommendations for -level Estimation in NCAPS Frederick L. Oswald, Ph.D. Rice University...Navy Computer Adaptive Personality Scales ( NCAPS ) Frederick L. Oswald, Ph.D. Rice University Reviewed, Approved, and Released by David M...Personality Scales ( NCAPS ) Frederick P. Oswald, Ph.D. Rice University 6100 Main St., MS25 Houston, TX 77005 Navy Personnel Research, Studies, and

Cannabinoid Receptors: A Novel Target for Therapy for Prostate Cancer

DTIC Science & Technology

2008-02-01

experiments, the long term implications of our study could be to develop nonhabit-forming cannabi - noid agonist (s) for the management of prostate cancer ...independent prostate cancer cell invasion. Cancer Res 2004;64:8826–30. 14. Sarfaraz S, Afaq F, Adhami VM, et al. Cannabi - noid receptors agonist WIN-55,212–2...for Therapy for Prostate Cancer PRINCIPAL INVESTIGATOR: Hasan Mukhtar, Ph.D. Farrukh Afaq, Ph.D. Sami Sarfaraz, Ph.D

Career opportunities for graduates with professional master's vs. PhD degrees.

PubMed

Gwirtz, Patricia A

2014-09-01

Professional science master's degree programs are an appealing option to those who want to pursue a professional career and/or seek advancement in their career that does not necessarily require the more advanced PhD degree. These programs are designed to meet a workforce need for professionals and can be completed within 2 years. The student learns the professional skills to be successful in their chosen field, and data indicate a great deal of satisfaction by graduates from these programs. In contrast, those who wish to have a career goal in academia or research usually will pursue a PhD degree. Table 1 shows the important similarities and differences a student should consider when deciding whether to pursue a PSM or Ph.D. degree.

Early Cenozoic radiations in the Antarctic marine realm and their evolutionary implications

NASA Astrophysics Data System (ADS)

Crame, Alistair

2014-05-01

The extensive and very well exposed Late Cretaceous - Early Paleogene sedimentary succession of Seymour Island, NE Antarctic Peninsula presents a unique opportunity to examine Early Cenozoic evolutionary radiations in a variety of macrofaunal taxa. Building on the extensive pioneer studies by US and Argentinian palaeontologists, recent investigations have focused on refining litho-, bio- and chronostratigraphies, and taxonomic revisions to a number of key groups. Within the numerically dominant Mollusca, the balance of faunas changes significantly across the Cretaceous/Paleogene boundary, with gastropods becoming numerically dominant for the first time in the Early Paleocene Sobral Formation (SF). At this level seven of the 31 gastropod genera present (= 23%) can be referred to modern Southern Ocean taxa and the same figure is maintained in the Early Eocene La Meseta Formation (LMF) where 21 of 63 genera are modern. A major reason for the rise of the gastropods in the earliest Cenozoic of Antarctica is a significant radiation of the Neogastropoda, which today forms one of the largest clades in the sea. 50% of the SF gastropod fauna and 53% of the LMF at the species level are neogastropods. This important burst of speciation is linked to a major pulse of global warming from ~63 - 43Ma when warm temperate conditions prevailed for long intervals of time at 65ºS. The marked Early Paleogene radiation of neogastropods in Antarctica represents a distinct pulse of southern high-latitude taxa that was coeval with similar tropical/subtropical radiations in localities such as the US Gulf Coast and NW Europe. Thus it would appear that the Early Cenozoic radiation of this major taxon was truly global in scale and not just confined to one latitudinal belt. Whereas it is possible to regard a significant proportion of the modern bivalve fauna as relicts, and thus Antarctica as an evolutionary refugium, or sink, it is much less easy to do so for the Neogastropoda. At least in the Early Cenozoic greenhouse world, evolutionary source - sink dynamics, such as Tropical Niche Conservatism and the Out of the Tropics concept, may be inappropriate for some major marine clades.

The AquaDEB project: Physiological flexibility of aquatic animals analysed with a generic dynamic energy budget model (phase II)

NASA Astrophysics Data System (ADS)

Alunno-Bruscia, Marianne; van der Veer, Henk W.; Kooijman, Sebastiaan A. L. M.

2011-11-01

This second special issue of the Journal of Sea Research on development and applications of Dynamic Energy Budget (DEB) theory concludes the European Research Project AquaDEB (2007-2011). In this introductory paper we summarise the progress made during the running time of this 5 years' project, present context for the papers in this volume and discuss future directions. The main scientific objectives in AquaDEB were (i) to study and compare the sensitivity of aquatic species (mainly molluscs and fish) to environmental variability within the context of DEB theory for metabolic organisation, and (ii) to evaluate the inter-relationships between different biological levels (individual, population, ecosystem) and temporal scales (life cycle, population dynamics, evolution). AquaDEB phase I focussed on quantifying bio-energetic processes of various aquatic species ( e.g. molluscs, fish, crustaceans, algae) and phase II on: (i) comparing of energetic and physiological strategies among species through the DEB parameter values and identifying the factors responsible for any differences in bioenergetics and physiology; (ii) considering different scenarios of environmental disruption (excess of nutrients, diffuse or massive pollution, exploitation by man, climate change) to forecast effects on growth, reproduction and survival of key species; (iii) scaling up the models for a few species from the individual level up to the level of evolutionary processes. Apart from the three special issues in the Journal of Sea Research — including the DEBIB collaboration (see vol. 65 issue 2), a theme issue on DEB theory appeared in the Philosophical Transactions of the Royal Society B (vol 365, 2010); a large number of publications were produced; the third edition of the DEB book appeared (2010); open-source software was substantially expanded (over 1000 functions); a large open-source systematic collection of ecophysiological data and DEB parameters has been set up; and a series of DEB tele-courses and symposia have been further developed and expanded, bringing together people from a wide variety of backgrounds (experimental and theoretical biologists, mathematicians, engineers, physicists, chemists, environmental sciences, computer scientists) and training levels in DEB theory. Some 15 PhD students graduated during the running time of AquaDEB with a strong DEB component in their projects and over 15 will complete their thesis within a few years. Five post-doctoral projects were also part of the training network. Several universities (Brest, Marseille, Lisbon, Bergen) included DEB courses in their standard curriculum for biology students.

To what extent has doctoral (PhD) education supported academic nurse educators in their teaching roles: an integrative review.

PubMed

Bullin, Carol

2018-01-01

A doctoral degree, either a PhD or equivalent, is the academic credential required for an academic nurse educator position in a university setting; however, the lack of formal teaching courses in doctoral programs contradict the belief that these graduates are proficient in teaching. As a result, many PhD prepared individuals are not ready to meet the demands of teaching. An integrative literature review was undertaken. Four electronic databases were searched including the Cumulative Index to Nursing & Allied Health Literature (CINAHL), PubMed, Educational Resources Information Center (ERIC) and ProQuest. Date range and type of peer-reviewed literature was not specified. Conditions and factors that influenced or impacted on academic nurse educators' roles and continue to perpetuate insufficient pedagogical preparation include the requirement of a research focused PhD, lack of mentorship in doctoral programs and the influence of epistemic cultures (including institutional emphasis and reward system). Other factors that have impacted the academic nurse educator's role are society's demand for highly educated nurses that have increased the required credential, the assumption that all nurses are considered natural teachers, and a lack of consensus on the practice of the scholarship of teaching. Despite recommendations from nursing licensing bodies and a major US national nursing education study, little has been done to address the issue of formal pedagogical preparation in doctoral (PhD) nursing programs. There is an expectation of academic nurse educators to deliver quality nursing education yet, have very little or no formal pedagogical preparation for this role. While PhD programs remain research-intensive, the PhD degree remains a requirement for a role in which teaching is the major responsibility.

Analysis of ISO/IEEE 11073 built-in security and its potential IHE-based extensibility.

PubMed

Rubio, Óscar J; Trigo, Jesús D; Alesanco, Álvaro; Serrano, Luis; García, José

2016-04-01

The ISO/IEEE 11073 standard for Personal Health Devices (X73PHD) aims to ensure interoperability between Personal Health Devices and aggregators-e.g. health appliances, routers-in ambulatory setups. The Integrating the Healthcare Enterprise (IHE) initiative promotes the coordinated use of different standards in healthcare systems (e.g. Personal/Electronic Health Records, alert managers, Clinical Decision Support Systems) by defining profiles intended for medical use cases. X73PHD provides a robust syntactic model and a comprehensive terminology, but it places limited emphasis on security and on interoperability with IHE-compliant systems and frameworks. However, the implementation of eHealth/mHealth applications in environments such as health and fitness monitoring, independent living and disease management (i.e. the X73PHD domains) increasingly requires features such as secure connections to mobile aggregators-e.g. smartphones, tablets-, the sharing of devices among different users with privacy, and interoperability with certain IHE-compliant healthcare systems. This work proposes a comprehensive IHE-based X73PHD extension consisting of additive layers adapted to different eHealth/mHealth applications, after having analyzed the features of X73PHD (especially its built-in security), IHE profiles related with these applications and other research works. Both the new features proposed for each layer and the procedures to support them have been carefully chosen to minimize the impact on X73PHD, on its architecture (in terms of delays and overhead) and on its framework. Such implications are thoroughly analyzed in this paper. As a result, an extended model of X73PHD is proposed, preserving its essential features while extending them with added value. Copyright © 2016 Elsevier Inc. All rights reserved.

Harvard College Observatory: Shapley's Factory for PhD Degrees?

NASA Astrophysics Data System (ADS)

Welther, B. L.

2000-12-01

When Harlow Shapley assumed the Directorship of Harvard College Observatory in 1921, there was no program in place there to train the next generation of astronomers. In 1923, using the Pickering Fund for women assistants, Shapley hired a young English woman, Cecilia Payne, to work on stellar spectra. Just two short years later, Payne completed her research and wrote a celebrated thesis on stellar atmospheres. Because Harvard University was not prepared to confer a PhD degree on a woman at that time, Payne presented her thesis to Radcliffe College. Thus, in 1925 she became the first person to receive a PhD in astronomy for a research project at HCO. By 1933, a PhD in Astronomy had been conferred on eight graduate students who had undertaken research projects at HCO: four men who received their degree from Harvard, and four women, from Radcliffe. In subsequent years, however, the equal distribution of degrees for men and women quickly changed. When the 30th degree was bestowed in 1943, only 10 of the candidates were women. By 1955, when the 60th degree was conferred, only 14 women had received a PhD. In just two decades, then, the ratio of women astronomers had steadily dropped from a solid 50% at the height of the Shapley era to slightly less than 25% at his retirement. Also, until the mid-1960s, the women astronomers still had to apply to Radcliffe for their PhD degrees. This paper will briefly examine the funding and research topics of some of the HCO PhD candidates in the Shapley Era (1921-1955). It will also highlight some of their subsequent contributions to 20th-century American Astronomy.

Prostate Cancer Research Training in Health Disparities for Undergraduates (PCaRT)

DTIC Science & Technology

2010-03-01

management Program Mentors Carlton Adams, M.D. LaMonica Stewart, Ph.D. Ben Ogunkua, M.D., Ph.D. Alphonse Pasipanodya, M.D. Jay Fowke, Ph.D., MPH...African-Americans Alphonse Pasipanodya, MD. (Primary Mentor) Flora A. M. Ukoli, MD., MPH. (Principal Investigator) Derrick Beech, M.D. (Co-PI...my goals is to be a successful black woman influencing and touching the lives of all those I come in contact with daily. Alphonse Pasipanodya

The United States Army Medical Department Journal. October - December 2010

DTIC Science & Technology

2010-12-01

Fail, Just Ask Them 65 Carita DeVilbiss, PhD; Valerie J. Rice, PhD; Linda Laws; Petra Alfred Understanding the Leadership and Cultural Dimensions...educators prepared to affect the affective domain? Natl Forum Teach Educ J [serial online], 2006;16(3E):2005-2006. 17. Martin BL, Briggs LJ. The...J. Rice, PhD Linda Laws Petra Alfred ABSTRACT One method to discover possible reasons why individuals fail academic training is to ask them

Computational Methods for Control in Partial Differential Equations

DTIC Science & Technology

1998-07-13

supported in part under this grant are C. Musante (Ph.D. thesis completed in May, 1998), M. Buksas (Ph.D. thesis to be completed in August, 1998) and M...continuing initial promising simulation findings. A summary of theoretical and numerical results to date is given in the Ph.D. thesis of Musante [4]. II... Musante and Buksas in visits to Brooks Air Force Base. The collaborations intensified during 1997 with the following visits: 1. June 15-August 30

In-Situ Bioreduction and Removal of Ammonium Perchlorate

DTIC Science & Technology

2006-05-09

Ader, PhD. Max Coleman, PhD. Swades Chaudhuri, PhD. Susan O’Connor MSc, MSc Royce Bruce, MSc. Urania Michaelidou, MSc. Melissa Rice, MSc. Sarah...1993. SeqApp, 1.9a157 ed. Biocomputing Office, Biology Dept., Indiana University, Bloomington, IN. 44. Giordano , G., L. Saracino, and L. Grillet. 1985...Mutant of E. coli K-12. Biocimica et Biophysica Acta 839:181-190. 45. Guigliarelli, B., A. Magalon, M. Asso, P. Bertrand, C. Frixon, G. Giordano

Annual Progress Report FY-92. Volume 1

DTIC Science & Technology

1993-01-21

Billups, L Flow Cytom Resh Psychologist 12 0180 CS Hamm, C DCI 7 DESCRIPTION GRADE MOS BRANCH NAME ACTIVITY Kyle Metabolic Unit Nursing Service Supv...3349 Salata, Kalman PhD. Mitogen-Inducible T Suppressor Cell 13 Assay by Flow Cytometry (12/89) 3350 Salata, Kalman PhD. Flow Cytometric Analysis of...17 Immunotherapy (3/90) 3354 Salata, Kalman PhD. Two Way Mixed Lymphocyte Culture: 18 Analysis by Two Color Flow Cytometry (4/90) 3355 Salata, Kalman

Report on the International PhD School ''Science and Technology with the E-ELT''

NASA Astrophysics Data System (ADS)

Bono, G.; Hook, I.; Ramsay, S.

2015-12-01

This international PhD school in the F. Lucchin cycle was the first to bring together Masters and PhD students with an interest in all aspects of the science and technology of the European Extremely Large Telescope (E-ELT). It was fitting that this school was held within a year of the project formally entering the construction phase. An overview of the topics covered during the school is presented.

The bachelor’s to Ph.D. STEM pipeline no longer leaks more women than men: a 30-year analysis

PubMed Central

Miller, David I.; Wai, Jonathan

2015-01-01

For decades, research and public discourse about gender and science have often assumed that women are more likely than men to “leak” from the science pipeline at multiple points after entering college. We used retrospective longitudinal methods to investigate how accurately this “leaky pipeline” metaphor has described the bachelor’s to Ph.D. transition in science, technology, engineering, and mathematics (STEM) fields in the U.S. since the 1970s. Among STEM bachelor’s degree earners in the 1970s and 1980s, women were less likely than men to later earn a STEM Ph.D. However, this gender difference closed in the 1990s. Qualitatively similar trends were found across STEM disciplines. The leaky pipeline metaphor therefore partially explains historical gender differences in the U.S., but no longer describes current gender differences in the bachelor’s to Ph.D. transition in STEM. The results help constrain theories about women’s underrepresentation in STEM. Overall, these results point to the need to understand gender differences at the bachelor’s level and below to understand women’s representation in STEM at the Ph.D. level and above. Consistent with trends at the bachelor’s level, women’s representation at the Ph.D. level has been recently declining for the first time in over 40 years. PMID:25741293

Analyzing the factors that influencing the success of post graduates in achieving graduate on time (GOT) using analytic hierarchy process (AHP)

NASA Astrophysics Data System (ADS)

Chin, Wan Yung; Ch'ng, Chee Keong; Jamil, Jastini Mohd.; Shaharanee, Izwan Nizal Mohd.

2017-11-01

In the globalization era, education plays an important role in educating and preparing individuals to face the demands and challenges of 21st century. Thus, this contributes to the increase of the number of individuals pursuing their studies in Doctor of Philosophy (Ph.D) program. However, the ability of Ph.D students in heading to the four years Graduate on Time (GOT) mission that is stipulated by University has become a major concern of students, institution and government. Therefore, the main objective of this study is to investigate the factors that influence the Ph.D students in Universiti Utara Malaysia (UUM) to achieve GOT. Through the reviewing of previous research, six factors which are student factor, financial factor, supervisor factor, skills factor, project factors and institution factor had been identified as the domain factors that influence the Ph.D students in achieving GOT. The level of importance for each factor will be ranked by the experts from three graduate schools using Analytic Hierarchy Process (AHP) technique. This study will bring a significant contribution to the understanding of factors that affecting the Ph.D students in UUM to achieve GOT. In Addition, this study can also succor the university in planning and assisting the Ph.D students to accomplish the GOT in future.

Strategic innovation between PhD and DNP programs: Collaboration, collegiality, and shared resources.

PubMed

Edwards, Joellen; Rayman, Kathleen; Diffenderfer, Sandra; Stidham, April

2016-01-01

At least 111 schools and colleges of nursing across the nation provide both PhD and DNP programs (AACN, 2014a). Collaboration between nurses with doctoral preparation as researchers (PhD) and practitioners (DNP) has been recommended as essential to further the profession; that collaboration can begin during the educational process. The purpose of this paper is to describe the development and implementation of successful DNP and PhD program collaboration, and to share the results of that collaboration in an educational setting. Faculty set strategic goals to maximize the effectiveness and efficiency of both new DNP and existing PhD programs. The goals were to promote collaboration and complementarity between the programs through careful capstone and dissertation differentiation, complementary residency activities, joint courses and inter-professional experiences; promote collegiality in a blended on-line learning environment through shared orientation and intensive on-campus sessions; and maximize resources in program delivery through a supportive organizational structure, equal access to technology support, and shared faculty responsibilities as appropriate to terminal degrees. Successes such as student and faculty accomplishments, and challenges such as managing class size and workload, are described. Collaboration, collegiality and the sharing of resources have strengthened and enriched both programs and contributed to the success of students, faculty. These innovative program strategies can provide a solid foundation for DNP and PhD collaboration. Copyright © 2016 Elsevier Inc. All rights reserved.

Meet EPA Scientist Valerie Zartarian, Ph.D.

EPA Pesticide Factsheets

Senior exposure scientist and research environmental engineer Valerie Zartarian, Ph.D. helps build computer models and other tools that advance our understanding of how people interact with chemicals.

Enhancing Postgraduate Learning and Teaching: Postgraduate Summer School in Dairy Science

PubMed Central

Gabai, Gianfranco; Morgante, Massimo; Gallo, Luigi

2014-01-01

Dairy science is a multidisciplinary area of scientific investigation and Ph.D. students aiming to do research in the field of animal and/or veterinary sciences must be aware of this. Ph.D. students often have vast spectra of research interests, and it is quite challenging to satisfy the expectation of all of them. The aim of this study was to establish an international Ph.D. training program based on research collaboration between the University of Sydney and the University of Padova. The core component of this program was a two-week Postgraduate Summer School in Dairy Science, which was held at the University of Padova, for Ph.D. students of both universities. Therefore, we designed a program that encompassed seminars, workshops, laboratory practical sessions, and farm visits. Participants were surveyed using a written questionnaire. Overall, participants have uniformly praised the Summer School calling it a rewarding and valuable learning experience. The Ph.D. Summer School in Dairy Science provided its participants a positive learning experience, provided them the opportunity to establish an international network, and facilitated the development of transferable skills. PMID:24575312

Standard-compliant real-time transmission of ECGs: harmonization of ISO/IEEE 11073-PHD and SCP-ECG.

PubMed

Trigo, Jesús D; Chiarugi, Franco; Alesanco, Alvaro; Martínez-Espronceda, Miguel; Chronaki, Catherine E; Escayola, Javier; Martínez, Ignacio; García, José

2009-01-01

Ambient assisted living and integrated care in an aging society is based on the vision of the lifelong Electronic Health Record calling for HealthCare Information Systems and medical device interoperability. For medical devices this aim can be achieved by the consistent implementation of harmonized international interoperability standards. The ISO/IEEE 11073 (x73) family of standards is a reference standard for medical device interoperability. In its Personal Health Device (PHD) version several devices have been included, but an ECG device specialization is not yet available. On the other hand, the SCP-ECG standard for short-term diagnostic ECGs (EN1064) has been recently approved as an international standard ISO/IEEE 11073-91064:2009. In this paper, the relationships between a proposed x73-PHD model for an ECG device and the fields of the SCP-ECG standard are investigated. A proof-of-concept implementation of the proposed x73-PHD ECG model is also presented, identifying open issues to be addressed by standards development for the wider interoperability adoption of x73-PHD standards.

The Functional Human C-Terminome

PubMed Central

Hedden, Michael; Lyon, Kenneth F.; Brooks, Steven B.; David, Roxanne P.; Limtong, Justin; Newsome, Jacklyn M.; Novakovic, Nemanja; Rajasekaran, Sanguthevar; Thapar, Vishal; Williams, Sean R.; Schiller, Martin R.

2016-01-01

All translated proteins end with a carboxylic acid commonly called the C-terminus. Many short functional sequences (minimotifs) are located on or immediately proximal to the C-terminus. However, information about the function of protein C-termini has not been consolidated into a single source. Here, we built a new “C-terminome” database and web system focused on human proteins. Approximately 3,600 C-termini in the human proteome have a minimotif with an established molecular function. To help evaluate the function of the remaining C-termini in the human proteome, we inferred minimotifs identified by experimentation in rodent cells, predicted minimotifs based upon consensus sequence matches, and predicted novel highly repetitive sequences in C-termini. Predictions can be ranked by enrichment scores or Gene Evolutionary Rate Profiling (GERP) scores, a measurement of evolutionary constraint. By searching for new anchored sequences on the last 10 amino acids of proteins in the human proteome with lengths between 3–10 residues and up to 5 degenerate positions in the consensus sequences, we have identified new consensus sequences that predict instances in the majority of human genes. All of this information is consolidated into a database that can be accessed through a C-terminome web system with search and browse functions for minimotifs and human proteins. A known consensus sequence-based predicted function is assigned to nearly half the proteins in the human proteome. Weblink: http://cterminome.bio-toolkit.com. PMID:27050421

Algae-bacteria interactions: Evolution, ecology and emerging applications.

PubMed

Ramanan, Rishiram; Kim, Byung-Hyuk; Cho, Dae-Hyun; Oh, Hee-Mock; Kim, Hee-Sik

2016-01-01

Algae and bacteria have coexisted ever since the early stages of evolution. This coevolution has revolutionized life on earth in many aspects. Algae and bacteria together influence ecosystems as varied as deep seas to lichens and represent all conceivable modes of interactions - from mutualism to parasitism. Several studies have shown that algae and bacteria synergistically affect each other's physiology and metabolism, a classic case being algae-roseobacter interaction. These interactions are ubiquitous and define the primary productivity in most ecosystems. In recent years, algae have received much attention for industrial exploitation but their interaction with bacteria is often considered a contamination during commercialization. A few recent studies have shown that bacteria not only enhance algal growth but also help in flocculation, both essential processes in algal biotechnology. Hence, there is a need to understand these interactions from an evolutionary and ecological standpoint, and integrate this understanding for industrial use. Here we reflect on the diversity of such relationships and their associated mechanisms, as well as the habitats that they mutually influence. This review also outlines the role of these interactions in key evolutionary events such as endosymbiosis, besides their ecological role in biogeochemical cycles. Finally, we focus on extending such studies on algal-bacterial interactions to various environmental and bio-technological applications. Copyright © 2015 The Authors. Published by Elsevier Inc. All rights reserved.

Where Synthetic Biology Meets ET

NASA Technical Reports Server (NTRS)

Rothschild, Lynn J.

2016-01-01

Synthetic biology - the design and construction of new biological parts and systems and the redesign of existing ones for useful purposes - has the potential to transform fields from pharmaceuticals to fuels. Our lab has focused on the potential of synthetic biology to revolutionize all three major parts of astrobiology: Where do we come from? Where are we going? and Are we alone? For the first and third, synthetic biology is allowing us to answer whether the evolutionary narrative that has played out on planet earth is likely to have been unique or universal. For example, in our lab we are re-evolving the biosynthetic pathways of amino acids in order to understand potential capabilities of an early organism with a limited repertoire of amino acids and developing techniques for the recovery of metals from spent electronics on other planetary bodies. And what about the limits for life? Can we create organisms that expand the envelope for life? In the future synthetic biology will play an increasing role in human activities both on earth, in fields as diverse as human health and the industrial production of novel bio-composites. Beyond earth, we will rely increasingly on biologically-provided life support, as we have throughout our evolutionary history. In order to do this, the field will build on two of the great contributions of astrobiology: studies of the origin of life and life in extreme environments.

Synthetic Astrobiology

NASA Technical Reports Server (NTRS)

Rothschild, Lynn J.

2016-01-01

Synthetic biology - the design and construction of new biological parts and systems and the redesign of existing ones for useful purposes - has the potential to transform fields from pharmaceuticals to fuels. Our lab has focused on the potential of synthetic biology to revolutionize all three major parts of astrobiology: Where do we come from? Where are we going? and Are we alone? For the first and third, synthetic biology is allowing us to answer whether the evolutionary narrative that has played out on planet earth is likely to have been unique or universal. For example, in our lab we are re-evolving the biosynthetic pathways of amino acids in order to understand potential capabilities of an early organism with a limited repertoire of amino acids and developing techniques for the recovery of metals from spent electronics on other planetary bodies. And what about the limits for life? Can we create organisms that expand the envelope for life? In the future synthetic biology will play an increasing role in human activities both on earth, in fields as diverse as human health and the industrial production of novel bio-composites. Beyond earth, we will rely increasingly on biologically-provided life support, as we have throughout our evolutionary history. In order to do this, the field will build on two of the great contributions of astrobiology: studies of the origin of life and life in extreme environments.

A Randomized, Controlled Trial of Intranasal Oxytocin as an Adjunct to Behavioral Therapy for Autism Spectrum Disorder

DTIC Science & Technology

2014-10-01

o Aude Henin, Ph.D. (MGH PI) o Dina Hirshfeld- Becker , Ph.D. (independent evaluator at MGH) o Angela Utschig, Ph.D. (study therapist at MGH) o...intranasal oxytocin or placebo. Participants and evaluators will be blind to treatment condition. In year 1 of the study, we set up the study framework...experimental treatment, and OT before 12 sessions of CBT treatment. Volunteers (patients) and evaluators will be blind to condition assignment

The Role of AKT2 in Human Breast Cancer

DTIC Science & Technology

2002-06-01

factors, Aktl becomes phosphorylated at these two serous cystadenocarcinomas , four mucinous cystadeno- residues. It has been shown that AKT2 is activated...AD Award Number: DAMD17-01-1-0397 TITLE: The Role of AKT2 in Human Breast Cancer PRINCIPAL INVESTIGATOR: Zeng Qiang Yuan, Ph.D. Jin Q. Cheng, M.D...in Human Breast Cancer DAMD17-01-1-0397 6. AUTHOR(S) Zeng Qiang Yuan, Ph.D. Jin Q. Cheng, M.D., Ph.D. 7. PERFORMING ORGANIZATION NAME(S) AND ADDRESS(ES

Understanding Gulf War Illness: An Integrative Modeling Approach

DTIC Science & Technology

2015-10-01

ELEMENT NUMBER 6. AUTHOR(S) Mariana Morris, PhD, Nancy Klimas, MD, Gordon Broderick , PhD, James O’Callaghan, 5d. PROJECT NUMBER PhD and James...12, 2015, Dr. Broderick submitted 1st detailed report in follow up of Fort Detrick EAB meeting (September 2014). (Task 1; Subtask 2)  On March 4, 2015...Dr, Broderick submitted a 2nd interim report to address additional questions asked by Dr. Reifman on March 2, 2015. (Task 1; Subtask 2)  Dr

Rescuing Our Warriors from Chronic Pain: A Battlefield-to-Nondeployment Means to Prevent Opioid-induced Amplification of Neuropathic Pain from Traumatic Injury

DTIC Science & Technology

2017-10-01

Amplification of Neuropathic Pain from Traumatic Injury PRINCIPAL INVESTIGATOR: Linda R. Watkins , Ph.D. CONTRACTING ORGANIZATION: Regents of the...0161 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) Linda R Watkins , Ph.D. Peter M Grace, Ph.D. Suzanne M Fulgham, M.S. 5d. PROJECT NUMBER 5e. TASK...but from their action on glia cells by binding to the TLR4 receptor ( Watkins , Hutchinson, Rice, Maier, Trends Pharmacol Sci., 2009). Opioid

A Total Quality Leadership Process Improvement Model

DTIC Science & Technology

1993-12-01

Leadership Process Improvement Model by Archester Houston, Ph.D. and Steven L. Dockstader, Ph.D. DTICS ELECTE tleaese oand sale itsFeat ben proe 94-12058...tTl ’AND SIATE COVERID0 Z lits Z40 uerI’Ll12/93 IFinalS.FNR IM F A Total Quality Leadership Process Improvement Model M ARRhOW~ Archester Houston, Ph.D...and Steven L. Dockstader, Ph.D. ?. 7PEJORMING ORG-AN1:AION NAMEIS) AND 00-RESS(ES) L PERFORMIN4 ORAINIZATION Total Quality Leadership OfficeREOTNMR

The Differential Vector Phase-Locked Loop for Global Navigation Satellite System Signal Tracking

DTIC Science & Technology

2014-06-01

DAF Approved: //signed// John F. Raquet, PhD (Chairman) //signed// Mark E. Oxley, PhD (Member) //signed// Maj Marshall E. Haker , PhD (Member) 16 May...busy as you keep yourself. Dr. Mark Oxley and Dr. Marshall Haker for your sage guidance as members of my committee. Dr. Ken Fisher for making Kalman...Raquet, Dr. Marshall Haker , and Mr. Ben Downing at AFIT, following notes for Dr. Raquet’s Advanced GPS Receiver Design class. The second type was RINEX

Former WHK Intern Returns to NCI at Frederick as Earl-Stadtman Investigator | Poster

Cancer.gov

The Laboratory of Cell and Developmental Signaling (LCDS) recently welcomed John Brognard, Ph.D., as the new Earl-Stadtman Investigator. While Brognard is new to this role, he is not new to NCI at Frederick. In high school, Brognard was a Werner H. Kirsten Student Intern in what was formerly known as the ABL research program, where he worked under Bob Moschel, Ph.D., senior investigator, and Gary Pauly, Ph.D., currently a staff scientist in the Chemical Biology Laboratory.

Development of EBM-CDSS (Evidence-Based Clinical Decision Support System) to AIG Prognostication in Terminally Ill Patients

DTIC Science & Technology

2016-03-01

Mbah, PhD2*, Ambuj Kumar, MD, MPH3, Kim Sehwan, PhD4*, Ronald Schonwetter, MD5* and Benjamin Djulbegovic, MD, PhD6 1Center for Evidence - Based Medicine , University...of South Florida, Tampa, FL 2USF, Tampa, FL 3University of South Florida, College of Medicine, Center for Evidence Based Medicine , Tampa...4HPC healthcare, Tampa, FL 5HPC Healthcare, Tampa, FL 6Center for Evidence - Based Medicine & Health Outcomes Research, University of South

CPTAC Investigators Discuss Research Insights and Perspectives as part of ASBMB Journal Club - 12 Nov | Office of Cancer Clinical Proteomics Research

Cancer.gov

On Wednesday, November 12, 2014 from 2:00 PM to 3:00 PM EST, Daniel Liebler, PhD (Vanderbilt University) and Karin Rodland, PhD (Pacific Northwestern National Laboratory) and Ruedi Aebersold, PhD (Swiss Federal Institute of Technology) will share their research insight as part of the ASBMB Journal Club.  Both Doctors Liebler and Rodland are Principal Investigators in the NCI’s Clinical Proteomic Tumor Analysis Consortium.

Impact of phytoplankton community structure and function on marine particulate optical properties

NASA Astrophysics Data System (ADS)

McFarland, Malcolm Neil

Phytoplankton are an ecologically important and diverse group of organisms whose distribution, abundance, and population dynamics vary significantly over small spatial (cm) and temporal (minutes) scales in the coastal ocean. Our inability to observe phytoplankton community structure and function at these small scales has severely limited our understanding of the fundamental ecological and evolutionary mechanisms that drive phytoplankton growth, mortality, adaptation and speciation. The goal of this dissertation was to enhance our understanding of phytoplankton ecology by improving in situ observational techniques based on the optical properties of cells, colonies, populations, and communities. Field and laboratory studies were used to determine the effects of phytoplankton species composition, morphology, and physiology on the inherent optical properties of communities and to explore the adaptive significance of bio-optically important cellular characteristics. Initial field studies found a strong association between species composition and the relative magnitude and shape of particulate absorption, scattering, and attenuation coefficient spectra. Subsequent field studies using scanning flow cytometry to directly measure optically important phytoplankton and non-algal particle characteristics demonstrated that the size and pigment content of large (>20 microm) phytoplankton cells and colonies vary significantly with the slope of particulate attenuation and absorption spectra, and with the ratio of particulate scattering to absorption. These relationships enabled visualization of phytoplankton community composition and mortality over small spatial and temporal scales derived from high resolution optical measurements acquired with an autonomous profiling system. Laboratory studies with diverse uni-algal cultures showed that morphological and physiological characteristics of cells and colonies can account for ˜30% of the optical variation observed in natural communities and that complex morphologies and low intracellular pigment concentrations minimize pigment self-shading that could otherwise limit bio-optical fitness. These results demonstrate that optical properties reveal detailed information about the distribution, abundance, morphology, and physiology of phytoplankton that can help explain their ecological dynamics over small spatial scales and the bio-optical function of diverse forms in the ocean.

Davinia Salvacha Rodrguez, Ph.D. | NREL

Science.gov Websites

separations Education Ph.D., Microbiology (Biology), University Complutense de Madrid, 2008 B.S., Biology entomopathogenic fungi," Fungal Biology (2011) "Fungal pretreatment: An alternative in second-generation

Localized Delivery of shRNA against PHD2 Protects the Heart from Acute Myocardial Infarction through Ultrasound-Targeted Cationic Microbubble Destruction.

PubMed

Zhang, Li; Sun, Zhenxing; Ren, Pingping; You, Manjie; Zhang, Jing; Fang, Lingyun; Wang, Jing; Chen, Yihan; Yan, Fei; Zheng, Hairong; Xie, Mingxing

2017-01-01

Hypoxia-inducible factor 1α (HIF-1α) plays a critical protective role in ischemic heart disease. Under normoxic conditions, HIF-1α was degraded by oxygen-dependent prolyl hydroxylase-2 (PHD2). Gene therapy has become a promising strategy to inhibit the degradation of HIF-1α and to improve cardiac function after ischemic injury. However, conventional gene delivery systems are difficult to achieve a targeted and localized gene delivery into the ischemic myocardia. Here, we report the localized myocardial delivery of shRNA against PHD2 through ultrasound-targeted microbubble destruction (UTMD) for protection the heart from acute myocardial infarction. In this study, a novel cationic microbubble was fabricated by using of the thin-film hydration and sonication method. The resulting microbubbles had a 28.2 ± 2.21 mV surface zeta potential and could greatly improve DNA binding performance, achieving 17.81 ± 1.46 μg of DNA loading capacity per 5 × 10 8 microbubbles. Combined with these cationic microbubbles, UTMD-mediated gene delivery was evaluated and the gene transfection efficiency was optimized in the H9C2 cardiac cells. Knockdown of PHD2 gene was successfully realized by UTMD-mediated shPHD2 transfection, resulting in HIF-1α-dependent protective effects on H9C2 cells through increasing the expression of HIF-1α, VEGF and bFGF. We further employed UTMD-mediated shPHD2 transfection into the localized ischemic myocardia in a rat ischemia model, demonstrating significantly reduced infarct size and greatly improved the heart function. The silencing of PHD2 and the up-regulation of its downstream genes in the treated myocardia were confirmed. Histological analysis further revealed numbers of HIF-1α- and VEGF-, and CD31-positive cells/mm 2 in the shPHD2-treated group were significantly greater than those in the sham or control vector groups (P < 0.05). In conclusion, our study provides a promising strategy to realize ultrasound-mediated localized myocardial shRNA delivery to protect the heart from acute myocardial infarction via cationic microbubbles.

PhdA Catalyzes the First Step of Phenazine-1-Carboxylic Acid Degradation in Mycobacterium fortuitum.

PubMed

Costa, Kyle C; Moskatel, Leon S; Meirelles, Lucas A; Newman, Dianne K

2018-05-15

Phenazines are a class of bacterially produced redox-active metabolites that are found in natural, industrial, and clinical environments. In Pseudomonas spp., phenazine-1-carboxylic acid (PCA)-the precursor of all phenazine metabolites-facilitates nutrient acquisition, biofilm formation, and competition with other organisms. While the removal of phenazines negatively impacts these activities, little is known about the genes or enzymes responsible for phenazine degradation by other organisms. Here, we report that the first step of PCA degradation by Mycobacterium fortuitum is catalyzed by a ph enazine- d egrading decarboxylase (PhdA). PhdA is related to members of the UbiD protein family that rely on a prenylated flavin mononucleotide cofactor for activity. The gene for PhdB, the enzyme responsible for cofactor synthesis, is present in a putative operon with the gene encoding PhdA in a region of the M. fortuitum genome that is essential for PCA degradation. PhdA and PhdB are present in all known PCA-degrading organisms from the Actinobacteria M. fortuitum can also catabolize other Pseudomonas -derived phenazines such as phenazine-1-carboxamide, 1-hydroxyphenazine, and pyocyanin. On the basis of our previous work and the current characterization of PhdA, we propose that degradation converges on a common intermediate: dihydroxyphenazine. An understanding of the genes responsible for degradation will enable targeted studies of phenazine degraders in diverse environments. IMPORTANCE Bacteria from phylogenetically diverse groups secrete redox-active metabolites that provide a fitness advantage for their producers. For example, phenazines from Pseudomonas spp. benefit the producers by facilitating anoxic survival and biofilm formation and additionally inhibit competitors by serving as antimicrobials. Phenazine-producing pseudomonads act as biocontrol agents by leveraging these antibiotic properties to inhibit plant pests. Despite this importance, the fate of phenazines in the environment is poorly understood. Here, we characterize an enzyme from Mycobacterium fortuitum that catalyzes the first step of phenazine-1-carboxylic acid degradation. Knowledge of the genetic basis of phenazine degradation will facilitate the identification of environments where this activity influences the microbial community structure. Copyright © 2018 American Society for Microbiology.

Localized Delivery of shRNA against PHD2 Protects the Heart from Acute Myocardial Infarction through Ultrasound-Targeted Cationic Microbubble Destruction

PubMed Central

Zhang, Li; Sun, Zhenxing; Ren, Pingping; You, Manjie; Zhang, Jing; Fang, Lingyun; Wang, Jing; Chen, Yihan; Yan, Fei; Zheng, Hairong; Xie, Mingxing

2017-01-01

Hypoxia-inducible factor 1α (HIF-1α) plays a critical protective role in ischemic heart disease. Under normoxic conditions, HIF-1α was degraded by oxygen-dependent prolyl hydroxylase-2 (PHD2). Gene therapy has become a promising strategy to inhibit the degradation of HIF-1α and to improve cardiac function after ischemic injury. However, conventional gene delivery systems are difficult to achieve a targeted and localized gene delivery into the ischemic myocardia. Here, we report the localized myocardial delivery of shRNA against PHD2 through ultrasound-targeted microbubble destruction (UTMD) for protection the heart from acute myocardial infarction. In this study, a novel cationic microbubble was fabricated by using of the thin-film hydration and sonication method. The resulting microbubbles had a 28.2 ± 2.21 mV surface zeta potential and could greatly improve DNA binding performance, achieving 17.81 ± 1.46 μg of DNA loading capacity per 5 × 108 microbubbles. Combined with these cationic microbubbles, UTMD-mediated gene delivery was evaluated and the gene transfection efficiency was optimized in the H9C2 cardiac cells. Knockdown of PHD2 gene was successfully realized by UTMD-mediated shPHD2 transfection, resulting in HIF-1α-dependent protective effects on H9C2 cells through increasing the expression of HIF-1α, VEGF and bFGF. We further employed UTMD-mediated shPHD2 transfection into the localized ischemic myocardia in a rat ischemia model, demonstrating significantly reduced infarct size and greatly improved the heart function. The silencing of PHD2 and the up-regulation of its downstream genes in the treated myocardia were confirmed. Histological analysis further revealed numbers of HIF-1α- and VEGF-, and CD31-positive cells/mm2 in the shPHD2-treated group were significantly greater than those in the sham or control vector groups (P < 0.05). In conclusion, our study provides a promising strategy to realize ultrasound-mediated localized myocardial shRNA delivery to protect the heart from acute myocardial infarction via cationic microbubbles. PMID:28042316

Meet EPA Microbiologist Eric Villegas, Ph.D.

EPA Pesticide Factsheets

Eric Villegas, Ph.D. is a research microbiologist in EPA's Office of Research and Development. His recent work focuses on next generation sequencing technology to better understand risks associated with waterborne parasites.

Meet EPA Scientist Jody Shoemaker, Ph.D.

EPA Pesticide Factsheets

EPA research chemist Jody Shoemaker, Ph.D., works to support Agency efforts to protect drinking water. She helps develop methods for analyzing organic chemicals on the Drinking Water Contaminant Candidate List (CCL).

Jochem Weber | NREL

Science.gov Websites

mechanical engineering (design) and physical engineering (fluid and system dynamics), and a Ph.D. in modeling Ph.D. in Engineering, University College Cork (Ireland); M.S. and B.S. in Physical Engineering

Information for Adults

MedlinePlus

... Speech-Language Pathology Kathleen A. Kapp-Simon, PhD, Psychology Michael P. Karnell, PhD, Speech-Language Pathology Jeffrey ... that time. You may be interested now. Your recent concern and interest may have been sparked by ...

76 FR 25701 - Center for Scientific Review; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-05-05

... Person: David L Williams, PhD, Scientific Review Officer, Center for Scientific Review, National... Drive, Bethesda, MD 20892 (Virtual Meeting). Contact Person: Christine L. Melchior, PhD, Scientific...

77 FR 8269 - Center for Scientific Review; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2012-02-14

.... Place: Mayflower Park Hotel, 405 Olive Way, Seattle, WA 98101. Contact Person: Rebecca Henry, Ph.D... 20814. Contact Person: Melinda Jenkins, Ph.D., Scientific Review Officer, Center for Scientific Review...

Cancer Data and Statistics Tools

MedlinePlus

... Joseph Jacqueline W. Miller Mona Saraiya Judith Lee Smith Sherri L. Stewart Mary C. White Debra Younginer ... MD, MPH Simple Singh, MD, MPH Judith Lee Smith, PhD Sherri L. Stewart, PhD Eric Tai, MD, ...

Good Mental Health

MedlinePlus

... Lumley, Ph.D., Professor and Director of Clinical Psychology Training, Department of Psychology, Wayne State University, and his Stress and Health ... Jennifer J. Thomas, Ph.D., Associate Professors of Psychology, Department of Psychiatry, Harvard Medical School; Co-Directors ...

Body Image

MedlinePlus

... Lumley, Ph.D., Professor and Director of Clinical Psychology Training, Department of Psychology, Wayne State University, and his Stress and Health ... Jennifer J. Thomas, Ph.D., Associate Professors of Psychology, Department of Psychiatry, Harvard Medical School; Co-Directors ...

Meet EPA Chemist Linda Sheldon, Ph.D.

EPA Pesticide Factsheets

Environmental chemist Linda Sheldon, Ph.D, is the Associate Director for Human Heath in the National Exposure Research Laboratory. She studies environmental exposure, particularly focusing on children's environments and their contact with chemicals.

Specific Phobias

MedlinePlus

... Lumley, Ph.D., Professor and Director of Clinical Psychology Training, Department of Psychology, Wayne State University, and his Stress and Health ... Jennifer J. Thomas, Ph.D., Associate Professors of Psychology, Department of Psychiatry, Harvard Medical School; Co-Directors ...

Cosmetic Surgery

MedlinePlus

... Lumley, Ph.D., Professor and Director of Clinical Psychology Training, Department of Psychology, Wayne State University, and his Stress and Health ... Jennifer J. Thomas, Ph.D., Associate Professors of Psychology, Department of Psychiatry, Harvard Medical School; Co-Directors ...

CPT Special Report: Survey of Ph.D. Programs in Chemistry.

ERIC Educational Resources Information Center

Journal of Chemical Education, 1997

1997-01-01

Presents preliminary results from a survey taken by the American Chemical Society (ACS) Committee on Professional Training (CPT) to determine the current practices among 155 Ph.D. programs in chemistry. (DKM)

Ashley Felix, Ph.D., M.P.H.

Cancer.gov

NCI Cancer Prevention Fellowship Program (CPFP) alumna, Ashley Felix, Ph.D., M.P.H., details her transition from pre-med student to an epidemiologist who focuses on studying the causes and prevention of disease.

Meet EPA Scientist Tim Shafer, Ph.D.

EPA Pesticide Factsheets

Tim Shafer earned his bachelor’s degree in biology and chemistry from Hope College in Holland, MI, in 1986 and his Ph.D. in pharmacology and environmental toxicology from Michigan State University in 1991.

Meet EPA Chemist Quincy Teng, Ph.D.

EPA Pesticide Factsheets

EPA research chemist Quincy Teng, Ph.D., focuses on the application of metabolomics—a relatively new, specialized field of biochemistry focused on studying small molecules known as metabolites—on environmental and life sciences.

Meet EPA Scientist Jeff Szabo, Ph.D.

EPA Pesticide Factsheets

EPA scientist Jeff Szabo, Ph.D., has worked for the EPA’s National Homeland Security Research Center since 2005. He conducts and manages water security research projects at EPA’s Test and Evaluation facility.

Chymotrypsin Test

MedlinePlus

... Peter Jacky, PhD, FACMG. Director of Cytogenetics and Molecular Genetics, Airport Way Regional Laboratory, Portland, OR. Wu, A. ( ... Denise I. Quigley, PhD, FACMG. Co-Director Cytogenetics/Molecular Genetics, Airport Way Regional Laboratory, Portland, OR. Peter Jacky, ...

Trypsinogen Test

MedlinePlus

... Peter Jacky, PhD, FACMG. Director of Cytogenetics and Molecular Genetics, Airport Way Regional Laboratory, Portland, OR. (Update October ... Denise I. Quigley, PhD, FACMG. Co-Director Cytogenetics/Molecular Genetics, Airport Way Regional Laboratory, Portland, OR. Peter Jacky, ...

78 FR 11897 - National Institute of Allergy and Infectious Diseases; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2013-02-20

... Call). Contact Person: Lynn Rust, Ph.D., Scientific Review Officer, Scientific Review Program, Division...: Lynn Rust, Ph.D., Scientific Review Officer, Scientific Review Program, Division of Extramural...

Meet EPA Scientist Jordan West, Ph.D.

EPA Pesticide Factsheets

Jordan West, Ph.D. is an aquatic ecologist at EPA. Her areas of expertise include freshwater & marine ecology, climate change impacts and adaptation, resilience and threshold theory, environmental risk assessment, expert elicitation & stakeholder processes

78 FR 26376 - National Institute of Allergy and Infectious Diseases; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2013-05-06

... Person: Roberta Binder, Ph.D., Scientific Review Officer, Scientific Review Program, Division of... Person: Roberta Binder, Ph.D., Scientific Review Officer, Scientific Review Program, Division of...

Cooperative Localization for Multi-AUVs Based on GM-PHD Filters and Information Entropy Theory

PubMed Central

Zhang, Lichuan; Wang, Tonghao; Xu, Demin

2017-01-01

Cooperative localization (CL) is considered a promising method for underwater localization with respect to multiple autonomous underwater vehicles (multi-AUVs). In this paper, we proposed a CL algorithm based on information entropy theory and the probability hypothesis density (PHD) filter, aiming to enhance the global localization accuracy of the follower. In the proposed framework, the follower carries lower cost navigation systems, whereas the leaders carry better ones. Meanwhile, the leaders acquire the followers’ observations, including both measurements and clutter. Then, the PHD filters are utilized on the leaders and the results are communicated to the followers. The followers then perform weighted summation based on all received messages and obtain a final positioning result. Based on the information entropy theory and the PHD filter, the follower is able to acquire a precise knowledge of its position. PMID:28991191

Columbia's Bridge to the Ph.D. Program: A research-focused initiative facilitating the transition to graduate school

NASA Astrophysics Data System (ADS)

Agüeros, Marcel A.

2015-01-01

Columbia University's Bridge to the Ph.D. in the Natural Sciences Program aims to enhance the participation of students from underrepresented groups in Ph.D. programs. To achieve this, the Bridge Program provides an intensive research, coursework, and mentoring experience to post-baccalaureates seeking to strengthen their graduate school applications and to prepare for the transition into graduate school. To date, 20 Bridge Program alumni --- including four in astronomy --- have gone on to Ph.D. programs at Columbia, the University of Michigan, Johns Hopkins, the University of Washington, Albert Einstein, Yale, and SUNY-Albany, among others. In this talk, I will touch on some of the connections between Pre-MAP and the Bridge Program, and particularly how my involvement in the former prepared me to lead the latter.

Award for Distinguished Contributions to Education and Training in psychology.

PubMed

2017-12-01

This award is given by the Board of Educational Affairs in recognition of the efforts of psychologists who have made distinguished contributions to education and training, who have produced imaginative innovations, or who have been involved in the developmental phases of programs in education and training in psychology. These contributions might include important research on education and training; the development of effective materials for instruction; the establishment of workshops, conferences, or networks of communication for education and training; achievement and leadership in administration that facilitates education and training; or activity in professional organizations that promote excellence. The Award for Distinguished Contributions to Education and Training in psychology recognizes a specific contribution to education and training. The Career designation is added to the award at the discretion of the Education and Training Awards Committee to recognize continuous significant contributions made over a lifelong career in psychology. This year the Education and Training Awards Committee selected a psychologist for the Career designation. The 2017 recipients of the APA Education and Training Contributions Awards were selected by the 2016 Education and Training Awards Committee appointed by the Board of Educational Affairs (BEA). Members of the 2016 Education and Training Awards Committee were Erica Wise, PhD (Chair); Ron Rozensky, PhD; Jane D. Halonen, PhD; Sharon Berry, PhD (Chair Elect); Emil Rodolfa, PhD; and Sylvia A. Rosenfield, PhD. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

Award for Distinguished Contributions to Education and Training in Psychology.

PubMed

2016-11-01

This award is given by the Board of Educational Affairs in recognition of the efforts of psychologists who have made distinguished contributions to education and training, who have produced imaginative innovations, or who have been involved in the developmental phases of programs in education and training in psychology. These contributions might include important research on education and training; the development of effective materials for instruction; the establishment of workshops, conferences, or networks of communication for education and training; achievement and leadership in administration that facilitates education and training; or activity in professional organizations that promote excellence. The Award for Distinguished Contributions to Education and Training in psychology recognizes a specific contribution to education and training. The Career designation is added to the award at the discretion of the Education and Training Awards Committee to recognize continuous significant contributions made over a lifelong career in psychology. This year the Education and Training Awards Committee selected a psychologist for the Career designation. The 2016 recipients of the APA Education and Training Contributions Awards were selected by the 2015 Education and Training Awards Committee appointed by the Board of Educational Affairs (BEA). Members of the 2015 Education and Training Awards Committee were Sharon L. Berry, PhD (Chair); Arthur C. Graesser, PhD; and Thomas R. Kratochwill, PhD; Erica Wise, PhD (Chair-Elect); Ron Rozensky, PhD; and Jane Halonen, PhD. (PsycINFO Database Record (c) 2016 APA, all rights reserved).

MS PHD'S: A Synergistic Model for Diversifying the Earth Science Community

NASA Astrophysics Data System (ADS)

Ricciardi, L.; Johnson, A.; Williamson Whitney, V.; Ithier-Guzman, W.; Braxton, L.; Johnson, A.

2013-05-01

The Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S) program focuses on increasing the number of underrepresented minorities (URM) receiving advanced degrees in Earth system sciences (ESS). Subscribing to Aristotle's philosophy that the "whole is greater than the sum of its parts", MS PHD'S uses a synergistic model of tiered mentoring practices, successful minority scientist role models, peer-to-peer community building activities, professional development training techniques, networking opportunities, and state of the art virtual communication tools to facilitate the retention and advancement of underrepresented ESS scientists. Using a three-phase program structure supported by a virtual community, URM students in ESS are afforded opportunities to establish mentoring relationships with successful scientists, build meaningful ties with URM peers and future colleagues, strengthen oral and written communication skills, engage in networking opportunities within premier scientific venues, and maintain continuity of networks formed through program participation. Established in 2003, MS PHD'S is now in its ninth cohort. From the original cohort of 24 participants, the program has grown to support 213 participants. Of these 213 participants, 42 have obtained the doctorate and are employed within the ESS workforce. Another 71 are enrolled in doctoral programs. Looking to the future with the purpose of continually furthering its synergistic philosophy, MS PHD'S has developed a new initiative, Beyond the PhD, designed to support and advance the representation of URM scientists within a global workforce.

Defining a clinically meaningful effect for the design and interpretation of randomized controlled trials.

PubMed

Keefe, Richard S E; Kraemer, Helena C; Epstein, Robert S; Frank, Ellen; Haynes, Ginger; Laughren, Thomas P; McNulty, James; Reed, Shelby D; Sanchez, Juan; Leon, Andrew C

2013-05-01

This article captures the proceedings of a meeting aimed at defining clinically meaningful effects for use in randomized controlled trials for psychopharmacological agents. Experts from a variety of disciplines defined clinically meaningful effects from their perspectives along with viewpoints about how to design and interpret randomized controlled trials. The article offers relevant, practical, and sometimes anecdotal information about clinically meaningful effects and how to interpret them. The concept for this session was the work of co-chairs Richard Keefe and the late Andy Leon. Faculty included Richard Keefe, PhD; James McNulty, AbScB; Robert S. Epstein, MD, MS; Shelby D. Reed, PhD; Juan Sanchez, MD; Ginger Haynes, PhD; Andrew C. Leon, PhD; Helena Chmura Kraemer, PhD; Ellen Frank, PhD, and Kenneth L. Davis, MD. The term clinically meaningful effect is an important aspect of designing and interpreting randomized controlled trials but can be particularly difficult in the setting of psychopharmacology where effect size may be modest, particularly over the short term, because of a strong response to placebo. Payers, regulators, patients, and clinicians have different concerns about clinically meaningful effects and may describe these terms differently. The use of moderators in success rate differences may help better delineate clinically meaningful effects. There is no clear consensus on a single definition for clinically meaningful differences in randomized controlled trials, and investigators must be sensitive to specific concerns of stakeholders in psychopharmacology in order to design and execute appropriate clinical trials.

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

Fitzpatrick, Susan F.; Fábián, Zsolt; Schaible, Bettina

Hepatocyte death is an important contributing factor in a number of diseases of the liver. PHD1 confers hypoxic sensitivity upon transcription factors including the hypoxia inducible factor (HIF) and nuclear factor-kappaB (NF-κB). Reduced PHD1 activity is linked to decreased apoptosis. Here, we investigated the underlying mechanism(s) in hepatocytes. Basal NF-κB activity was elevated in PHD1{sup −/−} hepatocytes compared to wild type controls. ChIP-seq analysis confirmed enhanced binding of NF-κB to chromatin in regions proximal to the promoters of genes involved in the regulation of apoptosis. Inhibition of NF-κB (but not knock-out of HIF-1 or HIF-2) reversed the anti-apoptotic effects ofmore » pharmacologic hydroxylase inhibition. We hypothesize that PHD1 inhibition leads to altered expression of NF-κB-dependent genes resulting in reduced apoptosis. This study provides new information relating to the possible mechanism of therapeutic action of hydroxylase inhibitors that has been reported in pre-clinical models of intestinal and hepatic disease. -- Highlights: •Genetic ablation of PHD1 upregulates NF-kappaB (NF-κB) in hepatocytes. •Activation of NF-κB leads to differential DNA-binding of p50/p65 and results in differential regulation of apoptotic genes. •We identified proline 191 in the beta subunit of the I-kappaB kinase as a target for PHD1-mediated hydroxylation. •Blockade of prolyl-4-hydroxylases has been found cytoprotective in liver cells.« less

Interoperability in digital electrocardiography: harmonization of ISO/IEEE x73-PHD and SCP-ECG.

PubMed

Trigo, Jesús D; Chiarugi, Franco; Alesanco, Alvaro; Martínez-Espronceda, Miguel; Serrano, Luis; Chronaki, Catherine E; Escayola, Javier; Martínez, Ignacio; García, José

2010-11-01

The ISO/IEEE 11073 (x73) family of standards is a reference frame for medical device interoperability. A draft for an ECG device specialization (ISO/IEEE 11073-10406-d02) has already been presented to the Personal Health Device (PHD) Working Group, and the Standard Communications Protocol for Computer-Assisted ElectroCardioGraphy (SCP-ECG) Standard for short-term diagnostic ECGs (EN1064:2005+A1:2007) has recently been approved as part of the x73 family (ISO 11073-91064:2009). These factors suggest the coordinated use of these two standards in foreseeable telecardiology environments, and hence the need to harmonize them. Such harmonization is the subject of this paper. Thus, a mapping of the mandatory attributes defined in the second draft of the ISO/IEEE 11073-10406-d02 and the minimum SCP-ECG fields is presented, and various other capabilities of the SCP-ECG Standard (such as the messaging part) are also analyzed from an x73-PHD point of view. As a result, this paper addresses and analyzes the implications of some inconsistencies in the coordinated use of these two standards. Finally, a proof-of-concept implementation of the draft x73-PHD ECG device specialization is presented, along with the conversion from x73-PHD to SCP-ECG. This paper, therefore, provides recommendations for future implementations of telecardiology systems that are compliant with both x73-PHD and SCP-ECG.

Nanovector-based prolyl hydroxylase domain 2 silencing system enhances the efficiency of stem cell transplantation for infarcted myocardium repair.

PubMed

Zhu, Kai; Lai, Hao; Guo, Changfa; Li, Jun; Wang, Yulin; Wang, Lingyan; Wang, Chunsheng

2014-01-01

Mesenchymal stem cell (MSC) transplantation has attracted much attention in myocardial infarction therapy. One of the limitations is the poor survival of grafted cells in the ischemic microenvironment. Small interfering RNA-mediated prolyl hydroxylase domain protein 2 (PHD2) silencing in MSCs holds tremendous potential to enhance their survival and paracrine effect after transplantation. However, an efficient and biocompatible PHD2 silencing system for clinical application is lacking. Herein, we developed a novel PHD2 silencing system based on arginine-terminated generation 4 poly(amidoamine) (Arg-G4) nanoparticles. The system exhibited effective and biocompatible small interfering RNA delivery and PHD2 silencing in MSCs in vitro. After genetically modified MSC transplantation in myocardial infarction models, MSC survival and paracrine function of IGF-1 were enhanced significantly in vivo. As a result, we observed decreased cardiomyocyte apoptosis, scar size, and interstitial fibrosis, and increased angiogenesis in the diseased myocardium, which ultimately attenuated ventricular remodeling and improved heart function. This work demonstrated that an Arg-G4 nanovector-based PHD2 silencing system could enhance the efficiency of MSC transplantation for infarcted myocardium repair.

PHD Finger Recognition of Unmodified Histone H3R2 Links UHRF1 to Regulation of Euchromatic Gene Expression

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

E Rajakumara; Z Wang; H Ma

2011-12-31

Histone methylation occurs on both lysine and arginine residues, and its dynamic regulation plays a critical role in chromatin biology. Here we identify the UHRF1 PHD finger (PHD{sub UHRF1}), an important regulator of DNA CpG methylation, as a histone H3 unmodified arginine 2 (H3R2) recognition modality. This conclusion is based on binding studies and cocrystal structures of PHD{sub UHRF1} bound to histone H3 peptides, where the guanidinium group of unmodified R2 forms an extensive intermolecular hydrogen bond network, with methylation of H3R2, but not H3K4 or H3K9, disrupting complex formation. We have identified direct target genes of UHRF1 from microarraymore » and ChIP studies. Importantly, we show that UHRF1's ability to repress its direct target gene expression is dependent on PHD{sub UHRF1} binding to unmodified H3R2, thereby demonstrating the functional importance of this recognition event and supporting the potential for crosstalk between histone arginine methylation and UHRF1 function.« less

PHD Finger Recognition of Unmodified Histone H3R2 Links UHRF1 to Regulation of Euchromatic Gene Expression

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

Rajakumara, Eerappa; Wang, Zhentian; Ma, Honghui

2011-08-29

Histone methylation occurs on both lysine and arginine residues, and its dynamic regulation plays a critical role in chromatin biology. Here we identify the UHRF1 PHD finger (PHD{sub UHRF1}), an important regulator of DNA CpG methylation, as a histone H3 unmodified arginine 2 (H3R2) recognition modality. This conclusion is based on binding studies and cocrystal structures of PHD{sub UHRF1} bound to histone H3 peptides, where the guanidinium group of unmodified R2 forms an extensive intermolecular hydrogen bond network, with methylation of H3R2, but not H3K4 or H3K9, disrupting complex formation. We have identified direct target genes of UHRF1 from microarraymore » and ChIP studies. Importantly, we show that UHRF1's ability to repress its direct target gene expression is dependent on PHD{sub UHRF1} binding to unmodified H3R2, thereby demonstrating the functional importance of this recognition event and supporting the potential for crosstalk between histone arginine methylation and UHRF1 function.« less

Eco-Driven Chemical Research in the Boundary Between Academia and Industry. PhD Students' Views on Science and Society

NASA Astrophysics Data System (ADS)

Sjöström, Jesper

2013-10-01

This paper examines and discusses the views on science and society held among PhD students working in two different industrially and environmentally driven research programmes in the broad area of green chemistry. It is based on thirteen in-depth interviews. The analysis shows three main ways of handling the situation as "post-academic" PhD student: (1) the student sees the PhD work mainly as a job and does not reflect about his/her research or the research funding, (2) the student is satisfied with the post-academic situation, accepts the established innovation policy discourse and is sceptical to traditional academic research, and (3) the student sees collaborative research programmes as a way to get funding, which can be used for secretly done basic research. Most PhD students either emphasise usefulness—in line with the dominating research policy discourse—or they adopt the positivistic view of science as objective and independent of the surrounding society. However, there are only a few signs of "double problematisation", that is a critical view where both disciplinary-oriented and industry-dependent research are problematised.

Economic Analysis of Earning a PhD Degree After Completion of a PharmD Degree

PubMed Central

Murawski, Matthew M.

2011-01-01

Objective To determine the net present value (NPV) and internal rate of return (IRR) for earning a doctor of philosophy (PhD) degree and pursuing careers commonly associated with that degree after completion of a doctor of pharmacy (PharmD) degree compared to entering pharmacy practice directly upon completion of the PharmD degree. Methods Income profiles were constructed based on 2008 annual salary data. NPV and IRR were calculated for careers resulting from the PhD degree and compared to those of the practicing community pharmacist. Trends in IRR also were examined across career paths from 1982 to 2008. A priori assumptions were developed and sensitivity analyses were conducted. Results The NPVs for all careers associated with the PhD degree were negative compared to that of the practicing community pharmacist. IRRs ranged from -1.4% to 1.3% for PhD careers. Longitudinal examination of IRRs indicated a negative trend from 1982 to 2008. Conclusions Economic financial incentives for PharmD graduates to pursue graduate school are lacking. The study illustrates the need to consider financial incentives when developing recruitment methods for PharmD graduates to pharmacy graduate programs. PMID:21451769

Structural insight into the TFIIE–TFIIH interaction: TFIIE and p53 share the binding region on TFIIH

PubMed Central

Okuda, Masahiko; Tanaka, Aki; Satoh, Manami; Mizuta, Shoko; Takazawa, Manabu; Ohkuma, Yoshiaki; Nishimura, Yoshifumi

2008-01-01

RNA polymerase II and general transcription factors (GTFs) assemble on a promoter to form a transcription preinitiation complex (PIC). Among the GTFs, TFIIE recruits TFIIH to complete the PIC formation and regulates enzymatic activities of TFIIH. However, the mode of binding between TFIIE and TFIIH is poorly understood. Here, we demonstrate the specific binding of the C-terminal acidic domain (AC-D) of the human TFIIEα subunit to the pleckstrin homology domain (PH-D) of the human TFIIH p62 subunit and describe the solution structures of the free and PH-D-bound forms of AC-D. Although the flexible N-terminal acidic tail from AC-D wraps around PH-D, the core domain of AC-D also interacts with PH-D. AC-D employs an entirely novel binding mode, which differs from the amphipathic helix method used by many transcriptional activators. So the binding surface between PH-D and AC-D is much broader than the specific binding surface between PH-D and the p53 acidic fragments. From our in vitro studies, we demonstrate that this interaction could be a switch to replace p53 with TFIIE on TFIIH in transcription. PMID:18354501

The Nordic Countries Meeting on the Zebrafish as a Model for Development and Disease 2012

PubMed Central

Zetterberg, Henrik

2013-01-01

Abstract The first Nordic Countries Meeting on the Zebrafish as a Model for Development and Disease took place at Karolinska Institutet in Stockholm, November 21–23, 2012. The meeting gathered 130 scientists, students, and company representatives from Iceland, Finland, Norway, Denmark, and Sweden, as well as invited guests and keynote speakers from England, Scotland, Germany, Poland, The Netherlands, Singapore, Japan, and the United States. Presentations covered a wide range of topics, including developmental biology, genetics, evolutionary biology, toxicology, behavioral studies, and disease mechanisms. The need for formal guidance and training in zebrafish housing, husbandry, and health monitoring was recognized, and the meeting expressed its support for the joint working group of the FELASA/COST action BM0804 EuFishBioMed. The decision was made to turn the Nordic meeting into an annual event and create a Nordic network of zebrafish researchers. PMID:23590403

The Nordic countries meeting on the zebrafish as a model for development and disease 2012.

PubMed

Andersson Lendahl, Monika; Zetterberg, Henrik

2013-03-01

The first Nordic Countries Meeting on the Zebrafish as a Model for Development and Disease took place at Karolinska Institutet in Stockholm, November 21-23, 2012. The meeting gathered 130 scientists, students, and company representatives from Iceland, Finland, Norway, Denmark, and Sweden, as well as invited guests and keynote speakers from England, Scotland, Germany, Poland, The Netherlands, Singapore, Japan, and the United States. Presentations covered a wide range of topics, including developmental biology, genetics, evolutionary biology, toxicology, behavioral studies, and disease mechanisms. The need for formal guidance and training in zebrafish housing, husbandry, and health monitoring was recognized, and the meeting expressed its support for the joint working group of the FELASA/COST action BM0804 EuFishBioMed. The decision was made to turn the Nordic meeting into an annual event and create a Nordic network of zebrafish researchers.

Hierarchical organization of butterfly gyroid nanostructures provide a time-frozen glimpse of intracellular membrane development

NASA Astrophysics Data System (ADS)

Wilts, Bodo; Winter, Benjamin; Klatt, Michael; Butz, Benjamin; Fischer, Michael; Kelly, Stephen; Spieker, Erdmann; Steiner, Ullrich; Schroeder-Turk, Gerd

The formation of the biophotonic gyroid material in butterfly wing scales is an exceptional feat of evolutionary engineering of functional nanostructures. Previous work hypothesized that this nanostructure forms by chitin polymerization inside a convoluted membrane of corresponding shape in the endoplasmic reticulum. In vivo imaging however cannot yet elucidate this dynamic formation process, including whether membrane folding and chitin expression are simultaneous or subsequent processes. Here we show an unusual hierarchical ultrastructure in a Hairstreak butterfly that allows high-resolution 3D microscopy. Rather than the conventional polycrystalline space-filling arrangement, the gyroid occurs in isolated facetted crystallites with a pronounced size-gradient. This arrangement is interpreted as a sequence of time-frozen snapshots of the morphogenesis. This provides insight into the formation mechanisms of the nanoporous gyroid material, especially when compared among other butterflies with different arrangements. Financially supported through DFG, the NCCR Bio-inspired Mateirals and the SNF Ambizione programme.

Freshwater Biodiversity and Insect Diversification

PubMed Central

Dijkstra, Klaas-Douwe B.; Monaghan, Michael T.; Pauls, Steffen U.

2016-01-01

Inland waters cover less than one percent of Earth’s surface, but harbor more than six percent of all insect species: nearly 100,000 species from 12 orders spend one or more life stages in freshwater. Little is known about how this remarkable diversity arose, although allopatric speciation and ecological adaptation are thought to be primary mechanisms. Freshwater habitats are exceptionally susceptible to environmental change, and exhibit marked ecological gradients. The amphibiotic lifestyles of aquatic insects result in complex contributions of extinction and allopatric and non-allopatric speciation in species diversification. In contrast to the lack of evolutionary studies, the ecology and habitat preferences of aquatic insects have been intensively studied, in part because of their widespread use as bio-indicators. The combination of phylogenetics with the extensive ecological data provides a promising avenue for future research, making aquatic insects highly suitable models for the study of ecological diversification. PMID:24160433

RepeatsDB-lite: a web server for unit annotation of tandem repeat proteins.

PubMed

Hirsh, Layla; Paladin, Lisanna; Piovesan, Damiano; Tosatto, Silvio C E

2018-05-09

RepeatsDB-lite (http://protein.bio.unipd.it/repeatsdb-lite) is a web server for the prediction of repetitive structural elements and units in tandem repeat (TR) proteins. TRs are a widespread but poorly annotated class of non-globular proteins carrying heterogeneous functions. RepeatsDB-lite extends the prediction to all TR types and strongly improves the performance both in terms of computational time and accuracy over previous methods, with precision above 95% for solenoid structures. The algorithm exploits an improved TR unit library derived from the RepeatsDB database to perform an iterative structural search and assignment. The web interface provides tools for analyzing the evolutionary relationships between units and manually refine the prediction by changing unit positions and protein classification. An all-against-all structure-based sequence similarity matrix is calculated and visualized in real-time for every user edit. Reviewed predictions can be submitted to RepeatsDB for review and inclusion.

A tale of three bio-inspired computational approaches

NASA Astrophysics Data System (ADS)

Schaffer, J. David

2014-05-01

I will provide a high level walk-through for three computational approaches derived from Nature. First, evolutionary computation implements what we may call the "mother of all adaptive processes." Some variants on the basic algorithms will be sketched and some lessons I have gleaned from three decades of working with EC will be covered. Then neural networks, computational approaches that have long been studied as possible ways to make "thinking machines", an old dream of man's, and based upon the only known existing example of intelligence. Then, a little overview of attempts to combine these two approaches that some hope will allow us to evolve machines we could never hand-craft. Finally, I will touch on artificial immune systems, Nature's highly sophisticated defense mechanism, that has emerged in two major stages, the innate and the adaptive immune systems. This technology is finding applications in the cyber security world.

76 FR 6405 - Marine Mammals; File No. 15654

Federal Register 2010, 2011, 2012, 2013, 2014

2011-02-04

... Church, PhD, Professor of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115...-02 issued to John Wise, PhD) and maintained at Harvard University for the proposed study. Cell lines...

75 FR 31788 - Appointments to the Medicare Payment Advisory Commission (MedPAC)

Federal Register 2010, 2011, 2012, 2013, 2014

2010-06-04

..., Group Health Cooperative; Katherine Baicker, PhD, Professor of Health Economics, Department of Health Policy and Management, Harvard School of Public Health; Mary Naylor, PhD, RN, FAAN, Professor of...

UK to train 100 PhD students in data science

NASA Astrophysics Data System (ADS)

Allen, Michael

2017-12-01

A new PhD programme to develop techniques to handle the vast amounts of data being generated by experiments and facilities has been launched by the UK's Science and Technology Facilities Council (STFC).

Panic Disorder and Women

MedlinePlus

... Lumley, Ph.D., Professor and Director of Clinical Psychology Training, Department of Psychology, Wayne State University, and his Stress and Health ... Jennifer J. Thomas, Ph.D., Associate Professors of Psychology, Department of Psychiatry, Harvard Medical School; Co-Directors ...

Meet EPA Environmental Engineer Terra Haxton, Ph.D.

EPA Pesticide Factsheets

EPA Environmental Engineer Terra Haxton, Ph.D., uses computer simulation models to protect drinking water. She investigates approaches to help water utilities be better prepared to respond to contamination incidents in their distribution systems.

Meet EPA Scientist Heriberto Cabezas, Ph.D.

EPA Pesticide Factsheets

Heriberto Cabezas, Ph.D. is currently the Senior Science Advisor to the Sustainable Technology Division in EPA's National Risk Management Research Lab, where he works to advance the application of science and technologies to address sustainability.

Meet EPA Scientist Michael Nye, Ph.D.

EPA Pesticide Factsheets

Michael Nye, Ph.D., is a social scientist who studies natural risk, socio-demographic change and sustainable behavior. Prior to joining EPA, he worked for the UK Environment Agency in flood risk management and emergency preparedness

Meet EPA Scientist Blake Schaeffer, Ph.D.

EPA Pesticide Factsheets

EPA research ecologist Blake Schaeffer, Ph.D. focuses on ways to use satellite remote sensing technology to monitor water quality. His research interests broadly include deriving water quality parameters in coasts, estuaries, and lakes using satellites

Brenda K. Edwards, PhD | DCCPS/NCI/NIH

Cancer.gov

Brenda K. Edwards, PhD, has been with the Surveillance Research Program (SRP) and its predecessor organizations at the National Cancer Institute (NCI) since 1989, serving as SRP’s Associate Director from 1990-2011.

76 FR 22113 - Center for Scientific Review; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-04-20

...: Cathleen L Cooper, PhD, Scientific Review Officer, Center for Scientific Review, National Institutes of... Alexandria Old Town, 1767 King Street, Alexandria, VA 22314. Contact Person: Cathleen L Cooper, PhD...

75 FR 59276 - National Institute of Allergy and Infectious Diseases; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2010-09-27

... Conference Call). Contact Person: Lynn Rust, PhD, Scientific Review Officer, Scientific Review Program... Person: Lynn Rust, PhD, Scientific Review Officer, Scientific Review Program, Division of Extramural...

77 FR 72364 - National Institute of Allergy and Infectious Diseases; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2012-12-05

... Conference Call). Contact Person: Lynn Rust, Ph.D., Scientific Review Officer, Scientific Review Program... Call). Contact Person: Lynn Rust, Ph.D., Scientific Review Officer, Scientific Review Program, Division...

75 FR 55738 - Marine Mammals; File No. 15654

Federal Register 2010, 2011, 2012, 2013, 2014

2010-09-14

... George Church, Ph.D. (Applicant), Professor of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur... (Permit No. 1008-1637-02 issued to John Wise, Ph.D.) and maintained at Harvard University for the proposed...

76 FR 52670 - National Institute of Allergy and Infectious Diseases; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-08-23

...) Contact Person: Frank S. De Silva, PhD, Scientific Review Officer, Scientific Review Program, Division of.... De Silva, PhD, Scientific Review Officer, Scientific Review Program, Division of Extramural...

Epigenetic Mediation of Endocrine and Immune Response in an Animal Model of Gulf War Illness

DTIC Science & Technology

2016-10-01

Illness 5b. GRANT NUMBER W81XWH-14-1-0550 5c. PROGRAM ELEMENT NUMBER Patrick O. McGowan, PhD, Gordon Broderick , PhD, James O’Callaghan, PhD...Nova Southeastern) as part of IAME/CFS meeting, hosted by Nova, to meet with Drs. Broderick (Co-PI) Oct 27- 2016. Co-PI and PI arranged to meet with...project. Direct supervision of molecular biology studies related to epigenetics data. Funding Support: Name: Gordon Broderick , PhD Project Role: Co

Precision radiotherapy for cancer of the pancreas: technique and results. [Photons and electrons

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

Dobelbower, R.R. Jr.; Borgelt, B.B.; Strubler, K.A.

1980-09-01

Forty patients with locally extensive, unresectable adenocarcinoma of the pancreas received precision high dose (PHD) radiation therapy with a 45 MeV betatron. PHD radiotherapy was generally well tolerated. During treatment, only 7 patients experienced significant nausea, vomiting, diarrhea or anorexia. Late gastrointestinal radiation reactions were observed in 7 patients. Twelve patients received adjuvant chemotherapy. The projected survival of patients with unresectable pancreatic cancer treated with PHD radiotherapy is comparable to that of patients with resectable disease operated on for cure. The projected one year survival rate is 49%.

The Subchronic Inhalation Toxicity of DF2 (Diesel Fuel) Used in Vehicle Engine Exhaust Smoke Systems (VEESS).

DTIC Science & Technology

1986-03-01

4-I +4 .- -+ + _C tL+ + + +i + T + +- + - -) 4. c_ --- - * - 4A _ __ _ -- 0 0 ICx" C ) 4j cliou 0 N4cr(\\lc’ + + ++ ++ + + +1 -4++111+ = 0 m x...Charles L. Crouse SP6 David C . Burnett Garnet E. Affleck Dale H. Heitkamp Edmund G. Cummings, Ph.D. Carlyle Lilly Richard L. Farrand, Ph.D. Joseph J...Feeney, Ph.D. Robert W. Dorsey Michael Rausa SP6 Mohammed S. Ghumman Ernest H. Kandel Robert D. Armstrong Jeffrey D. Bergmann William C . Stark. John

Genomic Data Commons and Genomic Cloud Pilots - Google Hangout

Cancer.gov

Join us for a live, moderated discussion about two NCI efforts to expand access to cancer genomics data: the Genomic Data Commons and Genomic Cloud Pilots. NCI subject matters experts will include Louis M. Staudt, M.D., Ph.D., Director Center for Cancer Genomics, Warren Kibbe, Ph.D., Director, NCI Center for Biomedical Informatics and Information Technology, and moderated by Anthony Kerlavage, Ph.D., Chief, Cancer Informatics Branch, Center for Biomedical Informatics and Information Technology. We welcome your questions before and during the Hangout on Twitter using the hashtag #AskNCI.

Summary of the 2016 Partners Against Mortality in Epilepsy (PAME) Conference.

PubMed

2016-01-01

Authors: Kevin D Graber, MD, Jeffrey Buchhalter, MD, PhD, Elson So, MD, Rainer Surges, MD, Detlev Boison, PhD, Franck Kalume, PhD, Cyndi Wright, Brian Gehlbach, MD, Jeff Noebels, MD, PhD, Vicky Whittemore, PhD, Elizabeth J. Donner, MD, MSc, Tom Stanton, MPP, Henry Smithson, MD, Jane Hanna, Masud Seyal, MD, PhD, Philippe Ryvlin, MD, PhD The third biannual Partners Against Mortality in Epilepsy (PAME) conference was held in Alexandria, VA from June 23-26, 2016. This was an intimate meeting of clinical and basic scientists, clinicians, people affected by Sudden Unexpected Death in Epilepsy Patients (SUDEP) in a loved one, people living with epilepsy and patient advocate organizations. Plenary sessions have been summarized by moderators, including: 1) Mortality in people with epilepsy: epidemiology and surveillance. 2) Mortality in children. 3) What do we know about the factors that predispose certain people to die from a seizure? 4) What are the events that occur during and after a seizure that cause a death in SUDEP? 5) What are the options for prevention now and in the future? 6) Advocacy perspectives: how can we speed up awareness and prevention? 7) Updates and discussion on select programs in mortality research. Breakout sessions allowed for a more focused audience. Those summarized here are: Frequent non-SUDEP causes of mortality in people with epilepsy; Mechanisms of SUDEP; Lessons learned in grief and how to better support families; Future directions for research to impact prevention; and How do we improve SUDEP risk disclosure? While significant progress has been made with review of human mortality in epilepsy and study of animal models, this meeting emphasized the need for: better understandings of the epidemiology of SUDEP, advances in the understandings of mechanisms, continued search for biomarkers and preventative measures, patient education, increased awareness, continued advocacy for patient and family support and research funding.

An improved genome assembly uncovers prolific tandem repeats in Atlantic cod.

PubMed

Tørresen, Ole K; Star, Bastiaan; Jentoft, Sissel; Reinar, William B; Grove, Harald; Miller, Jason R; Walenz, Brian P; Knight, James; Ekholm, Jenny M; Peluso, Paul; Edvardsen, Rolf B; Tooming-Klunderud, Ave; Skage, Morten; Lien, Sigbjørn; Jakobsen, Kjetill S; Nederbragt, Alexander J

2017-01-18

The first Atlantic cod (Gadus morhua) genome assembly published in 2011 was one of the early genome assemblies exclusively based on high-throughput 454 pyrosequencing. Since then, rapid advances in sequencing technologies have led to a multitude of assemblies generated for complex genomes, although many of these are of a fragmented nature with a significant fraction of bases in gaps. The development of long-read sequencing and improved software now enable the generation of more contiguous genome assemblies. By combining data from Illumina, 454 and the longer PacBio sequencing technologies, as well as integrating the results of multiple assembly programs, we have created a substantially improved version of the Atlantic cod genome assembly. The sequence contiguity of this assembly is increased fifty-fold and the proportion of gap-bases has been reduced fifteen-fold. Compared to other vertebrates, the assembly contains an unusual high density of tandem repeats (TRs). Indeed, retrospective analyses reveal that gaps in the first genome assembly were largely associated with these TRs. We show that 21% of the TRs across the assembly, 19% in the promoter regions and 12% in the coding sequences are heterozygous in the sequenced individual. The inclusion of PacBio reads combined with the use of multiple assembly programs drastically improved the Atlantic cod genome assembly by successfully resolving long TRs. The high frequency of heterozygous TRs within or in the vicinity of genes in the genome indicate a considerable standing genomic variation in Atlantic cod populations, which is likely of evolutionary importance.

TRPC6 mutational analysis in a large cohort of patients with focal segmental glomerulosclerosis.

PubMed

Santín, Sheila; Ars, Elisabet; Rossetti, Sandro; Salido, Eduardo; Silva, Irene; García-Maset, Rafael; Giménez, Isabel; Ruíz, Patricia; Mendizábal, Santiago; Luciano Nieto, José; Peña, Antonia; Camacho, Juan Antonio; Fraga, Gloria; Cobo, M Angeles; Bernis, Carmen; Ortiz, Alberto; de Pablos, Augusto Luque; Sánchez-Moreno, Ana; Pintos, Guillem; Mirapeix, Eduard; Fernández-Llama, Patricia; Ballarín, José; Torra, Roser; Zamora, Isabel; López-Hellin, Joan; Madrid, Alvaro; Ventura, Clara; Vilalta, Ramón; Espinosa, Laura; García, Carmen; Melgosa, Marta; Navarro, Mercedes; Giménez, Antonio; Cots, Jorge Vila; Alexandra, Simona; Caramelo, Carlos; Egido, Jesús; San José, M Dolores Morales; de la Cerda, Francisco; Sala, Pere; Raspall, Frederic; Vila, Angel; Daza, Antonio María; Vázquez, Mercedes; Ecija, José Luis; Espinosa, Mario; Justa, Ma Luisa; Poveda, Rafael; Aparicio, Cristina; Rosell, Jordi; Muley, Rafael; Montenegro, Jesús; González, Domingo; Hidalgo, Emilia; de Frutos, David Barajas; Trillo, Esther; Gracia, Salvador; de los Ríos, Francisco Javier Gainza

2009-10-01

Mutations in the TRPC6 gene have been reported in six families with adult-onset (17-57 years) autosomal dominant focal segmental glomerulosclerosis (FSGS). Electrophysiology studies confirmed augmented calcium influx only in three of these six TRPC6 mutations. To date, the role of TRPC6 in childhood and adulthood non-familial forms is unknown. TRPC6 mutation analysis was performed by direct sequencing in 130 Spanish patients from 115 unrelated families with FSGS. An in silico scoring matrix was developed to evaluate the pathogenicity of amino acid substitutions, by using the bio-physical and bio-chemical differences between wild-type and mutant amino acid, the evolutionary conservation of the amino acid residue in orthologues, homologues and defined domains, with the addition of contextual information. Three new missense substitutions were identified in two clinically non-familial cases and in one familial case. The analysis by means of this scoring system allowed us to classify these variants as likely pathogenic mutations. One of them was detected in a female patient with unusual clinical features: mesangial proliferative FSGS in childhood (7 years) and partial response to immunosupressive therapy (CsA + MMF). Asymptomatic carriers of this likely mutation were found within her family. We describe for the first time TRPC6 mutations in children and adults with non-familial FSGS. It seems that TRPC6 is a gene with a very variable penetrance that may contribute to glomerular diseases in a multi-hit setting.

Meet EPA Scientist Dermont Bouchard, Ph.D.

EPA Pesticide Factsheets

EPA Scientist Dermont Bouchard, Ph.D., is working to better understand how tiny nanomaterials might be released into the environment. His research helps regulators and other decision-makers lower risks and better protect human health and the environment

Meet EPA Biologist Laura Jackson, Ph.D.

EPA Pesticide Factsheets

Research Biologist Laura Jackson, Ph.D., has worked for the EPA for 22 years, leading research initiatives in a diversity of disciplines, including environmental monitoring, land use planning, and the impacts that urbanization has on an area's ecology

Meet EPA Engineer Shawn Ryan, Ph.D.

EPA Pesticide Factsheets

Shawn Ryan, Ph.D. is a chemical engineer at EPA's National Homeland Security Research Center. He has worked at EPA for 12 years, nine of which have been devoted to leading research to support decontamination and consequence management.

Meet EPA Scientist Susan Yee, Ph.D.

EPA Pesticide Factsheets

Susan Yee, Ph.D., is an ecologist at EPA's Gulf Ecology Division. She is working on the Puerto Rico Sustainable Communities program, developing decision support tools to evaluate how alternative decisions impact coastal ecosystem goods and services

A New Venture in Graduate Education: Co-Op Ph.D. Programme in Chemical Engineering.

ERIC Educational Resources Information Center

Fahidy, Thomas Z.

1980-01-01

Describes a cooperative Ph.D. program at the University of Waterloo, Ontario, Canada, in which industrial and governmental employers participate with the Department of Chemical Engineering in training chemical engineers. (CS)

76 FR 62423 - National Institute on Deafness and Other Communication Disorders; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-10-07

...., Rockville, MD 20852, (Telephone Conference Call). Contact Person: Melissa Stick, PhD, MPH, Chief, Scientific...., Rockville, MD 20852, (Telephone Conference Call). Contact Person: Melissa Stick, PhD, MPH, Chief, Scientific...

Coastal Imaging Spectroscopy

DTIC Science & Technology

2006-09-30

Year, Semi-Finalist, Florida Environmental Research Institute, W. Paul Bissett, Ph.D., Executive Director, Greater Tampa Chamber of Commerce . 2004...Small Business of the Year, -Finalist, Florida Environmental Research Institute, W. Paul Bissett, Ph.D., Executive Director, Greater Tampa Chamber of Commerce .

Meet EPA Biologist Mitch Kostich, Ph.D.

EPA Pesticide Factsheets

EPA biologist, Mitch Kostich, Ph.D., conducts research to identify risks from exposures to chemical contaminants in water. His research uses technologies to prioritize contaminants in the environment based on the potential risks they pose to life

77 FR 70791 - National Institute of Diabetes and Digestive and Kidney Diseases Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2012-11-27

..., (Telephone Conference Call). Contact Person: Carol J. Goter-Robinson, Ph.D., Scientific Review Officer... 20037. Contact Person: Carol J. Goter-Robinson, Ph.D., Scientific Review Officer, Review Branch, DEA...

Meet EPA Natural Resource Economist Marisa Mazzotta, Ph.D.

EPA Pesticide Factsheets

Marisa Mazzotta, Ph.D. currently works as an Economist at EPA's Atlantic Ecology Division. Her research focuses on the public's valuation and prioritization of natural resources, and the relationship between ecological changes and economic benefits.

The Training and Work of Ph.D. Physical Scientists

NASA Astrophysics Data System (ADS)

Smith, S. J.; Schweitzer, A. E.

2003-05-01

Doctoral education has often been viewed as the pinnacle of the formal education system. How useful is doctoral training in one's later career? In an NSF-funded project, we set out to perform a study of the training, careers, and work activities of Ph.D. physical scientists. The study included both in-depth interviews and a survey sent out to a sample of Ph.D. holders 4-8 years after graduation. Come and find out the results of this study: What skills are most Ph.D. physical scientists using? What should graduate programs be teaching? Are Ph.D.'s who are working in their specific field of training happier than their counterparts working different jobs? What skills and preparation lead to future job satisfaction, perhaps the most important indicator of the "success" of graduate education? A preprint and further details can be found at the project web site at: spot.colorado.edu/ phdcarer.

Experiences of well-being among female doctoral students in Sweden.

PubMed

Schmidt, Manuela; Umans, Timurs

2014-01-01

The aim of this study was to explore how female PhD students experience and perceive their well-being. Focus groups were conducted with female PhD students employed at a Swedish university. The study was performed using a phenomenological hermeneutic approach based on the concept of the lifeworld, used as both a philosophical perspective and a methodology. Three main themes emerged from the analysis: being true to oneself, being in the sphere of influence, and performing a balancing act. By unfolding these themes, the study shows that perceptions and experiences of well-being in female PhD students are a multifaceted phenomenon and materialize through interaction of different aspects of "self" (agent) and "others" (structure). As well as illustrating these perceptions and experiences, the study also presents female PhD students' conceptualization of their well-being, expressed in terms of a white-water rafting metaphor.

PER PhDs & bachelor's degrees

NASA Astrophysics Data System (ADS)

White, Susan C.

2017-02-01

Recently, the editor remarked to me that physics departments that offered a PhD with a specialization in Physics Education Research (PER) seemed to graduate more bachelor's degree recipients than those physics PhD departments that did not have the specialization. I was not convinced. That led to quite a bit of discussion between us. He compiled a list of PhD departments that advertised a PhD specialization in PER in the 2004, 2005, 2009, and 2010 editions of GradSchoolShopper, a publication of the American Institute of Physics. Since not every department responded reliably every year, I combined the 2004 and 2005 data and the 2009 and 2010 data. I then compared the departments that advertised a PER specialization during both timeframes (2004 and/or 2005 and 2009 and/or 2010) with physics PhD-granting departments that did not indicate the specialization at all.

Experiences of well-being among female doctoral students in Sweden

PubMed Central

Schmidt, Manuela; Umans, Timurs

2014-01-01

The aim of this study was to explore how female PhD students experience and perceive their well-being. Focus groups were conducted with female PhD students employed at a Swedish university. The study was performed using a phenomenological hermeneutic approach based on the concept of the lifeworld, used as both a philosophical perspective and a methodology. Three main themes emerged from the analysis: being true to oneself, being in the sphere of influence, and performing a balancing act. By unfolding these themes, the study shows that perceptions and experiences of well-being in female PhD students are a multifaceted phenomenon and materialize through interaction of different aspects of “self” (agent) and “others” (structure). As well as illustrating these perceptions and experiences, the study also presents female PhD students’ conceptualization of their well-being, expressed in terms of a white-water rafting metaphor. PMID:24746246

An analysis of Ph.D. examiners' reports in engineering

NASA Astrophysics Data System (ADS)

Prieto, Elena; Holbrook, Allyson; Bourke, Sid

2016-03-01

In recent years, there have been increasing calls for an overall transformation of the nature of engineering Ph.D. programs and the way theses are assessed. There exists a need to understand the examination process to ensure the best quality outcome for candidates in engineering. The work we present in this paper uses data collected between 2003 and 2010 for a total of 1220 Australian Ph.D. theses by analysing examiner reports. Our analysis indicates that Ph.D. theses in engineering, N = 106, differ considerably from those in other fields in areas such as gender of candidates and examiners and the examiners' geographical location. We also found that assessment areas such as significance and contribution of the thesis, publications arising from the thesis, breadth, depth and recency of the literature review and communication and editorial correctness are areas in which the proportion of text of engineering examiners' comments differs significantly from other fields.

Location of Promoter and Operator Sites in the Biotin Gene Cluster of Escherichia coli

PubMed Central

Cleary, Paul P.; Campbell, Allan; Chang, Robin

1972-01-01

Biotin independence in E. coli requires five closely linked genes, bioA, bioB, bioF, bioC, and bioD. The residual gene activity of deletion mutants has been studied by complementation and enzyme assays. Deletion of the left end of the bioA gene does not impair expression of the remaining genes, but deletions from the left extending into bioB abolish all gene expression. Nonsense mutations in bioB reduce expression of bioC, bioF, and bioD. Therefore, the four genes, bioB, bioF, bioC, and bioD, are transcribed as a unit from left to right, from a promotor located between bioA and bioB. Expression of the bio genes is repressible by added biotin. Deletions removing the left end of bioA do not affect repressibility of bioD. Therefore the operator, as well as the promoter, lie to the right of bioA. One deletion that removes bioA, bioB, and bioF renders the bioD gene constitutive, presumably by fusion to an unknown operon. Therefore, the operator lies to the left of bioC. PMID:4559599

Opportunities and challenges in the use of personal health data for health research

PubMed Central

Bietz, Matthew J; Bloss, Cinnamon S; Calvert, Scout; Godino, Job G; Gregory, Judith; Claffey, Michael P; Sheehan, Jerry

2016-01-01

Objective: Understand barriers to the use of personal health data (PHD) in research from the perspective of three stakeholder groups: early adopter individuals who track data about their health, researchers who may use PHD as part of their research, and companies that market self-tracking devices, apps or services, and aggregate and manage the data that are generated. Materials and Methods: A targeted convenience sample of 465 individuals and 134 researchers completed an extensive online survey. Thirty-five hour-long semi-structured qualitative interviews were conducted with a subset of 11 individuals and 9 researchers, as well as 15 company/key informants. Results: Challenges to the use of PHD for research were identified in six areas: data ownership; data access for research; privacy; informed consent and ethics; research methods and data quality; and the unpredictable nature of the rapidly evolving ecosystem of devices, apps, and other services that leave “digital footprints.” Individuals reported willingness to anonymously share PHD if it would be used to advance research for the good of the public. Researchers were enthusiastic about using PHD for research, but noted barriers related to intellectual property, licensing, and the need for legal agreements with companies. Companies were interested in research but stressed that their first priority was maintaining customer relationships. Conclusion: Although challenges exist in leveraging PHD for research, there are many opportunities for stakeholder engagement, and experimentation with these data is already taking place. These early examples foreshadow a much larger set of activities with the potential to positively transform how health research is conducted. PMID:26335984

Defining a Clinically Meaningful Effect for the Design and Interpretation of Randomized Controlled Trials

PubMed Central

Kraemer, Helena C.; Epstein, Robert S.; Frank, Ellen; Haynes, Ginger; Laughren, Thomas P.; Mcnulty, James; Reed, Shelby D.; Sanchez, Juan; Leon, Andrew C.

2013-01-01

Objective: This article captures the proceedings of a meeting aimed at defining clinically meaningful effects for use in randomized controlled trials for psychopharmacological agents. Design: Experts from a variety of disciplines defined clinically meaningful effects from their perspectives along with viewpoints about how to design and interpret randomized controlled trials. Setting: The article offers relevant, practical, and sometimes anecdotal information about clinically meaningful effects and how to interpret them. Participants: The concept for this session was the work of co-chairs Richard Keefe and the late Andy Leon. Faculty included Richard Keefe, PhD; James McNulty, AbScB; Robert S. Epstein, MD, MS; Shelby D. Reed, PhD; Juan Sanchez, MD; Ginger Haynes, PhD; Andrew C. Leon, PhD; Helena Chmura Kraemer, PhD; Ellen Frank, PhD, and Kenneth L. Davis, MD. Results: The term clinically meaningful effect is an important aspect of designing and interpreting randomized controlled trials but can be particularly difficult in the setting of psychopharmacology where effect size may be modest, particularly over the short term, because of a strong response to placebo. Payers, regulators, patients, and clinicians have different concerns about clinically meaningful effects and may describe these terms differently. The use of moderators in success rate differences may help better delineate clinically meaningful effects. Conclusion: There is no clear consensus on a single definition for clinically meaningful differences in randomized controlled trials, and investigators must be sensitive to specific concerns of stakeholders in psychopharmacology in order to design and execute appropriate clinical trials. PMID:23882433

Paulette Gray, Ph.D.

Cancer.gov

Paulette S. Gray, Ph.D. is the Director for the Division of Extramural Activities (DEA). As the director of the division, she is responsible for the overall scientific, fiscal, and administrative management of the division, including broad strategic planning, development, implementation, and evaluation.

Meet EPA Ecologist Paul Mayer, Ph.D.

EPA Pesticide Factsheets

EPA ecologist Paul Mayer, Ph.D. works in EPA's Groundwater and Ecosystem Restoration division where he studies riparian zones (the area along rivers and streams where the habitats are influenced by both the land and water) and stream restoration

76 FR 12125 - National Institute of Diabetes and Digestive and Kidney Diseases; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2011-03-04

..., Bethesda, MD 20892. (Telephone Conference Call). Contact Person: Carol J. Goter-Robinson, PhD, Scientific...: Carol J. Goter-Robinson, PhD, Scientific Review Officer, Review Branch, DEA, NIDDK, National Institutes...

Craig Reynolds, Ph.D., to Retire as NCI Associate Director for Frederick | Poster

Cancer.gov

On December 2, Craig Reynolds, Ph.D., director, Office of Scientific Operations, and NCI associate director for Frederick, will put the finishing touches on a 37-year career with the National Cancer Institute.

75 FR 994 - National Institute of Allergy and Infectious Diseases; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2010-01-07

..., 8777 Georgia Avenue, Silver Spring, MD 20910. Contact Person: Lynn Rust, PhD, Scientific Review Officer... of Health, Rockledge 6700, 6700B Rockledge Drive, Bethesda, MD 20817. Contact Person: Lynn Rust, PhD...

[Progress in bio-based polyamides].

PubMed

Huang, Zhengqiang; Cui, Zhe; Zhang, Heming; Fu, Peng; Zhao, Qingxiang; Liu, Minying

2016-06-25

Bio-based polyamides are environment-friendly polymers. The precursors of bio-based polyamides come from bio-based materials such as castor oil, glucose and animal oil. Bio-based polyamides precursors include bio-based amino acids, bio-based lactams, bio-based diprotic acid and bio-based diamines. In this paper, we discussed the route of the precursors of bio-based polyamides that come from bio-based materials. We discussed the properties of bio-based polyamides. Bio-based PA11and bio-based PA1010 are well-known bio-based polyamides; we discussed the origin materials of the precursors, the route of manufacturing bio-based PA11 and PA1010, and their modifications status. The variety, classification and commercial production of bio-based polyamides were described in details, as well as bio-based polyamides development in China.

What Machines Need to Learn to Support Human Problem-Solving

NASA Technical Reports Server (NTRS)

Vera, Alonso

2017-01-01

In the development of intelligent systems that interact with humans, there is often confusion between how the system functions with respect to the humans it interacts with and how it interfaces with those humans. The former is a much deeper challenge than the latter it requires a system-level understanding of evolving human roles as well as an understanding of what humans need to know (and when) in order to perform their tasks. This talk will focus on some of the challenges in getting this right as well as on the type of research and development that results in successful human-autonomy teaming. Brief Bio: Dr. Alonso Vera is Chief of the Human Systems Integration Division at NASA Ames Research Center. His expertise is in human-computer interaction, information systems, artificial intelligence, and computational human performance modeling. He has led the design, development and deployment of mission software systems across NASA robotic and human space flight missions, including Mars Exploration Rovers, Phoenix Mars Lander, ISS, Constellation, and Exploration Systems. Dr. Vera received a Bachelor of Science with First Class Honors from McGill University in 1985 and a Ph.D. from Cornell University in 1991. He went on to a Post-Doctoral Fellowship in the School of Computer Science at Carnegie Mellon University from 1990-93.

Genetic Architecture Promotes the Evolution and Maintenance of Cooperation

PubMed Central

Frénoy, Antoine; Taddei, François; Misevic, Dusan

2013-01-01

When cooperation has a direct cost and an indirect benefit, a selfish behavior is more likely to be selected for than an altruistic one. Kin and group selection do provide evolutionary explanations for the stability of cooperation in nature, but we still lack the full understanding of the genomic mechanisms that can prevent cheater invasion. In our study we used Aevol, an agent-based, in silico genomic platform to evolve populations of digital organisms that compete, reproduce, and cooperate by secreting a public good for tens of thousands of generations. We found that cooperating individuals may share a phenotype, defined as the amount of public good produced, but have very different abilities to resist cheater invasion. To understand the underlying genetic differences between cooperator types, we performed bio-inspired genomics analyses of our digital organisms by recording and comparing the locations of metabolic and secretion genes, as well as the relevant promoters and terminators. Association between metabolic and secretion genes (promoter sharing, overlap via frame shift or sense-antisense encoding) was characteristic for populations with robust cooperation and was more likely to evolve when secretion was costly. In mutational analysis experiments, we demonstrated the potential evolutionary consequences of the genetic association by performing a large number of mutations and measuring their phenotypic and fitness effects. The non-cooperating mutants arising from the individuals with genetic association were more likely to have metabolic deleterious mutations that eventually lead to selection eliminating such mutants from the population due to the accompanying fitness decrease. Effectively, cooperation evolved to be protected and robust to mutations through entangled genetic architecture. Our results confirm the importance of second-order selection on evolutionary outcomes, uncover an important genetic mechanism for the evolution and maintenance of cooperation, and suggest promising methods for preventing gene loss in synthetically engineered organisms. PMID:24278000

The AquaDEB project (phase I): Analysing the physiological flexibility of aquatic species and connecting physiological diversity to ecological and evolutionary processes by using Dynamic Energy Budgets

NASA Astrophysics Data System (ADS)

Alunno-Bruscia, Marianne; van der Veer, Henk W.; Kooijman, Sebastiaan A. L. M.

2009-08-01

The European Research Project AquaDEB (2007-2011, http://www.ifremer.fr/aquadeb/) is joining skills and expertise of some French and Dutch research institutes and universities to analyse the physiological flexibility of aquatic organisms and to link it to ecological and evolutionary processes within a common theoretical framework for quantitative bioenergetics [Kooijman, S.A.L.M., 2000. Dynamic energy and mass budgets in biological systems. Cambridge University Press, Cambridge]. The main scientific objectives in AquaDEB are i) to study and compare the sensitivity of aquatic species (mainly molluscs and fish) to environmental variability of natural or human origin, and ii) to evaluate the related consequences at different biological levels (individual, population, ecosystem) and temporal scales (life cycle, population dynamics, evolution). At mid-term life, the AquaDEB collaboration has already yielded interesting results by quantifying bio-energetic processes of various aquatic species (e.g. molluscs, fish, crustaceans, algae) with a single mathematical framework. It has also allowed to federate scientists with different backgrounds, e.g. mathematics, microbiology, ecology, chemistry, and working in different fields, e.g. aquaculture, fisheries, ecology, agronomy, ecotoxicology, climate change. For the two coming years, the focus of the AquaDEB collaboration will be in priority: (i) to compare energetic and physiological strategies among species through the DEB parameter values and to identify the factors responsible for any differences in bioenergetics and physiology; and to compare dynamic (DEB) versus static (SEB) energy models to study the physiological performance of aquatic species; (ii) to consider different scenarios of environmental disruption (excess of nutrients, diffuse or massive pollution, exploitation by man, climate change) to forecast effects on growth, reproduction and survival of key species; (iii) to scale up the models for a few species from the individual level up to the level of evolutionary processes.

Richard Mazurchuk, PhD | Division of Cancer Prevention

Cancer.gov

Dr. Richard Mazurchuk received a BS in Physics and MS and PhD in Biophysics from SUNY Buffalo. His research focused on developing novel multi-modality imaging techniques, contrast (enhancing) agents and methods to assess the efficacy of experimental therapeutics. |

77 FR 66625 - National Institute of General Medical Sciences; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2012-11-06

...: Helen R. Sunshine, Ph.D., Chief, Office of Scientific Review, National Institute of General Medical...: Robert Horowits, Ph.D., Senior Investigator, National Institute of General Medical Sciences, National... Chemistry Research; 93.862, Genetics and [[Page 66626

77 FR 3478 - Center for Scientific Review; Notice of Closed Meetings

Federal Register 2010, 2011, 2012, 2013, 2014

2012-01-24

... Marriott Tysons Corner, 1960--A Chain Bridge Road, McLean, VA 22102. Contact Person: Martha M Faraday, Ph.D... Marriott Tysons Corner, 1960-A Chain Bridge Road McLean, VA 22102. Contact Person: Martha M Faraday, Ph.D...

An interview with James Wilbur, Ph.D. General Manager, Life Sciences, Meso Scale Discovery.

PubMed

Wilbur, James

2004-06-01

James L. Wilbur, Ph.D. received a Bachelor's degree from the University of California, San Diego and a Ph.D. in Chemistry from Stanford University. After completing an NIH Postdoctoral Fellowship with Professor George M. Whitesides in the Department of Chemistry at Harvard University, he joined IGEN International, Inc., where he held a variety of positions in Research and Development. During that time, he was part of the team that developed the core technology and products for Meso Scale Discovery. He assumed his current position in 2001 when Meso Scale Discovery launched the products discussed here.

Improving completion rates of students in biomedical PhD programs: an interventional study.

PubMed

Viđak, Marin; Tokalić, Ružica; Marušić, Matko; Puljak, Livia; Sapunar, Damir

2017-08-25

Analysis of graduation success at the University of Split School of Medicine PhD programs conducted in 2011 revealed that only 11% of students who enrolled and completed their graduate coursework between 1999 and 2011 earned a doctoral degree. In this prospective cohort study we evaluated and compared three PhD programs within the same medical school, where the newest program, called Translational Research in Biomedicine (TRIBE), established in the academic year 2010/11, aimed to increase the graduation rate through an innovative approach. The intervention in the new program was related to three domains: redefined recruitment strategy, strict study regulations, and changes to the curriculum. We compared performance of PhD students between the new and existing programs and analyzed their current status, time to obtain a degree (from enrolment to doctorate), age at doctorate, number of publications on which the thesis was based and the impact factor of journals in which these were published. These improvement strategies were associated with higher thesis completion rate and reduced time to degree for students enrolled in the TRIBE program. There was no change in the impact factor or number of publications that were the basis for the doctoral theses. Our study describes good practices which proved useful in the design or reform of the PhD training program.

What does originality in research mean? A student's perspective.

PubMed

Edwards, Mandy

2014-07-01

To provide a student's perspective of what it means to be original when undertaking a PhD. A review of the literature related to the concept of originality in doctoral research highlights the subjective nature of the concept in academia. Although there is much literature that explores the issues concerning examiners' views of originality, there is little on students' perspectives. A snowballing technique was used, where a recent article was read, and the references cited were then explored. Given the time constraints, the author recognises that the literature review was not as extensive as a systematic literature review. It is important for students to be clear about what is required to achieve a PhD. However, the vagaries associated with the formal assessment of the doctoral thesis and subsequent performance at viva can cause considerable uncertainty and anxiety for students. Originality in the PhD is a subjective concept and is not the only consideration for examiners. Of comparable importance is the assessment of the student's ability to demonstrate independence of thought and increasing maturity so they can become independent researchers. This article expresses a different perspective on what is meant when undertaking a PhD in terms of originality in the doctoral thesis. It is intended to help guide and reassure current and potential PhD students.

PHD3-dependent hydroxylation of HCLK2 promotes the DNA damage response

PubMed Central

Xie, Liang; Pi, Xinchun; Mishra, Ashutosh; Fong, Guohua; Peng, Junmin; Patterson, Cam

2012-01-01

The DNA damage response (DDR) is a complex regulatory network that is critical for maintaining genome integrity. Posttranslational modifications are widely used to ensure strict spatiotemporal control of signal flow, but how the DDR responds to environmental cues, such as changes in ambient oxygen tension, remains poorly understood. We found that an essential component of the ATR/CHK1 signaling pathway, the human homolog of the Caenorhabditis elegans biological clock protein CLK-2 (HCLK2), associated with and was hydroxylated by prolyl hydroxylase domain protein 3 (PHD3). HCLK2 hydroxylation was necessary for its interaction with ATR and the subsequent activation of ATR/CHK1/p53. Inhibiting PHD3, either with the pan-hydroxylase inhibitor dimethyloxaloylglycine (DMOG) or through hypoxia, prevented activation of the ATR/CHK1/p53 pathway and decreased apoptosis induced by DNA damage. Consistent with these observations, we found that mice lacking PHD3 were resistant to the effects of ionizing radiation and had decreased thymic apoptosis, a biomarker of genomic integrity. Our identification of HCLK2 as a substrate of PHD3 reveals the mechanism through which hypoxia inhibits the DDR, suggesting hydroxylation of HCLK2 is a potential therapeutic target for regulating the ATR/CHK1/p53 pathway. PMID:22797300

Christos Patriotis, PhD | Division of Cancer Prevention

Cancer.gov

Dr. Christos Patriotis obtained his MSc in Biochemistry from the University of Sofia, Bulgaria in 1985 and his PhD in Molecular Biology from the Bulgarian Academy of Sciences in 1990. Postdoctoral training focused on signal transduction and tumor cell biology. |

Meet EPA Ecologist Michael Murrell, Ph.D.

EPA Pesticide Factsheets

Michael Murrel, Ph.D., is a EPA research ecologist working on the Gulf of Mexico Hypoxia Project, helping develop models of the northern Gulf to quantify the links between freshwater flowing into the Gulf from the land, nutrients, and hypoxia—“dead zones”

The College Professor, The College Student, and Credentialism

ERIC Educational Resources Information Center

Snell, Joel C.; And Others

1977-01-01

In this article, the contradictions of the Ph.D. are reviewed. It is suggested that there be numerous levels of degrees. Social change is outlined that would reward not only undergrads, but graduate students, and those now holding the Ph.D. (Author)

Adaptation to High Ethanol Reveals Complex Evolutionary Pathways

PubMed Central

Das, Anupam; Espinosa-Cantú, Adriana; De Maeyer, Dries; Arslan, Ahmed; Van Pee, Michiel; van der Zande, Elisa; Meert, Wim; Yang, Yudi; Zhu, Bo; Marchal, Kathleen; DeLuna, Alexander; Van Noort, Vera; Jelier, Rob; Verstrepen, Kevin J.

2015-01-01

Tolerance to high levels of ethanol is an ecologically and industrially relevant phenotype of microbes, but the molecular mechanisms underlying this complex trait remain largely unknown. Here, we use long-term experimental evolution of isogenic yeast populations of different initial ploidy to study adaptation to increasing levels of ethanol. Whole-genome sequencing of more than 30 evolved populations and over 100 adapted clones isolated throughout this two-year evolution experiment revealed how a complex interplay of de novo single nucleotide mutations, copy number variation, ploidy changes, mutator phenotypes, and clonal interference led to a significant increase in ethanol tolerance. Although the specific mutations differ between different evolved lineages, application of a novel computational pipeline, PheNetic, revealed that many mutations target functional modules involved in stress response, cell cycle regulation, DNA repair and respiration. Measuring the fitness effects of selected mutations introduced in non-evolved ethanol-sensitive cells revealed several adaptive mutations that had previously not been implicated in ethanol tolerance, including mutations in PRT1, VPS70 and MEX67. Interestingly, variation in VPS70 was recently identified as a QTL for ethanol tolerance in an industrial bio-ethanol strain. Taken together, our results show how, in contrast to adaptation to some other stresses, adaptation to a continuous complex and severe stress involves interplay of different evolutionary mechanisms. In addition, our study reveals functional modules involved in ethanol resistance and identifies several mutations that could help to improve the ethanol tolerance of industrial yeasts. PMID:26545090

The evaluation of reproductive health PhD program in Iran: The input indicators analysis.

PubMed

AbdiShahshahani, Mahshid; Ehsanpour, Soheila; Yamani, Nikoo; Kohan, Shahnaz

2014-11-01

Appropriate quality achievement of a PhD program requires frequent assessment and discovering the shortcomings in the program. Inputs, which are important elements of the curriculum, are frequently missed in evaluations. The purpose of this study was to evaluate the input indicators of reproductive health PhD program in Iran based on the Context, Input, Process, and Product (CIPP) evaluation model. This is a descriptive and evaluative study based on the CIPP evaluation model. It was conducted in 2013 in four Iranian schools of nursing and midwifery of medical sciences universities. Statistical population consisted of four groups: heads of departments (n = 5), faculty members (n = 18), graduates (n = 12), and PhD students of reproductive health (n = 54). Data collection tools were five separate questionnaires including 37 indicators that were developed by the researcher. Content and face validity were evaluated based on the experts' indications. The Cronbach's alpha coefficient was calculated in order to obtain the reliability of the questionnaires. Collected data were analyzed by SPSS software. Data were analyzed by descriptive statistics (mean, frequency, percentage, and standard deviation), and one-way analysis of variance (ANOVA) and least significant difference (LSD) post hoc tests to compare means between groups. The results of the study indicated that the highest percentage of the heads of departments (80%), graduates (66.7%), and students (68.5%) evaluated the status of input indicators of reproductive health PhD program as relatively appropriate, while most of the faculties (66.7%) evaluated that as appropriate. It is suggested to explore the reasons for relatively appropriate evaluation of input indicators by further academic researches and improve the reproductive health PhD program accordingly.

Launching a Geoscience Career: Insights Gained from MS PHD'S Beyond the PhD

NASA Astrophysics Data System (ADS)

Guzman, W. I.; Johnson, A.; Williamson Whitney, V.; Jansma, P. E.; Huggans, M. J.; Ricciardi, L.

2013-05-01

The Beyond the PhD (B-PhD) Professional Development Program is the newest addition to the Minorities Striving and Pursuing Higher Degrees of Success (MS PHD'S®) Professional Development Program in Earth System Science. This exciting new program is designed to facilitate the development of a new community of underrepresented minority (URM) doctoral candidates and recent doctorate degree recipients in Earth system science (ESS)-related fields. Building upon MS PHD'S extensive professional development activities provided to URM undergraduate and graduate students, B-PhD's vision is to encourage and support URM doctoral students and early career PhD's in becoming part of the global workforce. (Since its inception in 2003, MSPHD'S supports 213 participants of which 42 have achieved the doctoral degree and another 71 are enrolled in doctoral programs.) By providing customized support and advocacy for participants, B-PhD facilitates smoother and informed transitions from graduate school to postdoctoral and tenure-track positions, as well as other "first" jobs in academia, government, industry, and non-profit organizations. In 2011, the first conference for 18 doctoral candidate and recent graduates was hosted at the University of Texas at Arlington's (UTA) College of Science. Using a format of guest speakers, brown bag discussions, and interactive breakout sessions, participants engaged in sessions entitled "Toolkits for Success in Academia, Business and Industry, Federal Government and Non-Profits", "Defining Short, Mid and Long Term Career Goals", "Accessing and Refining Skill Sets and Other Door Openers", "International Preparation and Opportunities", "Paying it Forward/Lifting as You Climb", and "Customized Strategies for Next Steps". This presentation will discuss outcomes from this pilot project, the use of social media to track and support ongoing B-PhD activities, and objectives for future B-PhD workshops.

Opportunities and challenges in the use of personal health data for health research.

PubMed

Bietz, Matthew J; Bloss, Cinnamon S; Calvert, Scout; Godino, Job G; Gregory, Judith; Claffey, Michael P; Sheehan, Jerry; Patrick, Kevin

2016-04-01

Understand barriers to the use of personal health data (PHD) in research from the perspective of three stakeholder groups: early adopter individuals who track data about their health, researchers who may use PHD as part of their research, and companies that market self-tracking devices, apps or services, and aggregate and manage the data that are generated. A targeted convenience sample of 465 individuals and 134 researchers completed an extensive online survey. Thirty-five hour-long semi-structured qualitative interviews were conducted with a subset of 11 individuals and 9 researchers, as well as 15 company/key informants. Challenges to the use of PHD for research were identified in six areas: data ownership; data access for research; privacy; informed consent and ethics; research methods and data quality; and the unpredictable nature of the rapidly evolving ecosystem of devices, apps, and other services that leave "digital footprints." Individuals reported willingness to anonymously share PHD if it would be used to advance research for the good of the public. Researchers were enthusiastic about using PHD for research, but noted barriers related to intellectual property, licensing, and the need for legal agreements with companies. Companies were interested in research but stressed that their first priority was maintaining customer relationships. Although challenges exist in leveraging PHD for research, there are many opportunities for stakeholder engagement, and experimentation with these data is already taking place. These early examples foreshadow a much larger set of activities with the potential to positively transform how health research is conducted. © The Author 2015. Published by Oxford University Press on behalf of the American Medical Informatics Association. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Conditional disruption of the prolyl hydroxylase domain-containing protein 2 (Phd2) gene defines its key role in skeletal development.

PubMed

Cheng, Shaohong; Xing, Weirong; Pourteymoor, Sheila; Mohan, Subburaman

2014-10-01

We have previously shown that the increase in osterix (Osx) expression during osteoblast maturation is dependent on the activity of the prolyl hydroxylase domain-containing protein 2 (Phd2), a key regulator of protein levels of the hypoxia-inducible factor family proteins in many tissues. In this study, we generated conditional Phd2 knockout mice (cKO) in osteoblast lineage cells by crossing floxed Phd2 mice with a Col1α2-iCre line to investigate the function of Phd2 in vivo. The cKO mice developed short stature and premature death at 12 to 14 weeks of age. Bone mineral content, bone area, and bone mineral density were decreased in femurs and tibias, but not vertebrae of the cKO mice compared to WT mice. The total volume (TV), bone volume (BV), and bone volume fraction (BV/TV) in the femoral trabecular bones of cKO mice were significantly decreased. Cross-sectional area of the femoral mid-diaphysis was also reduced in the cKO mice. The reduced bone size and trabecular bone volume in the cKO mice were a result of impaired bone formation but not bone resorption as revealed by dynamic histomorphometric analyses. Bone marrow stromal cells derived from cKO mice formed fewer and smaller nodules when cultured with mineralization medium. Quantitative RT-PCR and immunohistochemistry detected reduced expression of Osx, osteocalcin, and bone sialoprotein in cKO bone cells. These data indicate that Phd2 plays an important role in regulating bone formation in part by modulating expression of Osx and bone formation marker genes. © 2014 American Society for Bone and Mineral Research.