A constant stress-drop model for producing broadband synthetic seismograms: Comparison with the next generation attenuation relations

USGS Publications Warehouse

Frankel, A.

2009-01-01

Broadband (0.1-20 Hz) synthetic seismograms for finite-fault sources were produced for a model where stress drop is constant with seismic moment to see if they can match the magnitude dependence and distance decay of response spectral amplitudes found in the Next Generation Attenuation (NGA) relations recently developed from strong-motion data of crustal earthquakes in tectonically active regions. The broadband synthetics were constructed for earthquakes of M 5.5, 6.5, and 7.5 by combining deterministic synthetics for plane-layered models at low frequencies with stochastic synthetics at high frequencies. The stochastic portion used a source model where the Brune stress drop of 100 bars is constant with seismic moment. The deterministic synthetics were calculated using an average slip velocity, and hence, dynamic stress drop, on the fault that is uniform with magnitude. One novel aspect of this procedure is that the transition frequency between the deterministic and stochastic portions varied with magnitude, so that the transition frequency is inversely related to the rise time of slip on the fault. The spectral accelerations at 0.2, 1.0, and 3.0 sec periods from the synthetics generally agreed with those from the set of NGA relations for M 5.5-7.5 for distances of 2-100 km. At distances of 100-200 km some of the NGA relations for 0.2 sec spectral acceleration were substantially larger than the values of the synthetics for M 7.5 and M 6.5 earthquakes because these relations do not have a term accounting for Q. At 3 and 5 sec periods, the synthetics for M 7.5 earthquakes generally had larger spectral accelerations than the NGA relations, although there was large scatter in the results from the synthetics. The synthetics showed a sag in response spectra at close-in distances for M 5.5 between 0.3 and 0.7 sec that is not predicted from the NGA relations.

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

Larsen, E.W.

A class of Projected Discrete-Ordinates (PDO) methods is described for obtaining iterative solutions of discrete-ordinates problems with convergence rates comparable to those observed using Diffusion Synthetic Acceleration (DSA). The spatially discretized PDO solutions are generally not equal to the DSA solutions, but unlike DSA, which requires great care in the use of spatial discretizations to preserve stability, the PDO solutions remain stable and rapidly convergent with essentially arbitrary spatial discretizations. Numerical results are presented which illustrate the rapid convergence and the accuracy of solutions obtained using PDO methods with commonplace differencing methods.

An Efficient Numerical Method for Computing Synthetic Seismograms for a Layered Half-space with Sources and Receivers at Close or Same Depths

NASA Astrophysics Data System (ADS)

Zhang, H.-m.; Chen, X.-f.; Chang, S.

- It is difficult to compute synthetic seismograms for a layered half-space with sources and receivers at close to or the same depths using the generalized R/T coefficient method (Kennett, 1983; Luco and Apsel, 1983; Yao and Harkrider, 1983; Chen, 1993), because the wavenumber integration converges very slowly. A semi-analytic method for accelerating the convergence, in which part of the integration is implemented analytically, was adopted by some authors (Apsel and Luco, 1983; Hisada, 1994, 1995). In this study, based on the principle of the Repeated Averaging Method (Dahlquist and Björck, 1974; Chang, 1988), we propose an alternative, efficient, numerical method, the peak-trough averaging method (PTAM), to overcome the difficulty mentioned above. Compared with the semi-analytic method, PTAM is not only much simpler mathematically and easier to implement in practice, but also more efficient. Using numerical examples, we illustrate the validity, accuracy and efficiency of the new method.

Efficient Terahertz Wide-Angle NUFFT-Based Inverse Synthetic Aperture Imaging Considering Spherical Wavefront.

PubMed

Gao, Jingkun; Deng, Bin; Qin, Yuliang; Wang, Hongqiang; Li, Xiang

2016-12-14

An efficient wide-angle inverse synthetic aperture imaging method considering the spherical wavefront effects and suitable for the terahertz band is presented. Firstly, the echo signal model under spherical wave assumption is established, and the detailed wavefront curvature compensation method accelerated by 1D fast Fourier transform (FFT) is discussed. Then, to speed up the reconstruction procedure, the fast Gaussian gridding (FGG)-based nonuniform FFT (NUFFT) is employed to focus the image. Finally, proof-of-principle experiments are carried out and the results are compared with the ones obtained by the convolution back-projection (CBP) algorithm. The results demonstrate the effectiveness and the efficiency of the presented method. This imaging method can be directly used in the field of nondestructive detection and can also be used to provide a solution for the calculation of the far-field RCSs (Radar Cross Section) of targets in the terahertz regime.

HIV Infection Accelerates Hepatitis C-Related Liver Fibrosis

MedlinePlus

Skip to main content En español Researchers Medical & Health Professionals Patients & ... Medicines Prescription Medicines Steroids (Anabolic) Synthetic Cannabinoids (K2/Spice) Synthetic Cathinones (Bath Salts) Tobacco/Nicotine ...

A new least-squares transport equation compatible with voids

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

Hansen, J. B.; Morel, J. E.

2013-07-01

We define a new least-squares transport equation that is applicable in voids, can be solved using source iteration with diffusion-synthetic acceleration, and requires only the solution of an independent set of second-order self-adjoint equations for each direction during each source iteration. We derive the equation, discretize it using the S{sub n} method in conjunction with a linear-continuous finite-element method in space, and computationally demonstrate various of its properties. (authors)

A Fast Synthetic Aperture Radar Raw Data Simulation Using Cloud Computing

PubMed Central

Li, Zhixin; Su, Dandan; Zhu, Haijiang; Li, Wei; Zhang, Fan; Li, Ruirui

2017-01-01

Synthetic Aperture Radar (SAR) raw data simulation is a fundamental problem in radar system design and imaging algorithm research. The growth of surveying swath and resolution results in a significant increase in data volume and simulation period, which can be considered to be a comprehensive data intensive and computing intensive issue. Although several high performance computing (HPC) methods have demonstrated their potential for accelerating simulation, the input/output (I/O) bottleneck of huge raw data has not been eased. In this paper, we propose a cloud computing based SAR raw data simulation algorithm, which employs the MapReduce model to accelerate the raw data computing and the Hadoop distributed file system (HDFS) for fast I/O access. The MapReduce model is designed for the irregular parallel accumulation of raw data simulation, which greatly reduces the parallel efficiency of graphics processing unit (GPU) based simulation methods. In addition, three kinds of optimization strategies are put forward from the aspects of programming model, HDFS configuration and scheduling. The experimental results show that the cloud computing based algorithm achieves 4× speedup over the baseline serial approach in an 8-node cloud environment, and each optimization strategy can improve about 20%. This work proves that the proposed cloud algorithm is capable of solving the computing intensive and data intensive issues in SAR raw data simulation, and is easily extended to large scale computing to achieve higher acceleration. PMID:28075343

SU-C-BRD-03: Analysis of Accelerator Generated Text Logs for Preemptive Maintenance

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

Able, CM; Baydush, AH; Nguyen, C

2014-06-15

Purpose: To develop a model to analyze medical accelerator generated parameter and performance data that will provide an early warning of performance degradation and impending component failure. Methods: A robust 6 MV VMAT quality assurance treatment delivery was used to test the constancy of accelerator performance. The generated text log files were decoded and analyzed using statistical process control (SPC) methodology. The text file data is a single snapshot of energy specific and overall systems parameters. A total of 36 system parameters were monitored which include RF generation, electron gun control, energy control, beam uniformity control, DC voltage generation, andmore » cooling systems. The parameters were analyzed using Individual and Moving Range (I/MR) charts. The chart limits were calculated using a hybrid technique that included the use of the standard 3σ limits and the parameter/system specification. Synthetic errors/changes were introduced to determine the initial effectiveness of I/MR charts in detecting relevant changes in operating parameters. The magnitude of the synthetic errors/changes was based on: the value of 1 standard deviation from the mean operating parameter of 483 TB systems, a small fraction (≤ 5%) of the operating range, or a fraction of the minor fault deviation. Results: There were 34 parameters in which synthetic errors were introduced. There were 2 parameters (radial position steering coil, and positive 24V DC) in which the errors did not exceed the limit of the I/MR chart. The I chart limit was exceeded for all of the remaining parameters (94.2%). The MR chart limit was exceeded in 29 of the 32 parameters (85.3%) in which the I chart limit was exceeded. Conclusion: Statistical process control I/MR evaluation of text log file parameters may be effective in providing an early warning of performance degradation or component failure for digital medical accelerator systems. Research is Supported by Varian Medical Systems, Inc.« less

Towards the development of universal, fast and highly accurate docking/scoring methods: a long way to go

PubMed Central

Moitessier, N; Englebienne, P; Lee, D; Lawandi, J; Corbeil, C R

2008-01-01

Accelerating the drug discovery process requires predictive computational protocols capable of reducing or simplifying the synthetic and/or combinatorial challenge. Docking-based virtual screening methods have been developed and successfully applied to a number of pharmaceutical targets. In this review, we first present the current status of docking and scoring methods, with exhaustive lists of these. We next discuss reported comparative studies, outlining criteria for their interpretation. In the final section, we describe some of the remaining developments that would potentially lead to a universally applicable docking/scoring method. PMID:18037925

Regulatory RNA design through evolutionary computation and strand displacement.

PubMed

Rostain, William; Landrain, Thomas E; Rodrigo, Guillermo; Jaramillo, Alfonso

2015-01-01

The discovery and study of a vast number of regulatory RNAs in all kingdoms of life over the past decades has allowed the design of new synthetic RNAs that can regulate gene expression in vivo. Riboregulators, in particular, have been used to activate or repress gene expression. However, to accelerate and scale up the design process, synthetic biologists require computer-assisted design tools, without which riboregulator engineering will remain a case-by-case design process requiring expert attention. Recently, the design of RNA circuits by evolutionary computation and adapting strand displacement techniques from nanotechnology has proven to be suited to the automated generation of DNA sequences implementing regulatory RNA systems in bacteria. Herein, we present our method to carry out such evolutionary design and how to use it to create various types of riboregulators, allowing the systematic de novo design of genetic control systems in synthetic biology.

Standards for plant synthetic biology: a common syntax for exchange of DNA parts.

PubMed

Patron, Nicola J; Orzaez, Diego; Marillonnet, Sylvestre; Warzecha, Heribert; Matthewman, Colette; Youles, Mark; Raitskin, Oleg; Leveau, Aymeric; Farré, Gemma; Rogers, Christian; Smith, Alison; Hibberd, Julian; Webb, Alex A R; Locke, James; Schornack, Sebastian; Ajioka, Jim; Baulcombe, David C; Zipfel, Cyril; Kamoun, Sophien; Jones, Jonathan D G; Kuhn, Hannah; Robatzek, Silke; Van Esse, H Peter; Sanders, Dale; Oldroyd, Giles; Martin, Cathie; Field, Rob; O'Connor, Sarah; Fox, Samantha; Wulff, Brande; Miller, Ben; Breakspear, Andy; Radhakrishnan, Guru; Delaux, Pierre-Marc; Loqué, Dominique; Granell, Antonio; Tissier, Alain; Shih, Patrick; Brutnell, Thomas P; Quick, W Paul; Rischer, Heiko; Fraser, Paul D; Aharoni, Asaph; Raines, Christine; South, Paul F; Ané, Jean-Michel; Hamberger, Björn R; Langdale, Jane; Stougaard, Jens; Bouwmeester, Harro; Udvardi, Michael; Murray, James A H; Ntoukakis, Vardis; Schäfer, Patrick; Denby, Katherine; Edwards, Keith J; Osbourn, Anne; Haseloff, Jim

2015-10-01

Inventors in the field of mechanical and electronic engineering can access multitudes of components and, thanks to standardization, parts from different manufacturers can be used in combination with each other. The introduction of BioBrick standards for the assembly of characterized DNA sequences was a landmark in microbial engineering, shaping the field of synthetic biology. Here, we describe a standard for Type IIS restriction endonuclease-mediated assembly, defining a common syntax of 12 fusion sites to enable the facile assembly of eukaryotic transcriptional units. This standard has been developed and agreed by representatives and leaders of the international plant science and synthetic biology communities, including inventors, developers and adopters of Type IIS cloning methods. Our vision is of an extensive catalogue of standardized, characterized DNA parts that will accelerate plant bioengineering. © 2015 The Authors. New Phytologist © 2015 New Phytologist Trust.

Seismic Scenario in the Acambay Graben and Possible Affectations in the Miguel Hidalgo Refinery

NASA Astrophysics Data System (ADS)

Valderrama Membrillo, S.; Aguirre, J.

2015-12-01

In this paper we presented synthetic acceleration records in the Miguel Hidalgo refinery, Hidalgo due to a seismic scenario originated in the graben Acambay, such as occurred in 1912 (70 km distance to it). This earthquake had a magnitude of 6.9 and caused extensive damage, according to reports caused 164 deaths and numerous houses collapsing. To simulate the event of M = 6.9 we used the empirical Greeńs function method proposed by Irikura (1986). Due to the low seismic activity we have not any small earthquake record or an "element earthquake" so that we generated a synthetic seismogram of M = 4.1 to be used as empirical Greeńs function. The seismogram was constructed in two parts. For low frequencies we constructed from cross-correlations of seismic noise, while for high frequencies we made a stochastic simulation. Subsequently, we applied a "matched filter" to join the two frequency bands of synthetic earthquake. For the construction of seismic scenario the method of Irikura (1986) was used. We consider a square fault of 47.75 km long, a radial rupture propagation, rupture velocity of 3.06 m/s, and with the following focal mechanism: strike of 280°, dip of 66 ° and rake of -138 °. With these parameters we obtained the synthetic seismograms. Since there was not any observed earthquake to validate the model, the 1912 event was simulated and then from relationships of intensity (obtained Wald et al.,2005; Sandoval et al., 2013; and Arias, 1969), we estimated the Modified Mercalli Intensity (MMI) for the refinery. We compare our result with isoseismal map obtained by Suter et al. (1996) for the earthquake of 1912. In agreement with Suter, our results shown a MMI V-VI for the Miguel Hidalgo refinery. With this qualitative validation we search the seismic scenario with the higher accelerations and from this synthetic seismogram, we obtained parameters that are of interest in engineering to estimate the possible affectations to the Miguel Hidalgo refinery, such as: PGA, PGV, response spectra, dominant period of significant duration event, and estimated MMI.

Effect of the Crevice Former on the Corrosion Behavior of 316L Stainless Steel in Chloride-Containing Synthetic Tap Water

NASA Astrophysics Data System (ADS)

Kim, Seon-Hong; Lee, Ji-Hoon; Kim, Jung-Gu; Kim, Woo-Cheol

2018-05-01

To restrain the failure of the plate heat exchanger (PHE) in customer boiler working fluid, the effect of crevice former type on the corrosion behavior of the 316L stainless steel plate was investigated using electrochemical methods and surface analyses in chloride-containing synthetic tap water (60 °C). The localized corrosion under metal-metal crevice condition was initiated more easily than that under the metal-gasket crevice condition due to the restricted mass transport at the gasket crevice mouth. However, the anodic current under the metal-metal crevice condition was lower than that under metal-gasket crevice condition at a higher anodic potential, indicating that that the metal dissolution under EPDM crevice would be higher than that under metal crevice under the accelerated corrosion condition. Because narrow crevice gap that was formed under gasket accelerated the anodic dissolution at the crevice mouth, the perforation tendency under metal-gasket crevice condition is much higher than that under metal-metal crevice condition. As a result, the crevice geometry, especially the crevice gap, mainly affected the corrosion behavior of PHE material.

Effect of the Crevice Former on the Corrosion Behavior of 316L Stainless Steel in Chloride-Containing Synthetic Tap Water

NASA Astrophysics Data System (ADS)

Kim, Seon-Hong; Lee, Ji-Hoon; Kim, Jung-Gu; Kim, Woo-Cheol

2018-03-01

To restrain the failure of the plate heat exchanger (PHE) in customer boiler working fluid, the effect of crevice former type on the corrosion behavior of the 316L stainless steel plate was investigated using electrochemical methods and surface analyses in chloride-containing synthetic tap water (60 °C). The localized corrosion under metal-metal crevice condition was initiated more easily than that under the metal-gasket crevice condition due to the restricted mass transport at the gasket crevice mouth. However, the anodic current under the metal-metal crevice condition was lower than that under metal-gasket crevice condition at a higher anodic potential, indicating that that the metal dissolution under EPDM crevice would be higher than that under metal crevice under the accelerated corrosion condition. Because narrow crevice gap that was formed under gasket accelerated the anodic dissolution at the crevice mouth, the perforation tendency under metal-gasket crevice condition is much higher than that under metal-metal crevice condition. As a result, the crevice geometry, especially the crevice gap, mainly affected the corrosion behavior of PHE material.

Inversion of ocean-bottom seismometer (OBS) waveforms for oceanic crust structure: a synthetic study

NASA Astrophysics Data System (ADS)

Li, Xueyan; Wang, Yanbin; Chen, Yongshun John

2016-08-01

The waveform inversion method is applied—using synthetic ocean-bottom seismometer (OBS) data—to study oceanic crust structure. A niching genetic algorithm (NGA) is used to implement the inversion for the thickness and P-wave velocity of each layer, and to update the model by minimizing the objective function, which consists of the misfit and cross-correlation of observed and synthetic waveforms. The influence of specific NGA method parameters is discussed, and suitable values are presented. The NGA method works well for various observation systems, such as those with irregular and sparse distribution of receivers as well as single receiver systems. A strategy is proposed to accelerate the convergence rate by a factor of five with no increase in computational complexity; this is achieved using a first inversion with several generations to impose a restriction on the preset range of each parameter and then conducting a second inversion with the new range. Despite the successes of this method, its usage is limited. A shallow water layer is not favored because the direct wave in water will suppress the useful reflection signals from the crust. A more precise calculation of the air-gun source signal should be considered in order to better simulate waveforms generated in realistic situations; further studies are required to investigate this issue.

MICROWAVE-ACCELERATED MULTICOMPONENT REACTIONS UNDER SOLVENT-FREE CONDITIONS

EPA Science Inventory

The application of microwave-accelerated solventless synthetic protocols in multicomponent (MCC) reactions will be exemplified by several condensation and cyclization reactions including the rapid one-pot assembly of valuable heterocyclic compounds from in situ generated intermed...

An acceleration framework for synthetic aperture radar algorithms

NASA Astrophysics Data System (ADS)

Kim, Youngsoo; Gloster, Clay S.; Alexander, Winser E.

2017-04-01

Algorithms for radar signal processing, such as Synthetic Aperture Radar (SAR) are computationally intensive and require considerable execution time on a general purpose processor. Reconfigurable logic can be used to off-load the primary computational kernel onto a custom computing machine in order to reduce execution time by an order of magnitude as compared to kernel execution on a general purpose processor. Specifically, Field Programmable Gate Arrays (FPGAs) can be used to accelerate these kernels using hardware-based custom logic implementations. In this paper, we demonstrate a framework for algorithm acceleration. We used SAR as a case study to illustrate the potential for algorithm acceleration offered by FPGAs. Initially, we profiled the SAR algorithm and implemented a homomorphic filter using a hardware implementation of the natural logarithm. Experimental results show a linear speedup by adding reasonably small processing elements in Field Programmable Gate Array (FPGA) as opposed to using a software implementation running on a typical general purpose processor.

Direct measurement of the rates of synthesis of plasma proteins in control subjects and patients with gastrointestinal protein loss

PubMed Central

Wochner, R. Dean; Weissman, Sherman M.; Waldmann, Thomas A.; Houston, Delores; Berlin, Nathaniel I.

1968-01-01

The guanido carbon of hepatic arginine is the common precursor of urea and of the arginine of plasma proteins synthesized in the liver. It is possible to measure the momentary synthetic rates of plasma proteins by “pulse labeling” this arginine pool with bicarbonate-14C. In the current study, this method has been adapted in order to use urinary urea data and was applied to control subjects and patients with gastrointestinal protein loss. The assumptions required for this determination are discussed. There was close agreement between albumin synthetic rates measured by this method and albumin catabolic rates derived from simultaneous albumin-131I studies, supporting the validity of the method and suggesting that there is relatively little fluctuation in the rate of albumin synthesis from time to time. The albumin synthetic rates in six control subjects averaged 5.8 mg/kg per hr, while those of five patients with gastrointestinal protein loss averaged 7.2 mg/kg per hr. Thus in these patients, there was relatively little acceleration of albumin synthesis in response to continued loss of plasma proteins into the gastrointestinal tract. Fibrinogen synthetic rates averaged 1.9 mg/kg per hr in five control subjects and 3.2 mg/kg per hr in five patients with gastrointestinal protein loss. Transferrin synthetic rates exhibited considerable individual variation in both groups and averaged 0.24 mg/kg per hr in four control subjects and 0.31 mg/kg per hr in five patients with gastrointestinal protein loss. The method employed in this study offers several advantages in studying plasma protein metabolism. It provides a direct measurement of protein synthesis, applicable to several proteins simultaneously, does not require a long-term steady state in the metabolism of the proteins, and is capable of measuring short-term fluctuations in synthetic rates. Therefore, this approach is applicable to the investigation of the physiological factors controlling the rates of synthesis for plasma proteins. PMID:5239039

An accelerated photo-magnetic imaging reconstruction algorithm based on an analytical forward solution and a fast Jacobian assembly method

NASA Astrophysics Data System (ADS)

Nouizi, F.; Erkol, H.; Luk, A.; Marks, M.; Unlu, M. B.; Gulsen, G.

2016-10-01

We previously introduced photo-magnetic imaging (PMI), an imaging technique that illuminates the medium under investigation with near-infrared light and measures the induced temperature increase using magnetic resonance thermometry (MRT). Using a multiphysics solver combining photon migration and heat diffusion, PMI models the spatiotemporal distribution of temperature variation and recovers high resolution optical absorption images using these temperature maps. In this paper, we present a new fast non-iterative reconstruction algorithm for PMI. This new algorithm uses analytic methods during the resolution of the forward problem and the assembly of the sensitivity matrix. We validate our new analytic-based algorithm with the first generation finite element method (FEM) based reconstruction algorithm previously developed by our team. The validation is performed using, first synthetic data and afterwards, real MRT measured temperature maps. Our new method accelerates the reconstruction process 30-fold when compared to a single iteration of the FEM-based algorithm.

Application of wavelet multi-resolution analysis for correction of seismic acceleration records

NASA Astrophysics Data System (ADS)

Ansari, Anooshiravan; Noorzad, Assadollah; Zare, Mehdi

2007-12-01

During an earthquake, many stations record the ground motion, but only a few of them could be corrected using conventional high-pass and low-pass filtering methods and the others were identified as highly contaminated by noise and as a result useless. There are two major problems associated with these noisy records. First, since the signal to noise ratio (S/N) is low, it is not possible to discriminate between the original signal and noise either in the frequency domain or in the time domain. Consequently, it is not possible to cancel out noise using conventional filtering methods. The second problem is the non-stationary characteristics of the noise. In other words, in many cases the characteristics of the noise are varied over time and in these situations, it is not possible to apply frequency domain correction schemes. When correcting acceleration signals contaminated with high-level non-stationary noise, there is an important question whether it is possible to estimate the state of the noise in different bands of time and frequency. Wavelet multi-resolution analysis decomposes a signal into different time-frequency components, and besides introducing a suitable criterion for identification of the noise among each component, also provides the required mathematical tool for correction of highly noisy acceleration records. In this paper, the characteristics of the wavelet de-noising procedures are examined through the correction of selected real and synthetic acceleration time histories. It is concluded that this method provides a very flexible and efficient tool for the correction of very noisy and non-stationary records of ground acceleration. In addition, a two-step correction scheme is proposed for long period correction of the acceleration records. This method has the advantage of stable results in displacement time history and response spectrum.

Research on Influencing Factors and Generalized Power of Synthetic Artificial Seismic Wave

NASA Astrophysics Data System (ADS)

Jiang, Yanpei

2018-05-01

Start your abstract here… In this paper, according to the trigonometric series method, the author adopts different envelope functions and the acceleration design spectrum in Seismic Code For Urban Bridge Design to simulate the seismic acceleration time history which meets the engineering accuracy requirements by modifying and iterating the initial wave. Spectral analysis is carried out to find out the the distribution law of the changing frequencies of the energy of seismic time history and to determine the main factors that affect the acceleration amplitude spectrum and energy spectrum density. The generalized power formula of seismic time history is derived from the discrete energy integral formula and the author studied the changing characteristics of generalized power of the seismic time history under different envelop functions. Examples are analyzed to illustrate that generalized power can measure the seismic performance of bridges.

Microwave Heating of Synthetic Skin Samples for Potential Treatment of Gout Using the Metal-Assisted and Microwave-Accelerated Decrystallization Technique

PubMed Central

2016-01-01

Physical stability of synthetic skin samples during their exposure to microwave heating was investigated to demonstrate the use of the metal-assisted and microwave-accelerated decrystallization (MAMAD) technique for potential biomedical applications. In this regard, optical microscopy and temperature measurements were employed for the qualitative and quantitative assessment of damage to synthetic skin samples during 20 s intermittent microwave heating using a monomode microwave source (at 8 GHz, 2–20 W) up to 120 s. The extent of damage to synthetic skin samples, assessed by the change in the surface area of skin samples, was negligible for microwave power of ≤7 W and more extensive damage (>50%) to skin samples occurred when exposed to >7 W at initial temperature range of 20–39 °C. The initial temperature of synthetic skin samples significantly affected the extent of change in temperature of synthetic skin samples during their exposure to microwave heating. The proof of principle use of the MAMAD technique was demonstrated for the decrystallization of a model biological crystal (l-alanine) placed under synthetic skin samples in the presence of gold nanoparticles. Our results showed that the size (initial size ∼850 μm) of l-alanine crystals can be reduced up to 60% in 120 s without damage to synthetic skin samples using the MAMAD technique. Finite-difference time-domain-based simulations of the electric field distribution of an 8 GHz monomode microwave radiation showed that synthetic skin samples are predicted to absorb ∼92.2% of the microwave radiation. PMID:27917407

49 CFR 393.102 - What are the minimum performance criteria for cargo securement devices and systems?

Code of Federal Regulations, 2010 CFR

2010-10-01

... chains, wire rope, steel strapping, synthetic webbing, and cordage) and other attachment or fastening... acceleration in a lateral direction. (2) Working Load limit. Tiedown assemblies (including chains, wire rope, steel strapping, synthetic webbing, and cordage) and other attachment or fastening devices used to...

49 CFR 393.102 - What are the minimum performance criteria for cargo securement devices and systems?

Code of Federal Regulations, 2011 CFR

2011-10-01

... chains, wire rope, steel strapping, synthetic webbing, and cordage) and other attachment or fastening... acceleration in a lateral direction. (2) Working Load limit. Tiedown assemblies (including chains, wire rope, steel strapping, synthetic webbing, and cordage) and other attachment or fastening devices used to...

FEM Techniques for High Stress Detection in Accelerated Fatigue Simulation

NASA Astrophysics Data System (ADS)

Veltri, M.

2016-09-01

This work presents the theory and a numerical validation study in support to a novel method for a priori identification of fatigue critical regions, with the aim to accelerate durability design in large FEM problems. The investigation is placed in the context of modern full-body structural durability analysis, where a computationally intensive dynamic solution could be required to identify areas with potential for fatigue damage initiation. The early detection of fatigue critical areas can drive a simplification of the problem size, leading to sensible improvement in solution time and model handling while allowing processing of the critical areas in higher detail. The proposed technique is applied to a real life industrial case in a comparative assessment with established practices. Synthetic damage prediction quantification and visualization techniques allow for a quick and efficient comparison between methods, outlining potential application benefits and boundaries.

Systematic discovery of mutation-specific synthetic lethals by mining pan-cancer human primary tumor data

NASA Astrophysics Data System (ADS)

Sinha, Subarna; Thomas, Daniel; Chan, Steven; Gao, Yang; Brunen, Diede; Torabi, Damoun; Reinisch, Andreas; Hernandez, David; Chan, Andy; Rankin, Erinn B.; Bernards, Rene; Majeti, Ravindra; Dill, David L.

2017-05-01

Two genes are synthetically lethal (SL) when defects in both are lethal to a cell but a single defect is non-lethal. SL partners of cancer mutations are of great interest as pharmacological targets; however, identifying them by cell line-based methods is challenging. Here we develop MiSL (Mining Synthetic Lethals), an algorithm that mines pan-cancer human primary tumour data to identify mutation-specific SL partners for specific cancers. We apply MiSL to 12 different cancers and predict 145,891 SL partners for 3,120 mutations, including known mutation-specific SL partners. Comparisons with functional screens show that MiSL predictions are enriched for SLs in multiple cancers. We extensively validate a SL interaction identified by MiSL between the IDH1 mutation and ACACA in leukaemia using gene targeting and patient-derived xenografts. Furthermore, we apply MiSL to pinpoint genetic biomarkers for drug sensitivity. These results demonstrate that MiSL can accelerate precision oncology by identifying mutation-specific targets and biomarkers.

Prediction of broadband ground-motion time histories: Hybrid low/high-frequency method with correlated random source parameters

USGS Publications Warehouse

Liu, P.; Archuleta, R.J.; Hartzell, S.H.

2006-01-01

We present a new method for calculating broadband time histories of ground motion based on a hybrid low-frequency/high-frequency approach with correlated source parameters. Using a finite-difference method we calculate low- frequency synthetics (< ∼1 Hz) in a 3D velocity structure. We also compute broadband synthetics in a 1D velocity model using a frequency-wavenumber method. The low frequencies from the 3D calculation are combined with the high frequencies from the 1D calculation by using matched filtering at a crossover frequency of 1 Hz. The source description, common to both the 1D and 3D synthetics, is based on correlated random distributions for the slip amplitude, rupture velocity, and rise time on the fault. This source description allows for the specification of source parameters independent of any a priori inversion results. In our broadband modeling we include correlation between slip amplitude, rupture velocity, and rise time, as suggested by dynamic fault modeling. The method of using correlated random source parameters is flexible and can be easily modified to adjust to our changing understanding of earthquake ruptures. A realistic attenuation model is common to both the 3D and 1D calculations that form the low- and high-frequency components of the broadband synthetics. The value of Q is a function of the local shear-wave velocity. To produce more accurate high-frequency amplitudes and durations, the 1D synthetics are corrected with a randomized, frequency-dependent radiation pattern. The 1D synthetics are further corrected for local site and nonlinear soil effects by using a 1D nonlinear propagation code and generic velocity structure appropriate for the site’s National Earthquake Hazards Reduction Program (NEHRP) site classification. The entire procedure is validated by comparison with the 1994 Northridge, California, strong ground motion data set. The bias and error found here for response spectral acceleration are similar to the best results that have been published by others for the Northridge rupture.

Faster Trees: Strategies for Accelerated Training and Prediction of Random Forests for Classification of Polsar Images

NASA Astrophysics Data System (ADS)

Hänsch, Ronny; Hellwich, Olaf

2018-04-01

Random Forests have continuously proven to be one of the most accurate, robust, as well as efficient methods for the supervised classification of images in general and polarimetric synthetic aperture radar data in particular. While the majority of previous work focus on improving classification accuracy, we aim for accelerating the training of the classifier as well as its usage during prediction while maintaining its accuracy. Unlike other approaches we mainly consider algorithmic changes to stay as much as possible independent of platform and programming language. The final model achieves an approximately 60 times faster training and a 500 times faster prediction, while the accuracy is only marginally decreased by roughly 1 %.

Accelerating Spaceborne SAR Imaging Using Multiple CPU/GPU Deep Collaborative Computing

PubMed Central

Zhang, Fan; Li, Guojun; Li, Wei; Hu, Wei; Hu, Yuxin

2016-01-01

With the development of synthetic aperture radar (SAR) technologies in recent years, the huge amount of remote sensing data brings challenges for real-time imaging processing. Therefore, high performance computing (HPC) methods have been presented to accelerate SAR imaging, especially the GPU based methods. In the classical GPU based imaging algorithm, GPU is employed to accelerate image processing by massive parallel computing, and CPU is only used to perform the auxiliary work such as data input/output (IO). However, the computing capability of CPU is ignored and underestimated. In this work, a new deep collaborative SAR imaging method based on multiple CPU/GPU is proposed to achieve real-time SAR imaging. Through the proposed tasks partitioning and scheduling strategy, the whole image can be generated with deep collaborative multiple CPU/GPU computing. In the part of CPU parallel imaging, the advanced vector extension (AVX) method is firstly introduced into the multi-core CPU parallel method for higher efficiency. As for the GPU parallel imaging, not only the bottlenecks of memory limitation and frequent data transferring are broken, but also kinds of optimized strategies are applied, such as streaming, parallel pipeline and so on. Experimental results demonstrate that the deep CPU/GPU collaborative imaging method enhances the efficiency of SAR imaging on single-core CPU by 270 times and realizes the real-time imaging in that the imaging rate outperforms the raw data generation rate. PMID:27070606

Accelerating Spaceborne SAR Imaging Using Multiple CPU/GPU Deep Collaborative Computing.

PubMed

Zhang, Fan; Li, Guojun; Li, Wei; Hu, Wei; Hu, Yuxin

2016-04-07

With the development of synthetic aperture radar (SAR) technologies in recent years, the huge amount of remote sensing data brings challenges for real-time imaging processing. Therefore, high performance computing (HPC) methods have been presented to accelerate SAR imaging, especially the GPU based methods. In the classical GPU based imaging algorithm, GPU is employed to accelerate image processing by massive parallel computing, and CPU is only used to perform the auxiliary work such as data input/output (IO). However, the computing capability of CPU is ignored and underestimated. In this work, a new deep collaborative SAR imaging method based on multiple CPU/GPU is proposed to achieve real-time SAR imaging. Through the proposed tasks partitioning and scheduling strategy, the whole image can be generated with deep collaborative multiple CPU/GPU computing. In the part of CPU parallel imaging, the advanced vector extension (AVX) method is firstly introduced into the multi-core CPU parallel method for higher efficiency. As for the GPU parallel imaging, not only the bottlenecks of memory limitation and frequent data transferring are broken, but also kinds of optimized strategies are applied, such as streaming, parallel pipeline and so on. Experimental results demonstrate that the deep CPU/GPU collaborative imaging method enhances the efficiency of SAR imaging on single-core CPU by 270 times and realizes the real-time imaging in that the imaging rate outperforms the raw data generation rate.

The Role of a Reference Synthetic Data Generator within the Field of Learning Analytics

ERIC Educational Resources Information Center

Berg, Alan\tM.; Mol, Stefan T.; Kismihók, Gábor; Sclater, Niall

2016-01-01

This paper details the anticipated impact of synthetic "big" data on learning analytics (LA) infrastructures, with a particular focus on data governance, the acceleration of service development, and the benchmarking of predictive models. By reviewing two cases, one at the sector-wide level (the Jisc learning analytics architecture) and…

Synthetic generation of influenza vaccine viruses for rapid response to pandemics.

PubMed

Dormitzer, Philip R; Suphaphiphat, Pirada; Gibson, Daniel G; Wentworth, David E; Stockwell, Timothy B; Algire, Mikkel A; Alperovich, Nina; Barro, Mario; Brown, David M; Craig, Stewart; Dattilo, Brian M; Denisova, Evgeniya A; De Souza, Ivna; Eickmann, Markus; Dugan, Vivien G; Ferrari, Annette; Gomila, Raul C; Han, Liqun; Judge, Casey; Mane, Sarthak; Matrosovich, Mikhail; Merryman, Chuck; Palladino, Giuseppe; Palmer, Gene A; Spencer, Terika; Strecker, Thomas; Trusheim, Heidi; Uhlendorff, Jennifer; Wen, Yingxia; Yee, Anthony C; Zaveri, Jayshree; Zhou, Bin; Becker, Stephan; Donabedian, Armen; Mason, Peter W; Glass, John I; Rappuoli, Rino; Venter, J Craig

2013-05-15

During the 2009 H1N1 influenza pandemic, vaccines for the virus became available in large quantities only after human infections peaked. To accelerate vaccine availability for future pandemics, we developed a synthetic approach that very rapidly generated vaccine viruses from sequence data. Beginning with hemagglutinin (HA) and neuraminidase (NA) gene sequences, we combined an enzymatic, cell-free gene assembly technique with enzymatic error correction to allow rapid, accurate gene synthesis. We then used these synthetic HA and NA genes to transfect Madin-Darby canine kidney (MDCK) cells that were qualified for vaccine manufacture with viral RNA expression constructs encoding HA and NA and plasmid DNAs encoding viral backbone genes. Viruses for use in vaccines were rescued from these MDCK cells. We performed this rescue with improved vaccine virus backbones, increasing the yield of the essential vaccine antigen, HA. Generation of synthetic vaccine seeds, together with more efficient vaccine release assays, would accelerate responses to influenza pandemics through a system of instantaneous electronic data exchange followed by real-time, geographically dispersed vaccine production.

galario: Gpu Accelerated Library for Analyzing Radio Interferometer Observations

NASA Astrophysics Data System (ADS)

Tazzari, Marco; Beaujean, Frederik; Testi, Leonardo

2017-10-01

The galario library exploits the computing power of modern graphic cards (GPUs) to accelerate the comparison of model predictions to radio interferometer observations. It speeds up the computation of the synthetic visibilities given a model image (or an axisymmetric brightness profile) and their comparison to the observations.

The effect of three surface conditions, speed and running experience on vertical acceleration of the tibia during running.

PubMed

Boey, Hannelore; Aeles, Jeroen; Schütte, Kurt; Vanwanseele, Benedicte

2017-06-01

Research has focused on parameters that are associated with injury risk, e.g. vertical acceleration. These parameters can be influenced by running on different surfaces or at different running speeds, but the relationship between them is not completely clear. Understanding the relationship may result in training guidelines to reduce the injury risk. In this study, thirty-five participants with three different levels of running experience were recruited. Participants ran on three different surfaces (concrete, synthetic running track, and woodchip trail) at two different running speeds: a self-selected comfortable speed and a fixed speed of 3.06 m/s. Vertical acceleration of the lower leg was measured with an accelerometer. The vertical acceleration was significantly lower during running on the woodchip trail in comparison with the synthetic running track and the concrete, and significantly lower during running at lower speed in comparison with during running at higher speed on all surfaces. No significant differences in vertical acceleration were found between the three groups of runners at fixed speed. Higher self-selected speed due to higher performance level also did not result in higher vertical acceleration. These results may show that running on a woodchip trail and slowing down could reduce the injury risk at the tibia.

Purchase of Microwave Reactors for Implementation of Small-scale Microwave-accelerated Organic Chemistry Laboratory Program in Undergraduate Curriculum and Synthetic Chemistry Research at HU

DTIC Science & Technology

2015-05-16

synthesis of iron magnetic nanoparticles is being investigated (Appendix A; Scheme IV). In the first step, precursor iron(III) chloride nanoparticles...and other methods. Currently, we are developing a two-step scheme for the synthesis of esters that will require distillation and/or column...recognize the link between them. We are developing for the above purpose, the microwave-assisted, two-step synthesis of high boiling point esters. The

SU-E-T-144: Effective Analysis of VMAT QA Generated Trajectory Log Files for Medical Accelerator Predictive Maintenance

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

Able, CM; Baydush, AH; Nguyen, C

Purpose: To determine the effectiveness of SPC analysis for a model predictive maintenance process that uses accelerator generated parameter and performance data contained in trajectory log files. Methods: Each trajectory file is decoded and a total of 131 axes positions are recorded (collimator jaw position, gantry angle, each MLC, etc.). This raw data is processed and either axis positions are extracted at critical points during the delivery or positional change over time is used to determine axis velocity. The focus of our analysis is the accuracy, reproducibility and fidelity of each axis. A reference positional trace of the gantry andmore » each MLC is used as a motion baseline for cross correlation (CC) analysis. A total of 494 parameters (482 MLC related) were analyzed using Individual and Moving Range (I/MR) charts. The chart limits were calculated using a hybrid technique that included the use of the standard 3σ limits and parameter/system specifications. Synthetic errors/changes were introduced to determine the initial effectiveness of I/MR charts in detecting relevant changes in operating parameters. The magnitude of the synthetic errors/changes was based on: TG-142 and published analysis of VMAT delivery accuracy. Results: All errors introduced were detected. Synthetic positional errors of 2mm for collimator jaw and MLC carriage exceeded the chart limits. Gantry speed and each MLC speed are analyzed at two different points in the delivery. Simulated Gantry speed error (0.2 deg/sec) and MLC speed error (0.1 cm/sec) exceeded the speed chart limits. Gantry position error of 0.2 deg was detected by the CC maximum value charts. The MLC position error of 0.1 cm was detected by the CC maximum value location charts for every MLC. Conclusion: SPC I/MR evaluation of trajectory log file parameters may be effective in providing an early warning of performance degradation or component failure for medical accelerator systems.« less

Complex vestibular macular anatomical relationships need a synthetic approach

NASA Technical Reports Server (NTRS)

Ross, M. D.

2001-01-01

Mammalian vestibular maculae are anatomically organized for complex parallel processing of linear acceleration information. Anatomical findings in rat maculae are provided in order to underscore this complexity, which is little understood functionally. This report emphasizes that a synthetic approach is critical to understanding how maculae function and the kind of information they conduct to the brain.

Label-assisted mass spectrometry for the acceleration of reaction discovery and optimization

NASA Astrophysics Data System (ADS)

Cabrera-Pardo, Jaime R.; Chai, David I.; Liu, Song; Mrksich, Milan; Kozmin, Sergey A.

2013-05-01

The identification of new reactions expands our knowledge of chemical reactivity and enables new synthetic applications. Accelerating the pace of this discovery process remains challenging. We describe a highly effective and simple platform for screening a large number of potential chemical reactions in order to discover and optimize previously unknown catalytic transformations, thereby revealing new chemical reactivity. Our strategy is based on labelling one of the reactants with a polyaromatic chemical tag, which selectively undergoes a photoionization/desorption process upon laser irradiation, without the assistance of an external matrix, and enables rapid mass spectrometric detection of any products originating from such labelled reactants in complex reaction mixtures without any chromatographic separation. This method was successfully used for high-throughput discovery and subsequent optimization of two previously unknown benzannulation reactions.

Wind erosion potential after land application of biosolids

NASA Astrophysics Data System (ADS)

PI, H.; Sharratt, B. S.; Schillinger, W. F.; Bary, A.; Cogger, C.

2017-12-01

The world population is currently 7.6 billion and, along with continued population growth, comes the challenge of disposing of wastewater and sewage sludge (biosolids). Applying biosolids to agricultural land to replace synthetic fertilizers represents a relatively safe method to recycle or sustainably use biosolids. While land application of biosolids is recognized as a sustainable management practice for enhancing soil health, no studies have determined the effects of biosolids on soil wind erosion. Wind erosion potential of a silt loam was assessed using a portable wind tunnel after applying synthetic and biosolid fertilizer to conventional and conservation tillage practices during the summer fallow phase of a winter wheat-summer fallow rotation in 2015 and 2016 in east-central Washington. Little difference in soil loss was observed between biosolid and synthetic fertilizer treatments, but this result appeared to be dependent on susceptibility of the soil to erosion. Regression analysis between soil loss from fertilizer or tillage treatments indicated that soil loss was lower from biosolid versus synthetic fertilizer and conservation versus conventional tillage at high erosion rates. This suggests that biosolids may reduce wind erosion under highly erodible conditions. Meanwhile, heavy metal concentrations in the windblown sediment were similar for the biosolid and synthetic fertilizer treatments whereas metal loss in windblown sediment was 10% lower from biosolid than synthetic fertilizer. Our results indicate that land application of biosolids did not accelerate the loss of metals or nutrients from soils during high winds. KeywordsLand application of biosolids; wind erosion; wind tunnel; sustainable agriculture

Modeling strong‐motion recordings of the 2010 Mw 8.8 Maule, Chile, earthquake with high stress‐drop subevents and background slip

USGS Publications Warehouse

Frankel, Arthur

2017-01-01

Strong‐motion recordings of the Mw 8.8 Maule earthquake were modeled using a compound rupture model consisting of (1) a background slip distribution with large correlation lengths, relatively low slip velocity, and long peak rise time of slip of about 10 s and (2) high stress‐drop subevents (asperities) on the deeper portion of the rupture with moment magnitudes 7.9–8.2, high slip velocity, and rise times of slip of about 2 s. In this model, the high‐frequency energy is not produced in the same location as the peak coseismic slip, but is generated in the deeper part of the rupture zone. Using synthetic seismograms generated for a plane‐layered velocity model, I find that the high stress‐drop subevents explain the observed Fourier spectral amplitude from about 0.1 to 1.0 Hz. Broadband synthetics (0–10 Hz) were calculated by combining deterministic synthetics derived from the background slip and asperities (≤1  Hz) with stochastic synthetics generated only at the asperities (≥1  Hz). The broadband synthetics produced response spectral accelerations with low bias compared to the data, for periods of 0.1–10 s. A subevent stress drop of 200–350 bars for the high‐frequency stochastic synthetics was found to bracket the observed spectral accelerations at frequencies greater than 1 Hz. For most of the stations, the synthetics had durations of the Arias intensity similar to the observed records.

Polymer architectures via mass spectrometry and hyphenated techniques: A review.

PubMed

Crotty, Sarah; Gerişlioğlu, Selim; Endres, Kevin J; Wesdemiotis, Chrys; Schubert, Ulrich S

2016-08-17

This review covers the application of mass spectrometry (MS) and its hyphenated techniques to synthetic polymers of varying architectural complexities. The synthetic polymers are discussed as according to their architectural complexity from linear homopolymers and copolymers to stars, dendrimers, cyclic copolymers and other polymers. MS and tandem MS (MS/MS) has been extensively used for the analysis of synthetic polymers. However, the increase in structural or architectural complexity can result in analytical challenges that MS or MS/MS cannot overcome alone. Hyphenation to MS with different chromatographic techniques (2D × LC, SEC, HPLC etc.), utilization of other ionization methods (APCI, DESI etc.) and various mass analyzers (FT-ICR, quadrupole, time-of-flight, ion trap etc.) are applied to overcome these challenges and achieve more detailed structural characterizations of complex polymeric systems. In addition, computational methods (software: MassChrom2D, COCONUT, 2D maps etc.) have also reached polymer science to facilitate and accelerate data interpretation. Developments in technology and the comprehension of different polymer classes with diverse architectures have significantly improved, which allow for smart polymer designs to be examined and advanced. We present specific examples covering diverse analytical aspects as well as forthcoming prospects in polymer science. Copyright © 2016 Elsevier B.V. All rights reserved.

A Truncated Nuclear Norm Regularization Method Based on Weighted Residual Error for Matrix Completion.

PubMed

Qing Liu; Zhihui Lai; Zongwei Zhou; Fangjun Kuang; Zhong Jin

2016-01-01

Low-rank matrix completion aims to recover a matrix from a small subset of its entries and has received much attention in the field of computer vision. Most existing methods formulate the task as a low-rank matrix approximation problem. A truncated nuclear norm has recently been proposed as a better approximation to the rank of matrix than a nuclear norm. The corresponding optimization method, truncated nuclear norm regularization (TNNR), converges better than the nuclear norm minimization-based methods. However, it is not robust to the number of subtracted singular values and requires a large number of iterations to converge. In this paper, a TNNR method based on weighted residual error (TNNR-WRE) for matrix completion and its extension model (ETNNR-WRE) are proposed. TNNR-WRE assigns different weights to the rows of the residual error matrix in an augmented Lagrange function to accelerate the convergence of the TNNR method. The ETNNR-WRE is much more robust to the number of subtracted singular values than the TNNR-WRE, TNNR alternating direction method of multipliers, and TNNR accelerated proximal gradient with Line search methods. Experimental results using both synthetic and real visual data sets show that the proposed TNNR-WRE and ETNNR-WRE methods perform better than TNNR and Iteratively Reweighted Nuclear Norm (IRNN) methods.

Toward Engineering Synthetic Microbial Metabolism

PubMed Central

McArthur, George H.; Fong, Stephen S.

2010-01-01

The generation of well-characterized parts and the formulation of biological design principles in synthetic biology are laying the foundation for more complex and advanced microbial metabolic engineering. Improvements in de novo DNA synthesis and codon-optimization alone are already contributing to the manufacturing of pathway enzymes with improved or novel function. Further development of analytical and computer-aided design tools should accelerate the forward engineering of precisely regulated synthetic pathways by providing a standard framework for the predictable design of biological systems from well-characterized parts. In this review we discuss the current state of synthetic biology within a four-stage framework (design, modeling, synthesis, analysis) and highlight areas requiring further advancement to facilitate true engineering of synthetic microbial metabolism. PMID:20037734

Joint sparse reconstruction of multi-contrast MRI images with graph based redundant wavelet transform.

PubMed

Lai, Zongying; Zhang, Xinlin; Guo, Di; Du, Xiaofeng; Yang, Yonggui; Guo, Gang; Chen, Zhong; Qu, Xiaobo

2018-05-03

Multi-contrast images in magnetic resonance imaging (MRI) provide abundant contrast information reflecting the characteristics of the internal tissues of human bodies, and thus have been widely utilized in clinical diagnosis. However, long acquisition time limits the application of multi-contrast MRI. One efficient way to accelerate data acquisition is to under-sample the k-space data and then reconstruct images with sparsity constraint. However, images are compromised at high acceleration factor if images are reconstructed individually. We aim to improve the images with a jointly sparse reconstruction and Graph-based redundant wavelet transform (GBRWT). First, a sparsifying transform, GBRWT, is trained to reflect the similarity of tissue structures in multi-contrast images. Second, joint multi-contrast image reconstruction is formulated as a ℓ 2, 1 norm optimization problem under GBRWT representations. Third, the optimization problem is numerically solved using a derived alternating direction method. Experimental results in synthetic and in vivo MRI data demonstrate that the proposed joint reconstruction method can achieve lower reconstruction errors and better preserve image structures than the compared joint reconstruction methods. Besides, the proposed method outperforms single image reconstruction with joint sparsity constraint of multi-contrast images. The proposed method explores the joint sparsity of multi-contrast MRI images under graph-based redundant wavelet transform and realizes joint sparse reconstruction of multi-contrast images. Experiment demonstrate that the proposed method outperforms the compared joint reconstruction methods as well as individual reconstructions. With this high quality image reconstruction method, it is possible to achieve the high acceleration factors by exploring the complementary information provided by multi-contrast MRI.

Phase quality map based on local multi-unwrapped results for two-dimensional phase unwrapping.

PubMed

Zhong, Heping; Tang, Jinsong; Zhang, Sen

2015-02-01

The efficiency of a phase unwrapping algorithm and the reliability of the corresponding unwrapped result are two key problems in reconstructing the digital elevation model of a scene from its interferometric synthetic aperture radar (InSAR) or interferometric synthetic aperture sonar (InSAS) data. In this paper, a new phase quality map is designed and implemented in a graphic processing unit (GPU) environment, which greatly accelerates the unwrapping process of the quality-guided algorithm and enhances the correctness of the unwrapped result. In a local wrapped phase window, the center point is selected as the reference point, and then two unwrapped results are computed by integrating in two different simple ways. After the two local unwrapped results are computed, the total difference of the two unwrapped results is regarded as the phase quality value of the center point. In order to accelerate the computing process of the new proposed quality map, we have implemented it in a GPU environment. The wrapped phase data are first uploaded to the memory of a device, and then the kernel function is called in the device to compute the phase quality in parallel by blocks of threads. Unwrapping tests performed on the simulated and real InSAS data confirm the accuracy and efficiency of the proposed method.

Direct screening of herbal blends for new synthetic cannabinoids by MALDI-TOF MS.

PubMed

Gottardo, Rossella; Chiarini, Anna; Dal Prà, Ilaria; Seri, Catia; Rimondo, Claudia; Serpelloni, Giovanni; Armato, Ubaldo; Tagliaro, Franco

2012-01-01

Since 2004, a number of herbal blends containing different synthetic compounds mimicking the pharmacological activity of cannabinoids and displaying a high toxicological potential have appeared in the market. Their availability is mainly based on the so-called "e-commerce", being sold as legal alternatives to cannabis and cannabis derivatives. Although highly selective, sensitive, accurate, and quantitative methods based on GC-MS and LC-MS are available, they lack simplicity, rapidity, versatility and throughput, which are required for product monitoring. In this context, matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) offers a simple and rapid operation with high throughput. Thus, the aim of the present work was to develop a MALDI-TOF MS method for the rapid qualitative direct analysis of herbal blend preparations for synthetic cannabinoids to be used as front screening of confiscated clandestine preparations. The sample preparation was limited to herbal blend leaves finely grinding in a mortar and loading onto the MALDI plate followed by addition of 2 µl of the matrix/surfactant mixture [α-cyano-4-hydroxy-cinnamic acid/cetyltrimethylammonium bromide (CTAB)]. After drying, the sample plate was introduced into the ion source for analysis. MALDI-TOF conditions were as follows: mass spectra were analyzed in the range m/z 150-550 by averaging the data from 50 laser shots and using an accelerating voltage of 20 kV. The described method was successfully applied to the screening of 31 commercial herbal blends, previously analyzed by GC-MS. Among the samples analyzed, 21 contained synthetic cannabinoids (namely JWH-018, JWH-073, JWH-081, JWH-250, JWH-210, JWH-019, and AM-694). All the results were in agreement with GC-MS, which was used as the reference technique. Copyright © 2012 John Wiley & Sons, Ltd.

Assessment of the Derivative-Moment Transformation method for unsteady-load estimation

NASA Astrophysics Data System (ADS)

Mohebbian, Ali; Rival, David

2011-11-01

It is often difficult, if not impossible, to measure the aerodynamic or hydrodynamic forces on a moving body. For this reason, a classical control-volume technique is typically applied to extract the unsteady forces instead. However, measuring the acceleration term within the volume of interest using PIV can be limited by optical access, reflections as well as shadows. Therefore in this study an alternative approach, termed the Derivative-Moment Transformation (DMT) method, is introduced and tested on a synthetic data set produced using numerical simulations. The test case involves the unsteady loading of a flat plate in a two-dimensional, laminar periodic gust. The results suggest that the DMT method can accurately predict the acceleration term so long as appropriate spatial and temporal resolutions are maintained. The major deficiency was found to be the determination of pressure in the wake. The effect of control-volume size was investigated suggesting that smaller domains work best by minimizing the associated error with the pressure field. When increasing the control-volume size, the number of calculations necessary for the pressure-gradient integration increases, in turn substantially increasing the error propagation.

Fourier mode analysis of slab-geometry transport iterations in spatially periodic media

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

Larsen, E; Zika, M

1999-04-01

We describe a Fourier analysis of the diffusion-synthetic acceleration (DSA) and transport-synthetic acceleration (TSA) iteration schemes for a spatially periodic, but otherwise arbitrarily heterogeneous, medium. Both DSA and TSA converge more slowly in a heterogeneous medium than in a homogeneous medium composed of the volume-averaged scattering ratio. In the limit of a homogeneous medium, our heterogeneous analysis contains eigenvalues of multiplicity two at ''resonant'' wave numbers. In the presence of material heterogeneities, error modes corresponding to these resonant wave numbers are ''excited'' more than other error modes. For DSA and TSA, the iteration spectral radius may occur at these resonantmore » wave numbers, in which case the material heterogeneities most strongly affect iterative performance.« less

Timing of recent accelerations of Pine Island Glacier, Antarctica

USGS Publications Warehouse

Joughin, I.; Rignot, E.; Rosanova, C.E.; Lucchitta, B.K.; Bohlander, J.

2003-01-01

We have used Interferometric Synthetic Aperture Radar (InSAR) data and sequential Landsat imagery to identify and temporally constrain two acceleration events on Pine Island Glacier (PIG). These two events are separated by a period of at least seven years (1987 - 1994). The change in discharge between two flux gates indicates that the majority of the increase in discharge associated with the second acceleration originates well inland (>80 km) from the grounding line. An analysis indicates that changes in driving stress consistent with observed thinning rates are sufficient in magnitude to explain much of the acceleration.

Rational Design of an Ultrasensitive Quorum-Sensing Switch.

PubMed

Zeng, Weiqian; Du, Pei; Lou, Qiuli; Wu, Lili; Zhang, Haoqian M; Lou, Chunbo; Wang, Hongli; Ouyang, Qi

2017-08-18

One of the purposes of synthetic biology is to develop rational methods that accelerate the design of genetic circuits, saving time and effort spent on experiments and providing reliably predictable circuit performance. We applied a reverse engineering approach to design an ultrasensitive transcriptional quorum-sensing switch. We want to explore how systems biology can guide synthetic biology in the choice of specific DNA sequences and their regulatory relations to achieve a targeted function. The workflow comprises network enumeration that achieves the target function robustly, experimental restriction of the obtained candidate networks, global parameter optimization via mathematical analysis, selection and engineering of parts based on these calculations, and finally, circuit construction based on the principles of standardization and modularization. The performance of realized quorum-sensing switches was in good qualitative agreement with the computational predictions. This study provides practical principles for the rational design of genetic circuits with targeted functions.

Identification of Chemical Toxicity Using Ontology Information of Chemicals.

PubMed

Jiang, Zhanpeng; Xu, Rui; Dong, Changchun

2015-01-01

With the advance of the combinatorial chemistry, a large number of synthetic compounds have surged. However, we have limited knowledge about them. On the other hand, the speed of designing new drugs is very slow. One of the key causes is the unacceptable toxicities of chemicals. If one can correctly identify the toxicity of chemicals, the unsuitable chemicals can be discarded in early stage, thereby accelerating the study of new drugs and reducing the R&D costs. In this study, a new prediction method was built for identification of chemical toxicities, which was based on ontology information of chemicals. By comparing to a previous method, our method is quite effective. We hope that the proposed method may give new insights to study chemical toxicity and other attributes of chemicals.

Relamorelin: A Novel Gastrocolokinetic Synthetic Ghrelin Agonist

PubMed Central

Camilleri, Michael; Acosta, Andres

2015-01-01

Synthetic ghrelin agonists, predominantly small molecules, are being developed as prokinetic agents that may prove useful in the treatment of gastrointestinal motility disorders. Relamorelin (RM-131) is a pentapeptide synthetic ghrelin analog that activates the growth hormone secretagogue (GHS)-1a (also called the ghrelin) receptor with approximately 6-fold greater potency than natural ghrelin. The ability of relamorelin to stimulate growth hormone (GH) release is comparable to that of native ghrelin. Relamorelin has enhanced efficacy and plasma stability compared to native ghrelin. In this review, we discuss the pharmacokinetics, pharmacodynamics and potential indications for relamorelin. Relamorelin is administered subcutaneously, dosed daily or twice daily. Relamorelin is being studied for the treatment of patients with gastrointestinal motility disorders. Phase IIA pharmacodynamic studies have demonstrated acceleration of gastric emptying in patients with type 1 diabetes mellitus (T1DM) and type 2 DM (T2DM) and upper gastrointestinal symptoms. In a phase IIA study in patients with diabetic gastroparesis, relamorelin accelerated gastric emptying and significantly improved vomiting frequency compared to placebo and improved other symptoms of gastroparesis in a pre-specified subgroup of patients with vomiting at baseline. In patients with chronic idiopathic constipation with defined transit profile at baseline, relamorelin relieved constipation and accelerated colonic transit compared to placebo. These characteristics suggest that this new ghrelin analog shows great promise to relieve patients with upper or lower gastrointestinal motility disorders. PMID:25545036

Building biological foundries for next-generation synthetic biology.

PubMed

Chao, Ran; Yuan, YongBo; Zhao, HuiMin

2015-07-01

Synthetic biology is an interdisciplinary field that takes top-down approaches to understand and engineer biological systems through design-build-test cycles. A number of advances in this relatively young field have greatly accelerated such engineering cycles. Specifically, various innovative tools were developed for in silico biosystems design, DNA de novo synthesis and assembly, construct verification, as well as metabolite analysis, which have laid a solid foundation for building biological foundries for rapid prototyping of improved or novel biosystems. This review summarizes the state-of-the-art technologies for synthetic biology and discusses the challenges to establish such biological foundries.

Tuning calcite morphology and growth acceleration by a rational design of highly stable protein-mimetics

NASA Astrophysics Data System (ADS)

Chen, Chun-Long; Qi, Jiahui; Tao, Jinhui; Zuckermann, Ronald N.; Deyoreo, James J.

2014-09-01

In nature, proteins play a significant role in biomineral formation. One of the ultimate goals of bioinspired materials science is to develop highly stable synthetic molecules that mimic the function of these natural proteins by controlling crystal formation. Here, we demonstrate that both the morphology and the degree of acceleration or inhibition observed during growth of calcite in the presence of peptoids can be rationally tuned by balancing the electrostatic and hydrophobic interactions, with hydrophobic interactions playing the dominant role. While either strong electrostatic or hydrophobic interactions inhibit growth and reduces expression of the {104} faces, correlations between peptoid-crystal binding energies and observed changes in calcite growth indicate moderate electrostatic interactions allow peptoids to weakly adsorb while moderate hydrophobic interactions cause disruption of surface-adsorbed water layers, leading to growth acceleration with retained expression of the {104} faces. This study provides fundamental principles for designing peptoids as crystallization promoters, and offers a straightforward screening method based on macroscopic crystal morphology. Because peptoids are sequence-specific, highly stable, and easily synthesized, peptoid-enhanced crystallization offers a broad range of potential applications.

Tuning calcite morphology and growth acceleration by a rational design of highly stable protein-mimetics

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

Chen, Chunlong; Qi, Jiahui; Tao, Jinhui

2014-09-05

In nature, proteins play a significant role in biomineral formation. One of the ultimate goals of bioinspired materials science is to develop highly stable synthetic molecules that mimic the function of these natural proteins by controlling crystal formation. Here, we demonstrate that both the morphology and the degree of acceleration or inhibition observed during growth of calcite in the presence of peptoids can be rationally tuned by balancing the electrostatic interactions (EI) and hydrophobic interactions (HI), with HI playing the dominant role. While either strong EI or HI inhibit growth and suppress (104) face expression, correlations between peptoid-crystal binding energiesmore » and observed changes in calcite growth indicate moderate EI allow peptoids to weakly adsorb while moderate HI cause disruption of surface-adsorbed water layers, leading to growth acceleration with retained expression of (104) faces. This study provides fundamental principles for designing peptoids as crystallization promoters, and offers a straightforward screening method based on macroscopic crystal morphology. Because peptoids are sequence-specific, highly stable, and easily synthesized, peptoid-enhanced crystallization offers a broad range of potential applications.« less

Tuning calcite morphology and growth acceleration by a rational design of highly stable protein-mimetics

PubMed Central

Chen, Chun-Long; Qi, Jiahui; Tao, Jinhui; Zuckermann, Ronald N.; DeYoreo, James J.

2014-01-01

In nature, proteins play a significant role in biomineral formation. One of the ultimate goals of bioinspired materials science is to develop highly stable synthetic molecules that mimic the function of these natural proteins by controlling crystal formation. Here, we demonstrate that both the morphology and the degree of acceleration or inhibition observed during growth of calcite in the presence of peptoids can be rationally tuned by balancing the electrostatic and hydrophobic interactions, with hydrophobic interactions playing the dominant role. While either strong electrostatic or hydrophobic interactions inhibit growth and reduces expression of the {104} faces, correlations between peptoid-crystal binding energies and observed changes in calcite growth indicate moderate electrostatic interactions allow peptoids to weakly adsorb while moderate hydrophobic interactions cause disruption of surface-adsorbed water layers, leading to growth acceleration with retained expression of the {104} faces. This study provides fundamental principles for designing peptoids as crystallization promoters, and offers a straightforward screening method based on macroscopic crystal morphology. Because peptoids are sequence-specific, highly stable, and easily synthesized, peptoid-enhanced crystallization offers a broad range of potential applications. PMID:25189418

Microfluidic technologies for synthetic biology.

PubMed

Vinuselvi, Parisutham; Park, Seongyong; Kim, Minseok; Park, Jung Min; Kim, Taesung; Lee, Sung Kuk

2011-01-01

Microfluidic technologies have shown powerful abilities for reducing cost, time, and labor, and at the same time, for increasing accuracy, throughput, and performance in the analysis of biological and biochemical samples compared with the conventional, macroscale instruments. Synthetic biology is an emerging field of biology and has drawn much attraction due to its potential to create novel, functional biological parts and systems for special purposes. Since it is believed that the development of synthetic biology can be accelerated through the use of microfluidic technology, in this review work we focus our discussion on the latest microfluidic technologies that can provide unprecedented means in synthetic biology for dynamic profiling of gene expression/regulation with high resolution, highly sensitive on-chip and off-chip detection of metabolites, and whole-cell analysis.

Color profiles and stability of acylated and nonacylated anthocyanins as novel pigment sources in a lipstick model: A viable alternative to synthetic colorants.

PubMed

Westfall, Alexandra; Giusti, Mónica

Cosmetics, such as lipstick, can affect an individual's perception of attractiveness and morale. Consumer concern with the safety of synthetic colorants has made the need for alternative natural color sources increasingly urgent. Our goal was to evaluate the feasibility of anthocyanin (ACN) extracts as colorants in lipstick formulations. Lipstick formulations were colored with ACN-rich materials. Accelerated environmental testing typical of the cosmetic industry were used: incubation at 20°, 37°, and 45°C for 12 weeks and temperature abuse cycles between 20°/37°C or -20°/20°C. Color (CIELab) and total monomeric ACN (pH-differential) changes were monitored to determine shelf stability of the product. All formulations exhibited acceptable color for lipsticks. Shelf stability was determined to exceed 2 year based on the accelerated testing conditions. Formulations containing cyanidin as their main ACN were the most stable (elderberry, purple corn, and purple sweet potato). ACNs could be used as suitable alternatives to synthetic colorants in lipid-based topical formulations.

Simulation of FIB-SEM images for analysis of porous microstructures.

PubMed

Prill, Torben; Schladitz, Katja

2013-01-01

Focused ion beam nanotomography-scanning electron microscopy tomography yields high-quality three-dimensional images of materials microstructures at the nanometer scale combining serial sectioning using a focused ion beam with SEM. However, FIB-SEM tomography of highly porous media leads to shine-through artifacts preventing automatic segmentation of the solid component. We simulate the SEM process in order to generate synthetic FIB-SEM image data for developing and validating segmentation methods. Monte-Carlo techniques yield accurate results, but are too slow for the simulation of FIB-SEM tomography requiring hundreds of SEM images for one dataset alone. Nevertheless, a quasi-analytic description of the specimen and various acceleration techniques, including a track compression algorithm and an acceleration for the simulation of secondary electrons, cut down the computing time by orders of magnitude, allowing for the first time to simulate FIB-SEM tomography. © Wiley Periodicals, Inc.

Using machine learning to accelerate sampling-based inversion

NASA Astrophysics Data System (ADS)

Valentine, A. P.; Sambridge, M.

2017-12-01

In most cases, a complete solution to a geophysical inverse problem (including robust understanding of the uncertainties associated with the result) requires a sampling-based approach. However, the computational burden is high, and proves intractable for many problems of interest. There is therefore considerable value in developing techniques that can accelerate sampling procedures.The main computational cost lies in evaluation of the forward operator (e.g. calculation of synthetic seismograms) for each candidate model. Modern machine learning techniques-such as Gaussian Processes-offer a route for constructing a computationally-cheap approximation to this calculation, which can replace the accurate solution during sampling. Importantly, the accuracy of the approximation can be refined as inversion proceeds, to ensure high-quality results.In this presentation, we describe and demonstrate this approach-which can be seen as an extension of popular current methods, such as the Neighbourhood Algorithm, and bridges the gap between prior- and posterior-sampling frameworks.

Wet Lab Accelerator: A Web-Based Application Democratizing Laboratory Automation for Synthetic Biology.

PubMed

Bates, Maxwell; Berliner, Aaron J; Lachoff, Joe; Jaschke, Paul R; Groban, Eli S

2017-01-20

Wet Lab Accelerator (WLA) is a cloud-based tool that allows a scientist to conduct biology via robotic control without the need for any programming knowledge. A drag and drop interface provides a convenient and user-friendly method of generating biological protocols. Graphically developed protocols are turned into programmatic instruction lists required to conduct experiments at the cloud laboratory Transcriptic. Prior to the development of WLA, biologists were required to write in a programming language called "Autoprotocol" in order to work with Transcriptic. WLA relies on a new abstraction layer we call "Omniprotocol" to convert the graphical experimental description into lower level Autoprotocol language, which then directs robots at Transcriptic. While WLA has only been tested at Transcriptic, the conversion of graphically laid out experimental steps into Autoprotocol is generic, allowing extension of WLA into other cloud laboratories in the future. WLA hopes to democratize biology by bringing automation to general biologists.

Planetary Probe Entry Atmosphere Estimation Using Synthetic Air Data System

NASA Technical Reports Server (NTRS)

Karlgaard, Chris; Schoenenberger, Mark

2017-01-01

This paper develops an atmospheric state estimator based on inertial acceleration and angular rate measurements combined with an assumed vehicle aerodynamic model. The approach utilizes the full navigation state of the vehicle (position, velocity, and attitude) to recast the vehicle aerodynamic model to be a function solely of the atmospheric state (density, pressure, and winds). Force and moment measurements are based on vehicle sensed accelerations and angular rates. These measurements are combined with an aerodynamic model and a Kalman-Schmidt filter to estimate the atmospheric conditions. The new method is applied to data from the Mars Science Laboratory mission, which landed the Curiosity rover on the surface of Mars in August 2012. The results of the new estimation algorithm are compared with results from a Flush Air Data Sensing algorithm based on onboard pressure measurements on the vehicle forebody. The comparison indicates that the new proposed estimation method provides estimates consistent with the air data measurements, without the use of pressure measurements. Implications for future missions such as the Mars 2020 entry capsule are described.

Programming languages for synthetic biology.

PubMed

Umesh, P; Naveen, F; Rao, Chanchala Uma Maheswara; Nair, Achuthsankar S

2010-12-01

In the backdrop of accelerated efforts for creating synthetic organisms, the nature and scope of an ideal programming language for scripting synthetic organism in-silico has been receiving increasing attention. A few programming languages for synthetic biology capable of defining, constructing, networking, editing and delivering genome scale models of cellular processes have been recently attempted. All these represent important points in a spectrum of possibilities. This paper introduces Kera, a state of the art programming language for synthetic biology which is arguably ahead of similar languages or tools such as GEC, Antimony and GenoCAD. Kera is a full-fledged object oriented programming language which is tempered by biopart rule library named Samhita which captures the knowledge regarding the interaction of genome components and catalytic molecules. Prominent feature of the language are demonstrated through a toy example and the road map for the future development of Kera is also presented.

Microfluidic Technologies for Synthetic Biology

PubMed Central

Vinuselvi, Parisutham; Park, Seongyong; Kim, Minseok; Park, Jung Min; Kim, Taesung; Lee, Sung Kuk

2011-01-01

Microfluidic technologies have shown powerful abilities for reducing cost, time, and labor, and at the same time, for increasing accuracy, throughput, and performance in the analysis of biological and biochemical samples compared with the conventional, macroscale instruments. Synthetic biology is an emerging field of biology and has drawn much attraction due to its potential to create novel, functional biological parts and systems for special purposes. Since it is believed that the development of synthetic biology can be accelerated through the use of microfluidic technology, in this review work we focus our discussion on the latest microfluidic technologies that can provide unprecedented means in synthetic biology for dynamic profiling of gene expression/regulation with high resolution, highly sensitive on-chip and off-chip detection of metabolites, and whole-cell analysis. PMID:21747695

Fluid-Structure Interactions with Flexible and Rigid Bodies

NASA Astrophysics Data System (ADS)

Daily, David Jesse

Fluid structure interactions occur to some extent in nearly every type of fluid flow. Understanding how structures interact with fluids and visa-versa is of vital importance in many engineering applications. The purpose of this research is to explore how fluids interact with flexible and rigid structures. A computational model was used to model the fluid structure interactions of vibrating synthetic vocal folds. The model simulated the coupling of the fluid and solid domains using a fluid-structure interface boundary condition. The fluid domain used a slightly compressible flow solver to allow for the possibility of acoustic coupling with the subglottal geometry and vibration of the vocal fold model. As the subglottis lengthened, the frequency of vibration decreased until a new acoustic mode could form in the subglottis. Synthetic aperture particle image velocimetry (SAPIV) is a three-dimensional particle tracking technique. SAPIV was used to image the jet of air that emerges from vibrating human vocal folds (glottal jet) during phonation. The three-dimensional reconstruction of the glottal jet found faint evidence of flow characteristics seen in previous research, such as axis-switching, but did not have sufficient resolution to detect small features. SAPIV was further applied to reconstruct the smaller flow characteristics of the glottal jet of vibrating synthetic vocal folds. Two- and four-layer synthetic vocal fold models were used to determine how the glottal jet from the synthetic models compared to the glottal jet from excised human vocal folds. The two- and four-layer models clearly exhibited axis-switching which has been seen in other 3D analyses of the glottal jet. Cavitation in a quiescent fluid can break a rigid structure such as a glass bottle. A new cavitation number was derived to include acceleration and pressure head at cavitation onset. A cavitation stick was used to validate the cavitation number by filling it with different depths and hitting the stick to cause fluid cavitation. Acceleration was measured using an accelerometer and cavitation bubbles were detected using a high-speed camera. Cavitation in an accelerating fluid occurred at a cavitation number of 1. Keywords: Fluid structure interaction, vocal folds, acoustics, SAPIV, cavitation, slightly compressible

Analytical computation of three-dimensional synthetic seismograms by Modal Summation: method, validation and applications

NASA Astrophysics Data System (ADS)

La Mura, Cristina; Gholami, Vahid; Panza, Giuliano F.

2013-04-01

In order to enable realistic and reliable earthquake hazard assessment and reliable estimation of the ground motion response to an earthquake, three-dimensional velocity models have to be considered. The propagation of seismic waves in complex laterally varying 3D layered structures is a complicated process. Analytical solutions of the elastodynamic equations for such types of media are not known. The most common approaches to the formal description of seismic wavefields in such complex structures are methods based on direct numerical solutions of the elastodynamic equations, e.g. finite-difference, finite-element method, and approximate asymptotic methods. In this work, we present an innovative methodology for computing synthetic seismograms, complete of the main direct, refracted, converted phases and surface waves in three-dimensional anelastic models based on the combination of the Modal Summation technique with the Asymptotic Ray Theory in the framework of the WKBJ - approximation. The three - dimensional models are constructed using a set of vertically heterogeneous sections (1D structures) that are juxtaposed on a regular grid. The distribution of these sections in the grid is done in such a way to fulfill the requirement of weak lateral inhomogeneity in order to satisfy the condition of applicability of the WKBJ - approximation, i.e. the lateral gradient of the parameters characterizing the 1D structure has to be small with respect to the prevailing wavelength. The new method has been validated comparing synthetic seismograms with the records available of three different earthquakes in three different regions: Kanto basin (Japan) triggered by the 1990 Odawara earthquake Mw= 5.1, Romanian territory triggered by the 30 May 1990 Vrancea intermediate-depth earthquake Mw= 6.9 and Iranian territory affected by the 26 December 2003 Bam earthquake Mw= 6.6. Besides the advantage of being a useful tool for assessment of seismic hazard and seismic risk reduction, it is characterized by high efficiency, in fact, once the study region is identified and the 3D model is constructed, the computation, at each station, of the three components of the synthetic signal (displacement, velocity, and acceleration) takes less than 3 hours on a 2 GHz CPU.

Real-Time Spaceborne Synthetic Aperture Radar Float-Point Imaging System Using Optimized Mapping Methodology and a Multi-Node Parallel Accelerating Technique

PubMed Central

Li, Bingyi; Chen, Liang; Yu, Wenyue; Xie, Yizhuang; Bian, Mingming; Zhang, Qingjun; Pang, Long

2018-01-01

With the development of satellite load technology and very large-scale integrated (VLSI) circuit technology, on-board real-time synthetic aperture radar (SAR) imaging systems have facilitated rapid response to disasters. A key goal of the on-board SAR imaging system design is to achieve high real-time processing performance under severe size, weight, and power consumption constraints. This paper presents a multi-node prototype system for real-time SAR imaging processing. We decompose the commonly used chirp scaling (CS) SAR imaging algorithm into two parts according to the computing features. The linearization and logic-memory optimum allocation methods are adopted to realize the nonlinear part in a reconfigurable structure, and the two-part bandwidth balance method is used to realize the linear part. Thus, float-point SAR imaging processing can be integrated into a single Field Programmable Gate Array (FPGA) chip instead of relying on distributed technologies. A single-processing node requires 10.6 s and consumes 17 W to focus on 25-km swath width, 5-m resolution stripmap SAR raw data with a granularity of 16,384 × 16,384. The design methodology of the multi-FPGA parallel accelerating system under the real-time principle is introduced. As a proof of concept, a prototype with four processing nodes and one master node is implemented using a Xilinx xc6vlx315t FPGA. The weight and volume of one single machine are 10 kg and 32 cm × 24 cm × 20 cm, respectively, and the power consumption is under 100 W. The real-time performance of the proposed design is demonstrated on Chinese Gaofen-3 stripmap continuous imaging. PMID:29495637

A living foundry for Synthetic Biological Materials: A synthetic biology roadmap to new advanced materials.

PubMed

Le Feuvre, Rosalind A; Scrutton, Nigel S

2018-06-01

Society is on the cusp of harnessing recent advances in synthetic biology to discover new bio-based products and routes to their affordable and sustainable manufacture. This is no more evident than in the discovery and manufacture of Synthetic Biological Materials , where synthetic biology has the capacity to usher in a new Materials from Biology era that will revolutionise the discovery and manufacture of innovative synthetic biological materials. These will encompass novel, smart, functionalised and hybrid materials for diverse applications whose discovery and routes to bio-production will be stimulated by the fusion of new technologies positioned across physical, digital and biological spheres. This article, which developed from an international workshop held in Manchester, United Kingdom, in 2017 [1], sets out to identify opportunities in the new materials from biology era. It considers requirements, early understanding and foresight of the challenges faced in delivering a Discovery to Manufacturing Pipeline for synthetic biological materials using synthetic biology approaches. This challenge spans the complete production cycle from intelligent and predictive design, fabrication, evaluation and production of synthetic biological materials to new ways of bringing these products to market. Pathway opportunities are identified that will help foster expertise sharing and infrastructure development to accelerate the delivery of a new generation of synthetic biological materials and the leveraging of existing investments in synthetic biology and advanced materials research to achieve this goal.

Lebedev acceleration and comparison of different photometric models in the inversion of lightcurves for asteroids

NASA Astrophysics Data System (ADS)

Lu, Xiao-Ping; Huang, Xiang-Jie; Ip, Wing-Huen; Hsia, Chi-Hao

2018-04-01

In the lightcurve inversion process where asteroid's physical parameters such as rotational period, pole orientation and overall shape are searched, the numerical calculations of the synthetic photometric brightness based on different shape models are frequently implemented. Lebedev quadrature is an efficient method to numerically calculate the surface integral on the unit sphere. By transforming the surface integral on the Cellinoid shape model to that on the unit sphere, the lightcurve inversion process based on the Cellinoid shape model can be remarkably accelerated. Furthermore, Matlab codes of the lightcurve inversion process based on the Cellinoid shape model are available on Github for free downloading. The photometric models, i.e., the scattering laws, also play an important role in the lightcurve inversion process, although the shape variations of asteroids dominate the morphologies of the lightcurves. Derived from the radiative transfer theory, the Hapke model can describe the light reflectance behaviors from the viewpoint of physics, while there are also many empirical models in numerical applications. Numerical simulations are implemented for the comparison of the Hapke model with the other three numerical models, including the Lommel-Seeliger, Minnaert, and Kaasalainen models. The results show that the numerical models with simple function expressions can fit well with the synthetic lightcurves generated based on the Hapke model; this good fit implies that they can be adopted in the lightcurve inversion process for asteroids to improve the numerical efficiency and derive similar results to those of the Hapke model.

Development, characterization, and evaluation of sunscreen cream containing solid lipid nanoparticles of silymarin.

PubMed

Netto MPharm, Gladyston; Jose, Jobin

2017-12-10

Most of the sunscreen formulations mainly contain chemicals or synthetic molecules. Nowadays, researchers are mainly focussing on herbal formulations due to toxicity of the synthetic molecules. Silymarin is a natural flavonoids having excellent antioxidant properties. Solid lipid nanoparticles are novel drug carriers which improve the drug stability and tolerance effect and also enhance the permeation effect. This study aimed at the preparation of solid lipid nanoparticles containing silymarin that will be incorporated into a sunscreen cream and determine its sun protection factor. The solid lipid nanoparticles were prepared by micro-emulsion method; here, the glyceryl monostearate was used as lipid, and Tween 80 was used as an emulsifier. The solid lipid nanoparticles were evaluated for drug entrapment, particle size and morphology, zeta potential, and polydispersity index. The dispersion was formulated into sunscreen cream and evaluated for various parameters, such as extrudability, viscosity, spreadability, drug content, in vitro drug release, ex vivo permeation of drug, in vitro and in vivo sun protection factor determination, in vivo skin irritation test, and accelerated stability studies. The results suggested that as the concentration of emulsifier increased, the entrapment efficiency of silymarin increased. In vitro and in vivo sun protection factor determination showed that SPF of 13.80 and 14.1, respectively. Stability studies were performed under accelerated conditions, and it did not show any appreciable change in parameters. These results indicated that the sunscreen containing silymarin solid lipid nanoparticles exhibited better photoprotective action. © 2017 Wiley Periodicals, Inc.

Benzalkonium chloride accelerates the formation of the amyloid fibrils of corneal dystrophy-associated peptides.

PubMed

Kato, Yusuke; Yagi, Hisashi; Kaji, Yuichi; Oshika, Tetsuro; Goto, Yuji

2013-08-30

Corneal dystrophies are genetic disorders resulting in progressive corneal clouding due to the deposition of amyloid fibrils derived from keratoepithelin, also called transforming growth factor β-induced protein (TGFBI). The formation of amyloid fibrils is often accelerated by surfactants such as sodium dodecyl sulfate (SDS). Most eye drops contain benzalkonium chloride (BAC), a cationic surfactant, as a preservative substance. In the present study, we aimed to reveal the role of BAC in the amyloid fibrillation of keratoepithelin-derived peptides in vitro. We used three types of 22-residue synthetic peptides covering Leu110-Glu131 of the keratoepithelin sequence: an R-type peptide with wild-type R124, a C-type peptide with C124 associated with lattice corneal dystrophy type I, and a H-type peptide with H124 associated with granular corneal dystrophy type II. The time courses of spontaneous amyloid fibrillation and seed-dependent fibril elongation were monitored in the presence of various concentrations of BAC or SDS using thioflavin T fluorescence. BAC and SDS accelerated the fibrillation of all synthetic peptides in the absence and presence of seeds. Optimal acceleration occurred near the CMC, which suggests that the unstable and dynamic interactions of keratoepithelin peptides with amphipathic surfactants led to the formation of fibrils. These results suggest that eye drops containing BAC may deteriorate corneal dystrophies and that those without BAC are preferred especially for patients with corneal dystrophies.

Continuous Wavelet Transform Analysis of Acceleration Signals Measured from a Wave Buoy

PubMed Central

Chuang, Laurence Zsu-Hsin; Wu, Li-Chung; Wang, Jong-Hao

2013-01-01

Accelerometers, which can be installed inside a floating platform on the sea, are among the most commonly used sensors for operational ocean wave measurements. To examine the non-stationary features of ocean waves, this study was conducted to derive a wavelet spectrum of ocean waves and to synthesize sea surface elevations from vertical acceleration signals of a wave buoy through the continuous wavelet transform theory. The short-time wave features can be revealed by simultaneously examining the wavelet spectrum and the synthetic sea surface elevations. The in situ wave signals were applied to verify the practicality of the wavelet-based algorithm. We confirm that the spectral leakage and the noise at very-low-frequency bins influenced the accuracies of the estimated wavelet spectrum and the synthetic sea surface elevations. The appropriate thresholds of these two factors were explored. To study the short-time wave features from the wave records, the acceleration signals recorded from an accelerometer inside a discus wave buoy are analysed. The results from the wavelet spectrum show the evidence of short-time nonlinear wave events. Our study also reveals that more surface profiles with higher vertical asymmetry can be found from short-time nonlinear wave with stronger harmonic spectral peak. Finally, we conclude that the algorithms of continuous wavelet transform are practical for revealing the short-time wave features of the buoy acceleration signals. PMID:23966188

Three-dimensional ground-motion simulations of earthquakes for the Hanford area, Washington

USGS Publications Warehouse

Frankel, Arthur; Thorne, Paul; Rohay, Alan

2014-01-01

This report describes the results of ground-motion simulations of earthquakes using three-dimensional (3D) and one-dimensional (1D) crustal models conducted for the probabilistic seismic hazard assessment (PSHA) of the Hanford facility, Washington, under the Senior Seismic Hazard Analysis Committee (SSHAC) guidelines. The first portion of this report demonstrates that the 3D seismic velocity model for the area produces synthetic seismograms with characteristics (spectral response values, duration) that better match those of the observed recordings of local earthquakes, compared to a 1D model with horizontal layers. The second part of the report compares the response spectra of synthetics from 3D and 1D models for moment magnitude (M) 6.6–6.8 earthquakes on three nearby faults and for a dipping plane wave source meant to approximate regional S-waves from a Cascadia great earthquake. The 1D models are specific to each site used for the PSHA. The use of the 3D model produces spectral response accelerations at periods of 0.5–2.0 seconds as much as a factor of 4.5 greater than those from the 1D models for the crustal fault sources. The spectral accelerations of the 3D synthetics for the Cascadia plane-wave source are as much as a factor of 9 greater than those from the 1D models. The differences between the spectral accelerations for the 3D and 1D models are most pronounced for sites with thicker supra-basalt sediments and for stations with earthquakes on the Rattlesnake Hills fault and for the Cascadia plane-wave source.

Perception and performance in flight simulators: The contribution of vestibular, visual, and auditory information

NASA Technical Reports Server (NTRS)

1979-01-01

The pilot's perception and performance in flight simulators is examined. The areas investigated include: vestibular stimulation, flight management and man cockpit information interfacing, and visual perception in flight simulation. The effects of higher levels of rotary acceleration on response time to constant acceleration, tracking performance, and thresholds for angular acceleration are examined. Areas of flight management examined are cockpit display of traffic information, work load, synthetic speech call outs during the landing phase of flight, perceptual factors in the use of a microwave landing system, automatic speech recognition, automation of aircraft operation, and total simulation of flight training.

Accelerated Senescence and Enhanced Disease Resistance in Hybrid Chlorosis Lines Derived from Interspecific Crosses between Tetraploid Wheat and Aegilops tauschii

PubMed Central

Tosa, Yukio; Yoshida, Kentaro; Park, Pyoyun; Takumi, Shigeo

2015-01-01

Hybrid chlorosis, a type of hybrid incompatibility, has frequently been reported in inter- and intraspecific crosses of allopolyploid wheat. In a previous study, we reported some types of growth abnormalities such as hybrid necrosis and observed hybrid chlorosis with mild or severe abnormalities in wheat triploids obtained in crosses between tetraploid wheat cultivar Langdon and four Ae. tauschii accessions and in their derived synthetic hexaploids. However, the molecular mechanisms underlying hybrid chlorosis are not well understood. Here, we compared cytology and gene expression in leaves to characterize the abnormal growth in wheat synthetics showing mild and severe chlorosis. In addition, we compared disease resistance to wheat blast fungus. In total 55 and 105 genes related to carbohydrate metabolism and 53 and 89 genes for defense responses were markedly up-regulated in the mild and severe chlorosis lines, respectively. Abnormal chloroplasts formed in the mesophyll cells before the leaves yellowed in the hybrid chlorosis lines. The plants with mild chlorosis showed increased resistance to wheat blast and powdery mildew fungi, although significant differences only in two, third internode length and maturation time, out of the examined agricultural traits were found between the wild type and plants showing mild chlorosis. These observations suggest that senescence might be accelerated in hybrid chlorosis lines of wheat synthetics. Moreover, in wheat synthetics showing mild chlorosis, the negative effects on biomass can be minimized, and they may show substantial fitness under pathogen-polluted conditions. PMID:25806790

Facile synthesis and shape evolution of oleic acid decorated Cu2O microcrystals

NASA Astrophysics Data System (ADS)

Xu, Bin; Cao, Xiaohai; Zhu, Bingchun; Lou, Baiyang; Ma, Xiaocun; Li, Xiao; Wang, Yuguang

2015-11-01

A facile synthetic method of oleic acid decorated Cu2O microcrystals has been developed by thermal decomposition of copper formate-octylamine complexes in paraffin using oleic acid as dispersing agent. This new method showed many advantages, which include free-reducing agent, enhancing antioxidant properties of Cu2O and good dispersity in paraffin, etc. The phase structure and morphology were investigated by means of XRD, SEM and TEM. It is found that the reaction time and temperature play the important roles in the crystallite morphology. With the increase of the reaction time, the Cu2O rhombic dodecahedron is gradually transformed into the spherical particle by intraparticle ripening. The shape evolution of Cu2O microcrystals can be accelerated with the increase of temperature.

Efficient Synthesis of MCu (M = Pd, Pt, and Au) Aerogels with Accelerated Gelation Kinetics and their High Electrocatalytic Activity.

PubMed

Zhu, Chengzhou; Shi, Qiurong; Fu, Shaofang; Song, Junhua; Xia, Haibing; Du, Dan; Lin, Yuehe

2016-10-01

To accelerate hydrogel formation and further simplify the synthetic procedure, a series of MCu (M = Pd, Pt, and Au) bimetallic aerogels is synthesized from the in situ reduction of metal precursors through enhancement of the gelation kinetics at elevated temperature. Moreover, the resultant PdCu aerogel with ultrathin nanowire networks exhibits excellent electrocatalytic performance toward ethanol oxidation, holding promise in fuel-cell applications. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Engineering plant metabolism into microbes: from systems biology to synthetic biology.

PubMed

Xu, Peng; Bhan, Namita; Koffas, Mattheos A G

2013-04-01

Plant metabolism represents an enormous repository of compounds that are of pharmaceutical and biotechnological importance. Engineering plant metabolism into microbes will provide sustainable solutions to produce pharmaceutical and fuel molecules that could one day replace substantial portions of the current fossil-fuel based economy. Metabolic engineering entails targeted manipulation of biosynthetic pathways to maximize yields of desired products. Recent advances in Systems Biology and the emergence of Synthetic Biology have accelerated our ability to design, construct and optimize cell factories for metabolic engineering applications. Progress in predicting and modeling genome-scale metabolic networks, versatile gene assembly platforms and delicate synthetic pathway optimization strategies has provided us exciting opportunities to exploit the full potential of cell metabolism. In this review, we will discuss how systems and synthetic biology tools can be integrated to create tailor-made cell factories for efficient production of natural products and fuel molecules in microorganisms. Copyright © 2012 Elsevier Ltd. All rights reserved.

Layered double hydroxides as the next generation inorganic anion exchangers: Synthetic methods versus applicability.

PubMed

Chubar, Natalia; Gilmour, Robert; Gerda, Vasyl; Mičušík, Matej; Omastova, Maria; Heister, Katja; Man, Pascal; Fraissard, Jacques; Zaitsev, Vladimir

2017-07-01

This work is the first report that critically reviews the properties of layered double hydroxides (LDHs) on the level of speciation in the context of water treatment application and dynamic adsorption conditions, as well as the first report to associate these properties with the synthetic methods used for LDH preparation. Increasingly stronger maximum allowable concentrations (MAC) of various contaminants in drinking water and liquid foodstuffs require regular upgrades of purification technologies, which might also be useful in the extraction of valuable substances for reuse in accordance with modern sustainability strategies. Adsorption is the main separation technology that allows the selective extraction of target substances from multicomponent solutions. Inorganic anion exchangers arrived in the water business relatively recently to achieve the newly approved standards for arsenic levels in drinking water. LDHs (or hydrotalcites, HTs) are theoretically the best anion exchangers due to their potential to host anions in their interlayer space, which increases their anion removal capacity considerably. This potential of the interlayer space to host additional amounts of target aqueous anions makes the LDHs superior to bulk anion exchanger. The other unique advantage of these layered materials is the flexibility of the chemical composition of the metal oxide-based layers and the interlayer anions. However, until now, this group of "classical" anion exchangers has not found its industrial application in adsorption and catalysis at the industrial scale. To accelerate application of LDHs in water treatment on the industrial scale, the authors critically reviewed recent scientific and technological knowledge on the properties and adsorptive removal of LDHs from water on the fundamental science level. This also includes review of the research tools useful to reveal the adsorption mechanism and the material properties beyond the nanoscale. Further, these properties are considered in association with the synthetic methods by which the LDHs were produced. Special attention is paid to the LDH properties that are particularly relevant to water treatment, such as exchangeability ease of the interlayer anions and the LDH stability at the solid-water interface. Notably, the LDH properties (e.g., rich speciation, hydration, and the exchangeability ease of the interlayer anions with aqueous anions) are considered in the synthetic strategy context applied to the material preparation. One such promising synthetic method has been developed by the authors who supported their opinions by the unpublished data in addition to reviewing the literature. The reviewing approach allowed for establishing regularities between the parameters: the LDH synthetic method-structure/surface/interlayer-removal-suitability for water treatment. Specifically, this approach allowed for a conclusion about either the unsuitability or promising potential of some synthetic methods (or the removal approaches) used for the preparation of LDHs for water purification at larger scales. The overall reviewing approach undertaken by the authors in this work mainly complements the other reviews on LDHs (published over the past seven to eight years) and for the first time compares the properties of these materials beyond the nanoscale. Copyright © 2017 Elsevier B.V. All rights reserved.

SOLVENT-FREE ALTERNATIVES TO ORGANIC SYNTHESES USING MICROWAVES

EPA Science Inventory

Microwave irradiation has been used for a variety of synthetic transformations wherein chemical reactions are accelerated because of selective adsorption of microwave (MW) energy by polar molecules, non-polar molecules being inert to the MW dielectric loss. The application of mic...

Single Day Construction of Multigene Circuits with 3G Assembly.

PubMed

Halleran, Andrew D; Swaminathan, Anandh; Murray, Richard M

2018-05-18

The ability to rapidly design, build, and test prototypes is of key importance to every engineering discipline. DNA assembly often serves as a rate limiting step of the prototyping cycle for synthetic biology. Recently developed DNA assembly methods such as isothermal assembly and type IIS restriction enzyme systems take different approaches to accelerate DNA construction. We introduce a hybrid method, Golden Gate-Gibson (3G), that takes advantage of modular part libraries introduced by type IIS restriction enzyme systems and isothermal assembly's ability to build large DNA constructs in single pot reactions. Our method is highly efficient and rapid, facilitating construction of entire multigene circuits in a single day. Additionally, 3G allows generation of variant libraries enabling efficient screening of different possible circuit constructions. We characterize the efficiency and accuracy of 3G assembly for various construct sizes, and demonstrate 3G by characterizing variants of an inducible cell-lysis circuit.

Ligand-accelerated non-directed C-H functionalization of arenes.

PubMed

Wang, Peng; Verma, Pritha; Xia, Guoqin; Shi, Jun; Qiao, Jennifer X; Tao, Shiwei; Cheng, Peter T W; Poss, Michael A; Farmer, Marcus E; Yeung, Kap-Sun; Yu, Jin-Quan

2017-11-22

The directed activation of carbon-hydrogen bonds (C-H) is important in the development of synthetically useful reactions, owing to the proximity-induced reactivity and selectivity that is enabled by coordinating functional groups. Palladium-catalysed non-directed C-H activation could potentially enable further useful reactions, because it can reach more distant sites and be applied to substrates that do not contain appropriate directing groups; however, its development has faced substantial challenges associated with the lack of sufficiently active palladium catalysts. Currently used palladium catalysts are reactive only with electron-rich arenes, unless an excess of arene is used, which limits synthetic applications. Here we report a 2-pyridone ligand that binds to palladium and accelerates non-directed C-H functionalization with arene as the limiting reagent. This protocol is compatible with a broad range of aromatic substrates and we demonstrate direct functionalization of advanced synthetic intermediates, drug molecules and natural products that cannot be used in excessive quantities. We also developed C-H olefination and carboxylation protocols, demonstrating the applicability of our methodology to other transformations. The site selectivity in these transformations is governed by a combination of steric and electronic effects, with the pyridone ligand enhancing the influence of sterics on the selectivity, thus providing complementary selectivity to directed C-H functionalization.

Ligand-accelerated non-directed C-H functionalization of arenes

NASA Astrophysics Data System (ADS)

Wang, Peng; Verma, Pritha; Xia, Guoqin; Shi, Jun; Qiao, Jennifer X.; Tao, Shiwei; Cheng, Peter T. W.; Poss, Michael A.; Farmer, Marcus E.; Yeung, Kap-Sun; Yu, Jin-Quan

2017-11-01

The directed activation of carbon-hydrogen bonds (C-H) is important in the development of synthetically useful reactions, owing to the proximity-induced reactivity and selectivity that is enabled by coordinating functional groups. Palladium-catalysed non-directed C-H activation could potentially enable further useful reactions, because it can reach more distant sites and be applied to substrates that do not contain appropriate directing groups; however, its development has faced substantial challenges associated with the lack of sufficiently active palladium catalysts. Currently used palladium catalysts are reactive only with electron-rich arenes, unless an excess of arene is used, which limits synthetic applications. Here we report a 2-pyridone ligand that binds to palladium and accelerates non-directed C-H functionalization with arene as the limiting reagent. This protocol is compatible with a broad range of aromatic substrates and we demonstrate direct functionalization of advanced synthetic intermediates, drug molecules and natural products that cannot be used in excessive quantities. We also developed C-H olefination and carboxylation protocols, demonstrating the applicability of our methodology to other transformations. The site selectivity in these transformations is governed by a combination of steric and electronic effects, with the pyridone ligand enhancing the influence of sterics on the selectivity, thus providing complementary selectivity to directed C-H functionalization.

Immobilization methods for the rapid total chemical synthesis of proteins on microtiter plates.

PubMed

Zitterbart, Robert; Krumrey, Michael; Seitz, Oliver

2017-07-01

The chemical synthesis of proteins typically involves the solid-phase peptide synthesis of unprotected peptide fragments that are stitched together in solution by native chemical ligation (NCL). The process is slow, and throughput is limited because of the need for repeated high performance liquid chromatography purification steps after both solid-phase peptide synthesis and NCL. With an aim to provide faster access to functional proteins and to accelerate the functional analysis of synthetic proteins by parallelization, we developed a method for the high performance liquid chromatography-free synthesis of proteins on the surface of microtiter plates. The method relies on solid-phase synthesis of unprotected peptide fragments, immobilization of the C-terminal fragment and on-surface NCL with an unprotected peptide thioester in crude form. Herein, we describe the development of a suitable immobilization chemistry. We compared (i) formation of nickel(II)-oligohistidine complexes, (ii) Cu-based [2 + 3] alkine-azide cycloaddition and (iii) hydrazone ligation. The comparative study identified the hydrazone ligation as most suitable. The sequence of immobilization via hydrazone ligation, on-surface NCL and radical desulfurization furnished the targeted SH3 domains in near quantitative yield. The synthetic proteins were functional as demonstrated by an on-surface fluorescence-based saturation binding analysis. Copyright © 2017 European Peptide Society and John Wiley & Sons, Ltd. Copyright © 2017 European Peptide Society and John Wiley & Sons, Ltd.

Novel shock absorber features varying yield strengths

NASA Technical Reports Server (NTRS)

Geier, D. J.

1964-01-01

A shock absorbent webbing of partially drawn synthetic strands is arranged in sections of varying density related to the varying mass of the human body. This is contoured to protect the body at points of contact, when subjected to large acceleration or deceleration forces.

Accelerate synthesis in ecology and environmental sciences

USDA-ARS?s Scientific Manuscript database

Synthesis of diverse knowledge is a central part of all sciences, but especially those such as ecology and environmental sciences which draw information from many disciplines. Research and education in ecology are intrinsically synthetic, and synthesis is increasingly needed to find solutions for en...

Benzalkonium Chloride Accelerates the Formation of the Amyloid Fibrils of Corneal Dystrophy-associated Peptides*

PubMed Central

Kato, Yusuke; Yagi, Hisashi; Kaji, Yuichi; Oshika, Tetsuro; Goto, Yuji

2013-01-01

Corneal dystrophies are genetic disorders resulting in progressive corneal clouding due to the deposition of amyloid fibrils derived from keratoepithelin, also called transforming growth factor β-induced protein (TGFBI). The formation of amyloid fibrils is often accelerated by surfactants such as sodium dodecyl sulfate (SDS). Most eye drops contain benzalkonium chloride (BAC), a cationic surfactant, as a preservative substance. In the present study, we aimed to reveal the role of BAC in the amyloid fibrillation of keratoepithelin-derived peptides in vitro. We used three types of 22-residue synthetic peptides covering Leu110-Glu131 of the keratoepithelin sequence: an R-type peptide with wild-type R124, a C-type peptide with C124 associated with lattice corneal dystrophy type I, and a H-type peptide with H124 associated with granular corneal dystrophy type II. The time courses of spontaneous amyloid fibrillation and seed-dependent fibril elongation were monitored in the presence of various concentrations of BAC or SDS using thioflavin T fluorescence. BAC and SDS accelerated the fibrillation of all synthetic peptides in the absence and presence of seeds. Optimal acceleration occurred near the CMC, which suggests that the unstable and dynamic interactions of keratoepithelin peptides with amphipathic surfactants led to the formation of fibrils. These results suggest that eye drops containing BAC may deteriorate corneal dystrophies and that those without BAC are preferred especially for patients with corneal dystrophies. PMID:23861389

Synthetic Biology and the Translational Imperative.

PubMed

Heidari Feidt, Raheleh; Ienca, Marcello; Elger, Bernice Simone; Folcher, Marc

2017-12-18

Advances at the interface between the biological sciences and engineering are giving rise to emerging research fields such as synthetic biology. Harnessing the potential of synthetic biology requires timely and adequate translation into clinical practice. However, the translational research enterprise is currently facing fundamental obstacles that slow down the transition of scientific discoveries from the laboratory to the patient bedside. These obstacles including scarce financial resources and deficiency of organizational and logistic settings are widely discussed as primary impediments to translational research. In addition, a number of socio-ethical considerations inherent in translational research need to be addressed. As the translational capacity of synthetic biology is tightly linked to its social acceptance and ethical approval, ethical limitations may-together with financial and organizational problems-be co-determinants of suboptimal translation. Therefore, an early assessment of such limitations will contribute to proactively favor successful translation and prevent the promising potential of synthetic biology from remaining under-expressed. Through the discussion of two case-specific inventions in synthetic biology and their associated ethical implications, we illustrate the socio-ethical challenges ahead in the process of implementing synthetic biology into clinical practice. Since reducing the translational lag is essential for delivering the benefits of basic biomedical research to society at large and promoting global health, we advocate a moral obligation to accelerating translational research: the "translational imperative."

Synthetic biology advances and applications in the biotechnology industry: a perspective.

PubMed

Katz, Leonard; Chen, Yvonne Y; Gonzalez, Ramon; Peterson, Todd C; Zhao, Huimin; Baltz, Richard H

2018-06-18

Synthetic biology is a logical extension of what has been called recombinant DNA (rDNA) technology or genetic engineering since the 1970s. As rDNA technology has been the driver for the development of a thriving biotechnology industry today, starting with the commercialization of biosynthetic human insulin in the early 1980s, synthetic biology has the potential to take the industry to new heights in the coming years. Synthetic biology advances have been driven by dramatic cost reductions in DNA sequencing and DNA synthesis; by the development of sophisticated tools for genome editing, such as CRISPR/Cas9; and by advances in informatics, computational tools, and infrastructure to facilitate and scale analysis and design. Synthetic biology approaches have already been applied to the metabolic engineering of microorganisms for the production of industrially important chemicals and for the engineering of human cells to treat medical disorders. It also shows great promise to accelerate the discovery and development of novel secondary metabolites from microorganisms through traditional, engineered, and combinatorial biosynthesis. We anticipate that synthetic biology will continue to have broadening impacts on the biotechnology industry to address ongoing issues of human health, world food supply, renewable energy, and industrial chemicals and enzymes.

Peak impact accelerations during track and treadmill running.

PubMed

Bigelow, Erin M R; Elvin, Niell G; Elvin, Alex A; Arnoczky, Steven P

2013-10-01

To determine whether peak vertical and horizontal impact accelerations were different while running on a track or on a treadmill, 12 healthy subjects (average age 32.8 ± 9.8 y), were fitted with a novel, wireless accelerometer capable of recording triaxial acceleration over time. The accelerometer was attached to a custom-made acrylic plate and secured at the level of the L5 vertebra via a tight fitting triathlon belt. Each subject ran 4 miles on a synthetic, indoor track at a self-selected pace and accelerations were recorded on three perpendicular axes. Seven days later, the subjects ran 4 miles on a treadmill set at the individual runner's average pace on the track and the peak vertical and horizontal impact magnitudes between the track and treadmill were compared. There was no difference (P = .52) in the average peak vertical impact accelerations between the track and treadmill over the 4 mile run. However, peak horizontal impact accelerations were greater (P = .0012) on the track when compared with the treadmill. This study demonstrated the feasibility for long-term impact accelerations monitoring using a novel wireless accelerometer.

Applied Induced Pluripotent Stem Cells in Combination With Biomaterials in Bone Tissue Engineering.

PubMed

Ardeshirylajimi, Abdolreza

2017-10-01

Due to increasing of the orthopedic lesions and fractures in the world and limitation of current treatment methods, researchers, and surgeons paid attention to the new treatment ways especially to tissue engineering and regenerative medicine. Innovation in stem cells and biomaterials accelerate during the last decade as two main important parts of the tissue engineering. Recently, induced pluripotent stem cells (iPSCs) introduced as cells with highly proliferation and differentiation potentials that hold great promising features for used in tissue engineering and regenerative medicine. As another main part of tissue engineering, synthetic, and natural polymers have been shown daily grow up in number to increase and improve the grade of biopolymers that could be used as scaffold with or without stem cells for implantation. One of the developed areas of tissue engineering is bone tissue engineering; the aim of this review is present studies were done in the field of bone tissue engineering while used iPSCs in combination with natural and synthetic biomaterials. J. Cell. Biochem. 118: 3034-3042, 2017. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

Bioorthogonal Diversification of Peptides through Selective Ruthenium(II)-Catalyzed C-H Activation.

PubMed

Schischko, Alexandra; Ren, Hongjun; Kaplaneris, Nikolaos; Ackermann, Lutz

2017-02-01

Methods for the chemoselective modification of amino acids and peptides are powerful techniques in biomolecular chemistry. Among other applications, they enable the total synthesis of artificial peptides. In recent years, significant momentum has been gained by exploiting palladium-catalyzed cross-coupling for peptide modification. Despite major advances, the prefunctionalization elements on the coupling partners translate into undesired byproduct formation and lengthy synthetic operations. In sharp contrast, we herein illustrate the unprecedented use of versatile ruthenium(II)carboxylate catalysis for the step-economical late-stage diversification of α- and β-amino acids, as well as peptides, through chemo-selective C-H arylation under racemization-free reaction conditions. The ligand-accelerated C-H activation strategy proved water-tolerant and set the stage for direct fluorescence labelling as well as various modes of peptide ligation with excellent levels of positional selectivity in a bioorthogonal fashion. The synthetic utility of our approach is further demonstrated by twofold C-H arylations for the complexity-increasing assembly of artificial peptides within a multicatalytic C-H activation manifold. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Distal hindlimb kinematics of galloping Thoroughbred racehorses on dirt and synthetic racetrack surfaces.

PubMed

Symons, J E; Garcia, T C; Stover, S M

2014-03-01

The effect of racetrack surface (dirt or synthetic) on distal hindlimb kinematics of racehorses running at competition speeds is not known. To compare distal hindlimb and hoof kinematics during stance of breezing (unrestrained gallop) racehorses between dirt and synthetic surfaces. Two-dimensional kinematic video analysis of 5 Thoroughbred racehorses galloping at high speeds (12-17 m/s) on a dirt racetrack and a synthetic racetrack. The positions of kinematic markers applied to the left hindlimb were recorded at 500 Hz. Position, velocity and acceleration of joint angles and hoof translation during stance were calculated in the sagittal plane. Peak translational and angular kinematic values were compared between the dirt and synthetic race surfaces using mixed model analyses of covariance. Maximum and heel-strike metatarsophalangeal (fetlock) angles were greater (P<0.05) on the dirt surface than on the synthetic surface. Maximum fetlock angle occurred earlier during stance on the dirt surface (P<0.05). Greater horizontal displacement of the heel during slide occurred on the dirt surface (P<0.05). During high-speed gallop, hindlimb fetlock hyperextension and horizontal hoof slide are greater on a dirt surface than on a synthetic surface. Synthetic race surfaces may mitigate risk of injury to hindlimb fetlock structures by reducing fetlock hyperextension and associated strains in fetlock support structures. Differences in hoof slide may contribute to different distal hindlimb kinematics between surfaces. © 2013 EVJ Ltd.

Structure/function relations of hemostatic nonwoven dressings based on greige cotton

USDA-ARS?s Scientific Manuscript database

A variety of natural and synthetic fibers are employed in hemostatic dressings. Here we demonstrate the use of greige cotton as a functional fiber, which when combined with hydrophilic and hydrophobic fibers in hydroentangled nonwoven materials, promotes accelerated clotting. A biophysical approach...

Identifying influential spreaders in complex networks based on gravity formula

NASA Astrophysics Data System (ADS)

Ma, Ling-ling; Ma, Chuang; Zhang, Hai-Feng; Wang, Bing-Hong

2016-06-01

How to identify the influential spreaders in social networks is crucial for accelerating/hindering information diffusion, increasing product exposure, controlling diseases and rumors, and so on. In this paper, by viewing the k-shell value of each node as its mass and the shortest path distance between two nodes as their distance, then inspired by the idea of the gravity formula, we propose a gravity centrality index to identify the influential spreaders in complex networks. The comparison between the gravity centrality index and some well-known centralities, such as degree centrality, betweenness centrality, closeness centrality, and k-shell centrality, and so forth, indicates that our method can effectively identify the influential spreaders in real networks as well as synthetic networks. We also use the classical Susceptible-Infected-Recovered (SIR) epidemic model to verify the good performance of our method.

Directed evolution and synthetic biology applications to microbial systems.

PubMed

Bassalo, Marcelo C; Liu, Rongming; Gill, Ryan T

2016-06-01

Biotechnology applications require engineering complex multi-genic traits. The lack of knowledge on the genetic basis of complex phenotypes restricts our ability to rationally engineer them. However, complex phenotypes can be engineered at the systems level, utilizing directed evolution strategies that drive whole biological systems toward desired phenotypes without requiring prior knowledge of the genetic basis of the targeted trait. Recent developments in the synthetic biology field accelerates the directed evolution cycle, facilitating engineering of increasingly complex traits in biological systems. In this review, we summarize some of the most recent advances in directed evolution and synthetic biology that allows engineering of complex traits in microbial systems. Then, we discuss applications that can be achieved through engineering at the systems level. Copyright © 2016 Elsevier Ltd. All rights reserved.

Synthetic biology projects in vitro.

PubMed

Forster, Anthony C; Church, George M

2007-01-01

Advances in the in vitro synthesis and evolution of DNA, RNA, and polypeptides are accelerating the construction of biopolymers, pathways, and organisms with novel functions. Known functions are being integrated and debugged with the aim of synthesizing life-like systems. The goals are knowledge, tools, smart materials, and therapies.

Integrating computational methods to retrofit enzymes to synthetic pathways.

PubMed

Brunk, Elizabeth; Neri, Marilisa; Tavernelli, Ivano; Hatzimanikatis, Vassily; Rothlisberger, Ursula

2012-02-01

Microbial production of desired compounds provides an efficient framework for the development of renewable energy resources. To be competitive to traditional chemistry, one requirement is to utilize the full capacity of the microorganism to produce target compounds with high yields and turnover rates. We use integrated computational methods to generate and quantify the performance of novel biosynthetic routes that contain highly optimized catalysts. Engineering a novel reaction pathway entails addressing feasibility on multiple levels, which involves handling the complexity of large-scale biochemical networks while respecting the critical chemical phenomena at the atomistic scale. To pursue this multi-layer challenge, our strategy merges knowledge-based metabolic engineering methods with computational chemistry methods. By bridging multiple disciplines, we provide an integral computational framework that could accelerate the discovery and implementation of novel biosynthetic production routes. Using this approach, we have identified and optimized a novel biosynthetic route for the production of 3HP from pyruvate. Copyright © 2011 Wiley Periodicals, Inc.

Suppressing multiples using an adaptive multichannel filter based on L1-norm

NASA Astrophysics Data System (ADS)

Shi, Ying; Jing, Hongliang; Zhang, Wenwu; Ning, Dezhi

2017-08-01

Adaptive subtraction is an important link for removing surface-related multiples in the wave equation-based method. In this paper, we propose an adaptive multichannel subtraction method based on the L1-norm. We achieve enhanced compensation for the mismatch between the input seismogram and the predicted multiples in terms of the amplitude, phase, frequency band, and travel time. Unlike the conventional L2-norm, the proposed method does not rely on the assumption that the primary and the multiples are orthogonal, and also takes advantage of the fact that the L1-norm is more robust when dealing with outliers. In addition, we propose a frequency band extension via modulation to reconstruct the high frequencies to compensate for the frequency misalignment. We present a parallel computing scheme to accelerate the subtraction algorithm on graphic processing units (GPUs), which significantly reduces the computational cost. The synthetic and field seismic data tests show that the proposed method effectively suppresses the multiples.

Blueprints for green biotech: development and application of standards for plant synthetic biology.

PubMed

Patron, Nicola J

2016-06-15

Synthetic biology aims to apply engineering principles to the design and modification of biological systems and to the construction of biological parts and devices. The ability to programme cells by providing new instructions written in DNA is a foundational technology of the field. Large-scale de novo DNA synthesis has accelerated synthetic biology by offering custom-made molecules at ever decreasing costs. However, for large fragments and for experiments in which libraries of DNA sequences are assembled in different combinations, assembly in the laboratory is still desirable. Biological assembly standards allow DNA parts, even those from multiple laboratories and experiments, to be assembled together using the same reagents and protocols. The adoption of such standards for plant synthetic biology has been cohesive for the plant science community, facilitating the application of genome editing technologies to plant systems and streamlining progress in large-scale, multi-laboratory bioengineering projects. © 2016 The Author(s). published by Portland Press Limited on behalf of the Biochemical Society.

Synthetic Origin of Tramadol in the Environment.

PubMed

Kusari, Souvik; Tatsimo, Simplice Joel N; Zühlke, Sebastian; Spiteller, Michael

2016-01-04

The presence of tramadol in roots of Sarcocephalus latifolius trees in Northern Cameroon was recently attributed to point contamination with the synthetic compound. The synthetic origin of tramadol in the environment has now been unambiguously confirmed. Tramadol samples isolated from tramadol pills bought at a street market in downtown Maroua and highly contaminated soil at Houdouvou were analyzed by high-precision (14)C measurements by accelerator mass spectrometry ((14)C AMS): Tramadol from the pills did not contain any radiocarbon, thus indicating that it had been synthesized from (14)C-free petroleum-derived precursors. Crucially, tramadol isolated from the soil was also radiocarbon-free. As all biosynthetic plant compounds must contain radiocarbon levels close to that of the contemporary environment, these results thus confirm that tramadol isolated from the soil cannot be plant-derived. Analyses of S. latifolius seeds, in vitro grown plants, plants from different origins, and stable-isotope labeling experiments further confirmed that synthetic tramadol contaminates the environment. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

UXO Forum 1996

DTIC Science & Technology

1996-01-01

used to locate and characterize a magnetic dipole source, and this finding accelerated the development of superconducting tensor gradiometers for... superconducting magnetic field gradiometer, two-color infrared camera, synthetic aperture radar, and a visible spectrum camera. The combination of these...Pieter Hoekstra, Blackhawk GeoSciences ......................................... 68 Prediction for UXO Shape and Orientation Effects on Magnetic

Comparing Foreshock Characteristics and Foreshock Forecasting in Observed and Simulated Earthquake Catalogs

NASA Astrophysics Data System (ADS)

Ogata, Y.

2014-12-01

In our previous papers (Ogata et al., 1995, 1996, 2012; GJI), we characterized foreshock activity in Japan, and then presented a model that forecasts the probability that one or more earthquakes form a foreshock sequence; then we tested prospectively foreshock probabilities in the JMA catalog. In this talk, I compare the empirical results with results for synthetic catalogs in order to clarify whether or not these results are consistent with the description of the seismicity by a superposition of background activity and epidemic-type aftershock sequences (ETAS models). This question is important, because it is still controversially discussed whether the nucleation process of large earthquakes is driven by seismically cascading (ETAS-type) or by aseismic accelerating processes. To explore the foreshock characteristics, I firstly applied the same clustering algorithms to real and synthetic catalogs and analyzed the temporal, spatial and magnitude distributions of the selected foreshocks, to find significant differences particularly in the temporal acceleration and magnitude dependence. Finally, I calculated forecast scores based on a single-link cluster algorithm which could be appropriate for real-time applications. I find that the JMA catalog yields higher scores than all synthetic catalogs and that the ETAS models having the same magnitude sequence as the original catalog performs significantly better (more close to the reality) than ETAS-models with randomly picked magnitudes.

Assessment of the derivative-moment transformation method for unsteady-load estimation

NASA Astrophysics Data System (ADS)

Mohebbian, Ali; Rival, David E.

2012-08-01

It is often difficult, if not impossible, to measure the aerodynamic or hydrodynamic forces on a moving body. For this reason, a classical control-volume technique is typically applied to extract the unsteady forces. However, measuring the acceleration term within the volume of interest using particle image velocimetry (PIV) can be limited by optical access, reflections, as well as shadows. Therefore, in this study, an alternative approach, termed the derivative-moment transformation (DMT) method, is introduced and tested on a synthetic data set produced using numerical simulations. The test case involves the unsteady loading of a flat plate in a two-dimensional, laminar periodic gust. The results suggest that the DMT method can accurately predict the acceleration term so long as appropriate spatial and temporal resolutions are maintained. The major deficiency, which is more dominant for the direction of drag, was found to be the determination of pressure and unsteady terms in the wake. The effect of control-volume size was investigated, suggesting that larger domains work best by minimizing the associated error in the determination of the pressure field. When decreasing the control-volume size, wake vortices, which produce high gradients across the control surfaces, are found to substantially increase the level of error. On the other hand, it was shown that for large control volumes, and with realistic spatial resolution, the accuracy of the DMT method would also suffer. Therefore, a delicate compromise is required when selecting control-volume size in future experiments.

Coarse mesh and one-cell block inversion based diffusion synthetic acceleration

NASA Astrophysics Data System (ADS)

Kim, Kang-Seog

DSA (Diffusion Synthetic Acceleration) has been developed to accelerate the SN transport iteration. We have developed solution techniques for the diffusion equations of FLBLD (Fully Lumped Bilinear Discontinuous), SCB (Simple Comer Balance) and UCB (Upstream Corner Balance) modified 4-step DSA in x-y geometry. Our first multi-level method includes a block Gauss-Seidel iteration for the discontinuous diffusion equation, uses the continuous diffusion equation derived from the asymptotic analysis, and avoids void cell calculation. We implemented this multi-level procedure and performed model problem calculations. The results showed that the FLBLD, SCB and UCB modified 4-step DSA schemes with this multi-level technique are unconditionally stable and rapidly convergent. We suggested a simplified multi-level technique for FLBLD, SCB and UCB modified 4-step DSA. This new procedure does not include iterations on the diffusion calculation or the residual calculation. Fourier analysis results showed that this new procedure was as rapidly convergent as conventional modified 4-step DSA. We developed new DSA procedures coupled with 1-CI (Cell Block Inversion) transport which can be easily parallelized. We showed that 1-CI based DSA schemes preceded by SI (Source Iteration) are efficient and rapidly convergent for LD (Linear Discontinuous) and LLD (Lumped Linear Discontinuous) in slab geometry and for BLD (Bilinear Discontinuous) and FLBLD in x-y geometry. For 1-CI based DSA without SI in slab geometry, the results showed that this procedure is very efficient and effective for all cases. We also showed that 1-CI based DSA in x-y geometry was not effective for thin mesh spacings, but is effective and rapidly convergent for intermediate and thick mesh spacings. We demonstrated that the diffusion equation discretized on a coarse mesh could be employed to accelerate the transport equation. Our results showed that coarse mesh DSA is unconditionally stable and is as rapidly convergent as fine mesh DSA in slab geometry. For x-y geometry our coarse mesh DSA is very effective for thin and intermediate mesh spacings independent of the scattering ratio, but is not effective for purely scattering problems and high aspect ratio zoning. However, if the scattering ratio is less than about 0.95, this procedure is very effective for all mesh spacing.

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

Howell, Caitlin; Vu, Thy L.; Lin, Jennifer J.

Inspired by the long-term effectiveness of living antifouling materials, we have developed a method for the selfreplenishment of synthetic biofouling-release surfaces. These surfaces are created by either molding or directly embedding 3D vascular systems into polydimethylsiloxane (PDMS) and filling them with a silicone oil to generate a nontoxic oil-infused material. When replenished with silicone oil from an outside source, these materials are capable of self-lubrication and continuous renewal of the interfacial fouling-release layer. Under accelerated lubricant loss conditions, fully infused vascularized samples retained significantly more lubricant than equivalent nonvascularized controls. Tests of lubricant-infused PDMS in static cultures of the infectiousmore » bacteria Staphylococcus aureus and Escherichia coli as well as the green microalgae Botryococcus braunii, Chlamydomonas reinhardtii, Dunaliella salina, and Nannochloropsis oculata showed a significant reduction in biofilm adhesion compared to PDMS and glass controls containing no lubricant. Further experiments on vascularized versus nonvascularized samples that had been subjected to accelerated lubricant evaporation conditions for up to 48 h showed significantly less biofilm adherence on the vascularized surfaces. These results demonstrate the ability of an embedded lubricant-filled vascular network to improve the longevity of fouling-release surfaces.« less

CONSTRAINTS ON THE SHAPE OF THE MILKY WAY DARK MATTER HALO FROM JEANS EQUATIONS APPLIED TO SLOAN DIGITAL SKY SURVEY DATA

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

Loebman, Sarah R.; Ivezic, Zeljko; Quinn, Thomas R.

2012-10-10

We search for evidence of dark matter in the Milky Way by utilizing the stellar number density distribution and kinematics measured by the Sloan Digital Sky Survey (SDSS) to heliocentric distances exceeding {approx}10 kpc. We employ the cylindrically symmetric form of Jeans equations and focus on the morphology of the resulting acceleration maps, rather than the normalization of the total mass as done in previous, mostly local, studies. Jeans equations are first applied to a mock catalog based on a cosmologically derived N-body+SPH simulation, and the known acceleration (gradient of gravitational potential) is successfully recovered. The same simulation is alsomore » used to quantify the impact of dark matter on the total acceleration. We use Galfast, a code designed to quantitatively reproduce SDSS measurements and selection effects, to generate a synthetic stellar catalog. We apply Jeans equations to this catalog and produce two-dimensional maps of stellar acceleration. These maps reveal that in a Newtonian framework, the implied gravitational potential cannot be explained by visible matter alone. The acceleration experienced by stars at galactocentric distances of {approx}20 kpc is three times larger than what can be explained by purely visible matter. The application of an analytic method for estimating the dark matter halo axis ratio to SDSS data implies an oblate halo with q{sub DM} = 0.47 {+-} 0.14 within the same distance range. These techniques can be used to map the dark matter halo to much larger distances from the Galactic center using upcoming deep optical surveys, such as LSST.« less

Genomics-Based Discovery of Plant Genes for Synthetic Biology of Terpenoid Fragrances: A Case Study in Sandalwood oil Biosynthesis.

PubMed

Celedon, J M; Bohlmann, J

2016-01-01

Terpenoid fragrances are powerful mediators of ecological interactions in nature and have a long history of traditional and modern industrial applications. Plants produce a great diversity of fragrant terpenoid metabolites, which make them a superb source of biosynthetic genes and enzymes. Advances in fragrance gene discovery have enabled new approaches in synthetic biology of high-value speciality molecules toward applications in the fragrance and flavor, food and beverage, cosmetics, and other industries. Rapid developments in transcriptome and genome sequencing of nonmodel plant species have accelerated the discovery of fragrance biosynthetic pathways. In parallel, advances in metabolic engineering of microbial and plant systems have established platforms for synthetic biology applications of some of the thousands of plant genes that underlie fragrance diversity. While many fragrance molecules (eg, simple monoterpenes) are abundant in readily renewable plant materials, some highly valuable fragrant terpenoids (eg, santalols, ambroxides) are rare in nature and interesting targets for synthetic biology. As a representative example for genomics/transcriptomics enabled gene and enzyme discovery, we describe a strategy used successfully for elucidation of a complete fragrance biosynthetic pathway in sandalwood (Santalum album) and its reconstruction in yeast (Saccharomyces cerevisiae). We address questions related to the discovery of specific genes within large gene families and recovery of rare gene transcripts that are selectively expressed in recalcitrant tissues. To substantiate the validity of the approaches, we describe the combination of methods used in the gene and enzyme discovery of a cytochrome P450 in the fragrant heartwood of tropical sandalwood, responsible for the fragrance defining, final step in the biosynthesis of (Z)-santalols. © 2016 Elsevier Inc. All rights reserved.

Improved GO/PO method and its application to wideband SAR image of conducting objects over rough surface

NASA Astrophysics Data System (ADS)

Jiang, Wang-Qiang; Zhang, Min; Nie, Ding; Jiao, Yong-Chang

2018-04-01

To simulate the multiple scattering effect of target in synthetic aperture radar (SAR) image, the hybrid method GO/PO method, which combines the geometrical optics (GO) and physical optics (PO), is employed to simulate the scattering field of target. For ray tracing is time-consuming, the Open Graphics Library (OpenGL) is usually employed to accelerate the process of ray tracing. Furthermore, the GO/PO method is improved for the simulation in low pixel situation. For the improved GO/PO method, the pixels are arranged corresponding to the rectangular wave beams one by one, and the GO/PO result is the sum of the contribution values of all the rectangular wave beams. To get high-resolution SAR image, the wideband echo signal is simulated which includes information of many electromagnetic (EM) waves with different frequencies. Finally, the improved GO/PO method is used to simulate the SAR image of targets above rough surface. And the effects of reflected rays and the size of pixel matrix on the SAR image are also discussed.

Bayesian least squares deconvolution

NASA Astrophysics Data System (ADS)

Asensio Ramos, A.; Petit, P.

2015-11-01

Aims: We develop a fully Bayesian least squares deconvolution (LSD) that can be applied to the reliable detection of magnetic signals in noise-limited stellar spectropolarimetric observations using multiline techniques. Methods: We consider LSD under the Bayesian framework and we introduce a flexible Gaussian process (GP) prior for the LSD profile. This prior allows the result to automatically adapt to the presence of signal. We exploit several linear algebra identities to accelerate the calculations. The final algorithm can deal with thousands of spectral lines in a few seconds. Results: We demonstrate the reliability of the method with synthetic experiments and we apply it to real spectropolarimetric observations of magnetic stars. We are able to recover the magnetic signals using a small number of spectral lines, together with the uncertainty at each velocity bin. This allows the user to consider if the detected signal is reliable. The code to compute the Bayesian LSD profile is freely available.

Towards real-time image deconvolution: application to confocal and STED microscopy

PubMed Central

Zanella, R.; Zanghirati, G.; Cavicchioli, R.; Zanni, L.; Boccacci, P.; Bertero, M.; Vicidomini, G.

2013-01-01

Although deconvolution can improve the quality of any type of microscope, the high computational time required has so far limited its massive spreading. Here we demonstrate the ability of the scaled-gradient-projection (SGP) method to provide accelerated versions of the most used algorithms in microscopy. To achieve further increases in efficiency, we also consider implementations on graphic processing units (GPUs). We test the proposed algorithms both on synthetic and real data of confocal and STED microscopy. Combining the SGP method with the GPU implementation we achieve a speed-up factor from about a factor 25 to 690 (with respect the conventional algorithm). The excellent results obtained on STED microscopy images demonstrate the synergy between super-resolution techniques and image-deconvolution. Further, the real-time processing allows conserving one of the most important property of STED microscopy, i.e the ability to provide fast sub-diffraction resolution recordings. PMID:23982127

Variational method based on Retinex with double-norm hybrid constraints for uneven illumination correction

NASA Astrophysics Data System (ADS)

Li, Shuo; Wang, Hui; Wang, Liyong; Yu, Xiangzhou; Yang, Le

2018-01-01

The uneven illumination phenomenon reduces the quality of remote sensing image and causes interference in the subsequent processing and applications. A variational method based on Retinex with double-norm hybrid constraints for uneven illumination correction is proposed. The L1 norm and the L2 norm are adopted to constrain the textures and details of reflectance image and the smoothness of the illumination image, respectively. The problem of separating the illumination image from the reflectance image is transformed into the optimal solution of the variational model. In order to accelerate the solution, the split Bregman method is used to decompose the variational model into three subproblems, which are calculated by alternate iteration. Two groups of experiments are implemented on two synthetic images and three real remote sensing images. Compared with the variational Retinex method with single-norm constraint and the Mask method, the proposed method performs better in both visual evaluation and quantitative measurements. The proposed method can effectively eliminate the uneven illumination while maintaining the textures and details of the remote sensing image. Moreover, the proposed method using split Bregman method is more than 10 times faster than the method with the steepest descent method.

Bacteriophage-based synthetic biology for the study of infectious diseases

PubMed Central

Lu, Timothy K.

2014-01-01

Since their discovery, bacteriophages have contributed enormously to our understanding of molecular biology as model systems. Furthermore, bacteriophages have provided many tools that have advanced the fields of genetic engineering and synthetic biology. Here, we discuss bacteriophage-based technologies and their application to the study of infectious diseases. New strategies for engineering genomes have the potential to accelerate the design of novel phages as therapies, diagnostics, and tools. Though almost a century has elapsed since their discovery, bacteriophages continue to have a major impact on modern biological sciences, especially with the growth of multidrug-resistant bacteria and interest in the microbiome. PMID:24997401

Numerical simulations of stellar jets and comparison between synthetic and observed maps: clues to the launch mechanism

NASA Astrophysics Data System (ADS)

Rubini, F.; Maurri, L.; Inghirami, G.; Bacciotti, F.; Del Zanna, L.

2014-07-01

High angular resolution spectra obtained with the Hubble Space Telescope Imaging Spectrograph (HST/STIS) provide rich morphological and kinematical information about the stellar jet phenomenon, which allows us to test theoretical models efficiently. In this work, numerical simulations of stellar jets in the propagation region are executed with the PLUTO code, by adopting inflow conditions that arise from former numerical simulations of magnetized outflows, accelerated by the disk-wind mechanism in the launching region. By matching the two regions, information about the magneto-centrifugal accelerating mechanism underlying a given astrophysical object can be extrapolated by comparing synthetic and observed position-velocity diagrams. We show that quite different jets, like those from the young T Tauri stars DG-Tau and RW-Aur, may originate from the same disk-wind model for different configurations of the magnetic field at the disk surface. This result supports the idea that all the observed jets may be generated by the same mechanism. Appendix A is available in electronic form at http://www.aanda.org

Oxidative stability of refined olive and sunflower oils supplemented with lycopene-rich oleoresin from tomato peels industrial by-product, during accelerated shelf-life storage.

PubMed

Kehili, Mouna; Choura, Sirine; Zammel, Ayachi; Allouche, Noureddine; Sayadi, Sami

2018-04-25

Tomato peels by-product from a Tunisian industry was used for the extraction of lycopene-rich oleoresin using hexane solvent maceration. Tomato peels oleoresin, TPO, exhibited competitive free radicals scavenging activity with synthetic antioxidants. The efficacy of TPO in stabilizing refined olive (ROO) and sunflower (RSO) oils was investigated for five months, under accelerated shelf-life, compared to the synthetic antioxidant, butylated hydroxytoluene (BHT). TPO was added to ROO and RSO at four different concentrations, namely 250, 500, 1000 and 2000 µg/g and BHT standard at 200 µg/g. Lipid oxidation was tracked by measuring the peroxide value, acidity, conjugated dienes and trienes. Results suggested the highest efficiency of 250 µg/g and 2000 µg/g of TPO, referring to 5 µg/g and 40 µg/g of lycopene, for the oxidative stabilization of ROO and RSO, respectively. The protective effect of TPO against the primary oxidation of these refined oils was significantly correlated to their lycopene contents. Copyright © 2017 Elsevier Ltd. All rights reserved.

Forecasting volcanic eruptions and other material failure phenomena: An evaluation of the failure forecast method

NASA Astrophysics Data System (ADS)

Bell, Andrew F.; Naylor, Mark; Heap, Michael J.; Main, Ian G.

2011-08-01

Power-law accelerations in the mean rate of strain, earthquakes and other precursors have been widely reported prior to material failure phenomena, including volcanic eruptions, landslides and laboratory deformation experiments, as predicted by several theoretical models. The Failure Forecast Method (FFM), which linearizes the power-law trend, has been routinely used to forecast the failure time in retrospective analyses; however, its performance has never been formally evaluated. Here we use synthetic and real data, recorded in laboratory brittle creep experiments and at volcanoes, to show that the assumptions of the FFM are inconsistent with the error structure of the data, leading to biased and imprecise forecasts. We show that a Generalized Linear Model method provides higher-quality forecasts that converge more accurately to the eventual failure time, accounting for the appropriate error distributions. This approach should be employed in place of the FFM to provide reliable quantitative forecasts and estimate their associated uncertainties.

Hydrophilic Interaction Liquid Chromatography-Tandem Mass Spectrometry Analysis of Fosetyl-Aluminum in Airborne Particulate Matter

PubMed Central

Di Filippo, Patrizia; Riccardi, Carmela; Pomata, Donatella; Marsiglia, Riccardo; Console, Carla; Puri, Daniele

2018-01-01

Fosetyl-aluminum is a synthetic fungicide administered to plants especially to prevent diseases caused by the members of the Peronosporales and several Phytophthora species. Herein, we present a selective liquid chromatography-tandem mass spectrometry (LC-MS/MS) method to analyze residues of fosetyl-A1 in air particulate matter. This study was performed in perspective of an exposure assessment of this substance of health concern in environments where high levels of fosetly-Al, relatively to airborne particulate matter, can be found after spraying it. The cleanup procedure of the analyte, from sampled filters of atmospheric particulate matter, was optimized using a Strata X solid-phase extraction cartridge, after accelerated extraction by using water. The chromatographic separation was achieved using a polymeric column based on hydrophilic interaction in step elution with water/acetonitrile, whereas the mass spectrometric detection was performed in negative electrospray ionization. The proposed method resulted to be a simple, fast, and suitable method for confirmation purposes. PMID:29686933

Accounting for sampling variability, injury under-reporting, and sensor error in concussion injury risk curves.

PubMed

Elliott, Michael R; Margulies, Susan S; Maltese, Matthew R; Arbogast, Kristy B

2015-09-18

There has been recent dramatic increase in the use of sensors affixed to the heads or helmets of athletes to measure the biomechanics of head impacts that lead to concussion. The relationship between injury and linear or rotational head acceleration measured by such sensors can be quantified with an injury risk curve. The utility of the injury risk curve relies on the accuracy of both the clinical diagnosis and the biomechanical measure. The focus of our analysis was to demonstrate the influence of three sources of error on the shape and interpretation of concussion injury risk curves: sampling variability associated with a rare event, concussion under-reporting, and sensor measurement error. We utilized Bayesian statistical methods to generate synthetic data from previously published concussion injury risk curves developed using data from helmet-based sensors on collegiate football players and assessed the effect of the three sources of error on the risk relationship. Accounting for sampling variability adds uncertainty or width to the injury risk curve. Assuming a variety of rates of unreported concussions in the non-concussed group, we found that accounting for under-reporting lowers the rotational acceleration required for a given concussion risk. Lastly, after accounting for sensor error, we find strengthened relationships between rotational acceleration and injury risk, further lowering the magnitude of rotational acceleration needed for a given risk of concussion. As more accurate sensors are designed and more sensitive and specific clinical diagnostic tools are introduced, our analysis provides guidance for the future development of comprehensive concussion risk curves. Copyright © 2015 Elsevier Ltd. All rights reserved.

Future Prospects for Scaffolding Methods and Biomaterials in Skin Tissue Engineering: A Review

PubMed Central

Chaudhari, Atul A.; Vig, Komal; Baganizi, Dieudonné Radé; Sahu, Rajnish; Dixit, Saurabh; Dennis, Vida; Singh, Shree Ram; Pillai, Shreekumar R.

2016-01-01

Over centuries, the field of regenerative skin tissue engineering has had several advancements to facilitate faster wound healing and thereby restoration of skin. Skin tissue regeneration is mainly based on the use of suitable scaffold matrices. There are several scaffold types, such as porous, fibrous, microsphere, hydrogel, composite and acellular, etc., with discrete advantages and disadvantages. These scaffolds are either made up of highly biocompatible natural biomaterials, such as collagen, chitosan, etc., or synthetic materials, such as polycaprolactone (PCL), and poly-ethylene-glycol (PEG), etc. Composite scaffolds, which are a combination of natural or synthetic biomaterials, are highly biocompatible with improved tensile strength for effective skin tissue regeneration. Appropriate knowledge of the properties, advantages and disadvantages of various biomaterials and scaffolds will accelerate the production of suitable scaffolds for skin tissue regeneration applications. At the same time, emphasis on some of the leading challenges in the field of skin tissue engineering, such as cell interaction with scaffolds, faster cellular proliferation/differentiation, and vascularization of engineered tissues, is inevitable. In this review, we discuss various types of scaffolding approaches and biomaterials used in the field of skin tissue engineering and more importantly their future prospects in skin tissue regeneration efforts. PMID:27898014

Future Prospects for Scaffolding Methods and Biomaterials in Skin Tissue Engineering: A Review.

PubMed

Chaudhari, Atul A; Vig, Komal; Baganizi, Dieudonné Radé; Sahu, Rajnish; Dixit, Saurabh; Dennis, Vida; Singh, Shree Ram; Pillai, Shreekumar R

2016-11-25

Over centuries, the field of regenerative skin tissue engineering has had several advancements to facilitate faster wound healing and thereby restoration of skin. Skin tissue regeneration is mainly based on the use of suitable scaffold matrices. There are several scaffold types, such as porous, fibrous, microsphere, hydrogel, composite and acellular, etc., with discrete advantages and disadvantages. These scaffolds are either made up of highly biocompatible natural biomaterials, such as collagen, chitosan, etc., or synthetic materials, such as polycaprolactone (PCL), and poly-ethylene-glycol (PEG), etc. Composite scaffolds, which are a combination of natural or synthetic biomaterials, are highly biocompatible with improved tensile strength for effective skin tissue regeneration. Appropriate knowledge of the properties, advantages and disadvantages of various biomaterials and scaffolds will accelerate the production of suitable scaffolds for skin tissue regeneration applications. At the same time, emphasis on some of the leading challenges in the field of skin tissue engineering, such as cell interaction with scaffolds, faster cellular proliferation/differentiation, and vascularization of engineered tissues, is inevitable. In this review, we discuss various types of scaffolding approaches and biomaterials used in the field of skin tissue engineering and more importantly their future prospects in skin tissue regeneration efforts.

Synthetic Biology Toolbox for Controlling Gene Expression in the Cyanobacterium Synechococcus sp. strain PCC 7002

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

Markley, Andrew L.; Begemann, Matthew B.; Clarke, Ryan E.

The application of synthetic biology requires characterized tools to precisely control gene expression. This toolbox of genetic parts previously did not exist for the industrially promising cyanobacterium, Synechococcus sp. strain PCC 7002. To address this gap, two orthogonal constitutive promoter libraries, one based on a cyanobacterial promoter and the other ported from Escherichia coli, were built and tested in PCC 7002. The libraries demonstrated 3 and 2.5 log dynamic ranges, respectively, but correlated poorly with E. coli expression levels. These promoter libraries were then combined to create and optimize a series of IPTG inducible cassettes. The resultant induction system hadmore » a 48-fold dynamic range and was shown to out-perform P trc constructs. Finally, a RBS library was designed and tested in PCC 7002. The presented synthetic biology toolbox will enable accelerated engineering of PCC 7002.« less

Synthetic Biology Toolbox for Controlling Gene Expression in the Cyanobacterium Synechococcus sp. strain PCC 7002

DOE PAGES

Markley, Andrew L.; Begemann, Matthew B.; Clarke, Ryan E.; ...

2014-09-12

The application of synthetic biology requires characterized tools to precisely control gene expression. This toolbox of genetic parts previously did not exist for the industrially promising cyanobacterium, Synechococcus sp. strain PCC 7002. To address this gap, two orthogonal constitutive promoter libraries, one based on a cyanobacterial promoter and the other ported from Escherichia coli, were built and tested in PCC 7002. The libraries demonstrated 3 and 2.5 log dynamic ranges, respectively, but correlated poorly with E. coli expression levels. These promoter libraries were then combined to create and optimize a series of IPTG inducible cassettes. The resultant induction system hadmore » a 48-fold dynamic range and was shown to out-perform P trc constructs. Finally, a RBS library was designed and tested in PCC 7002. The presented synthetic biology toolbox will enable accelerated engineering of PCC 7002.« less

The Role of Synthetic Biology in the Design of Microbial Cell Factories for Biofuel Production

PubMed Central

Colin, Verónica Leticia; Rodríguez, Analía; Cristóbal, Héctor Antonio

2011-01-01

Insecurity in the supply of fossil fuels, volatile fuel prices, and major concerns regarding climate change have sparked renewed interest in the production of fuels from renewable resources. Because of this, the use of biodiesel has grown dramatically during the last few years and is expected to increase even further in the future. Biodiesel production through the use of microbial systems has marked a turning point in the field of biofuels since it is emerging as an attractive alternative to conventional technology. Recent progress in synthetic biology has accelerated the ability to analyze, construct, and/or redesign microbial metabolic pathways with unprecedented precision, in order to permit biofuel production that is amenable to industrial applications. The review presented here focuses specifically on the role of synthetic biology in the design of microbial cell factories for efficient production of biodiesel. PMID:22028591

Detection of direct and indirect noise generated by synthetic hot spots in a duct

NASA Astrophysics Data System (ADS)

De Domenico, Francesca; Rolland, Erwan O.; Hochgreb, Simone

2017-04-01

Sound waves in a combustor are generated from fluctuations in the heat release rate (direct noise) or the acceleration of entropy, vorticity or compositional perturbations through nozzles or turbine guide vanes (indirect or entropy noise). These sound waves are transmitted downstream as well as reflected upstream of the acceleration point, contributing to the overall noise emissions, or triggering combustion instabilities. Previous experiments attempted to isolate indirect noise by generating thermoacoustic hot spots electrically and measuring the transmitted acoustic waves, yet there are no measurements on the backward propagating entropy and acoustic waves. This work presents the first measurements which clearly separate the direct and indirect noise contributions to pressure fluctuations upstream of the acceleration point. Synthetic entropy spots are produced by unsteady electrical heating of a grid of thin wires located in a tube. Compression waves (direct noise) are generated from this heating process. The hot spots are then advected with the mean flow and finally accelerated through an orifice plate located at the end of the tube, producing a strong acoustic signature which propagates upstream (indirect noise). The convective time is selected to be longer than the heating pulse length, in order to obtain a clear time separation between direct and indirect noise in the overall pressure trace. The contribution of indirect noise to the overall noise is shown to be non-negligible either in subsonic or sonic throat conditions. However, the absolute amplitude of direct noise is larger than the corresponding fraction of indirect noise, explaining the difficulty in clearly identifying the two contributions when they are merged. Further, the work shows the importance of using appropriate pressure transducer instrumentation and correcting for the respective transfer functions in order to account for low frequency effects in the determination of pressure fluctuations.

Natural products as inspiration for the development of new synthetic methods.

PubMed

Ma, Zhiqiang; Chen, Chuo

2018-01-01

Natural products have played an important role in shaping modern synthetic organic chemistry. In particular, their complex molecular skeletons have stimulated the development of many new synthetic methods. We highlight in this article some recent examples of synthetic design inspired by the biosynthesis of natural products.

The Seismicity of the Central Apennines Region Studied by Means of a Physics-Based Earthquake Simulator

NASA Astrophysics Data System (ADS)

Console, R.; Vannoli, P.; Carluccio, R.

2016-12-01

The application of a physics-based earthquake simulation algorithm to the central Apennines region, where the 24 August 2016 Amatrice earthquake occurred, allowed the compilation of a synthetic seismic catalog lasting 100 ky, and containing more than 500,000 M ≥ 4.0 events, without the limitations that real catalogs suffer in terms of completeness, homogeneity and time duration. The algorithm on which this simulator is based is constrained by several physical elements as: (a) an average slip rate for every single fault in the investigated fault systems, (b) the process of rupture growth and termination, leading to a self-organized earthquake magnitude distribution, and (c) interaction between earthquake sources, including small magnitude events. Events nucleated in one fault are allowed to expand into neighboring faults, even belonging to a different fault system, if they are separated by less than a given maximum distance. The seismogenic model upon which we applied the simulator code, was derived from the DISS 3.2.0 database (http://diss.rm.ingv.it/diss/), selecting all the fault systems that are recognized in the central Apennines region, for a total of 24 fault systems. The application of our simulation algorithm provides typical features in time, space and magnitude behavior of the seismicity, which are comparable with those of real observations. These features include long-term periodicity and clustering of strong earthquakes, and a realistic earthquake magnitude distribution departing from the linear Gutenberg-Richter distribution in the moderate and higher magnitude range. The statistical distribution of earthquakes with M ≥ 6.0 on single faults exhibits a fairly clear pseudo-periodic behavior, with a coefficient of variation Cv of the order of 0.3-0.6. We found in our synthetic catalog a clear trend of long-term acceleration of seismic activity preceding M ≥ 6.0 earthquakes and quiescence following those earthquakes. Lastly, as an example of a possible use of synthetic catalogs, an attenuation law was applied to all the events reported in the synthetic catalog for the production of maps showing the exceedence probability of given values of peak acceleration (PGA) on the territory under investigation. The application of a physics-based earthquake simulation algorithm to the central Apennines region, where the 24 August 2016 Amatrice earthquake occurred, allowed the compilation of a synthetic seismic catalog lasting 100 ky, and containing more than 500,000 M ≥ 4.0 events, without the limitations that real catalogs suffer in terms of completeness, homogeneity and time duration. The algorithm on which this simulator is based is constrained by several physical elements as: (a) an average slip rate for every single fault in the investigated fault systems, (b) the process of rupture growth and termination, leading to a self-organized earthquake magnitude distribution, and (c) interaction between earthquake sources, including small magnitude events. Events nucleated in one fault are allowed to expand into neighboring faults, even belonging to a different fault system, if they are separated by less than a given maximum distance. The seismogenic model upon which we applied the simulator code, was derived from the DISS 3.2.0 database (http://diss.rm.ingv.it/diss/), selecting all the fault systems that are recognized in the central Apennines region, for a total of 24 fault systems. The application of our simulation algorithm provides typical features in time, space and magnitude behavior of the seismicity, which are comparable with those of real observations. These features include long-term periodicity and clustering of strong earthquakes, and a realistic earthquake magnitude distribution departing from the linear Gutenberg-Richter distribution in the moderate and higher magnitude range. The statistical distribution of earthquakes with M ≥ 6.0 on single faults exhibits a fairly clear pseudo-periodic behavior, with a coefficient of variation Cv of the order of 0.3-0.6. We found in our synthetic catalog a clear trend of long-term acceleration of seismic activity preceding M ≥ 6.0 earthquakes and quiescence following those earthquakes. Lastly, as an example of a possible use of synthetic catalogs, an attenuation law was applied to all the events reported in the synthetic catalog for the production of maps showing the exceedence probability of given values of peak acceleration (PGA) on the territory under investigation.

Compound scale-up at the discovery-development interface.

PubMed

Nikitenko, Antonia A

2006-11-01

As a result of an economically challenging environment within the pharmaceutical industry, pharmaceutical companies and their departments must increase productivity and cut costs to stay in line with the market. Discovery-led departments such as the medicinal chemistry and lead optimization groups focus on synthesizing large varieties of compounds in minimal amounts, while the chemical development groups must then deliver a few chosen leads employing an optimized synthesis method and using multi-kilogram quantities of material. A research group at the discovery-development interface has the task of medium-scale synthesis which is important in the lead selection stage. The primary objective of this group is the initial scale-up of promising leads for extensive physicochemical and biological testing. The challenge of the interface group involves overcoming synthetic issues within the rigid, accelerated timelines.

Vorticity field measurement using digital inline holography

NASA Astrophysics Data System (ADS)

Mallery, Kevin; Hong, Jiarong

2017-11-01

We demonstrate the direct measurement of a 3D vorticity field using digital inline holographic microscopy. Microfiber tracer particles are illuminated with a 532 nm continuous diode laser and imaged using a single CCD camera. The recorded holographic images are processed using a GPU-accelerated inverse problem approach to reconstruct the 3D structure of each microfiber in the imaged volume. The translation and rotation of each microfiber are measured using a time-resolved image sequence - yielding velocity and vorticity point measurements. The accuracy and limitations of this method are investigated using synthetic holograms. Measurements of solid body rotational flow are used to validate the accuracy of the technique under known flow conditions. The technique is further applied to a practical turbulent flow case for investigating its 3D velocity field and vorticity distribution.

Rolling-element fatigue life with two synthetic cycloaliphatic traction fluids

NASA Technical Reports Server (NTRS)

Loewenthal, S. H.; Parker, R. J.

1976-01-01

The life potential of two synthetic cycloaliphatic hydrocarbon traction fluids in rolling element fatigue was evaluated in a five ball fatigue tester. Life comparisons with a MIL-L-23699 qualified tetraester oil showed that the traction test oils had good fatigue life performance, comparable to that of the tetraester oil. No statistically significant life differences between the traction fluids and the tetraester oil were exhibited under the accelerated fatigue test conditions. Erratic operating behavior was occasionally encountered during tests with the antiwear additive containing traction fluid for reasons thought to be related to excessive chemical activity under high contact pressure. This behavior occasionally resulted in premature test termination due to excessive surface distress and overheating.

Accelerating spirocyclic polyketide synthesis using flow chemistry.

PubMed

Newton, Sean; Carter, Catherine F; Pearson, Colin M; de C Alves, Leandro; Lange, Heiko; Thansandote, Praew; Ley, Steven V

2014-05-05

Over the past decade, the integration of synthetic chemistry with flow processing has resulted in a powerful platform for molecular assembly that is making an impact throughout the chemical community. Herein, we demonstrate the extension of these tools to encompass complex natural product synthesis. We have developed a number of novel flow-through processes for reactions commonly encountered in natural product synthesis programs to achieve the first total synthesis of spirodienal A and the preparation of spirangien A methyl ester. Highlights of the synthetic route include an iridium-catalyzed hydrogenation, iterative Roush crotylations, gold-catalyzed spiroketalization and a late-stage cis-selective reduction. © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Antioxidant effcacy of unripe banana (Musa acuminata Colla) peel extracts in sunflower oil during accelerated storage.

PubMed

Ling, Stella Sye Chee; Chang, Sui Kiat; Sia, Winne Chiaw Mei; Yim, Hip Seng

2015-01-01

Sunflower oil is prone to oxidation during storage time, leading to production of toxic compounds that might affect human health. Synthetic antioxidants are used to prevent lipid oxidation. Spreading interest in the replacement of synthetic food antioxidants by natural ones has fostered research on fruit and vegetables for new antioxidants. In this study, the efficacy of unripe banana peel extracts (100, 200 and 300 ppm)  in stabilizing sunflower oil was tested under accelerated storage (65°C) for a period of 24 days. BHA and α-tocopherol served as comparative standards besides the control. Established parameters such as peroxide value (PV), iodine value (IV), p-anisidine value (p-AnV), total oxidation value (TOTOX), thiobarbituric acid reactive substances (TBARS) and free fatty acid (FFA) content were used to assess the extent of oil deterioration. After 24 days storage at 65°C, sunflower oil containing 200 and 300 ppm extract of unripe banana peel showed significantly lower PV and TOTOX compared to BHA and α-tocopherol. TBARS, p-AnV and FFA values of sunflower oil containing 200 and 300 ppm of unripe banana peel extract exhibited comparable inhibitory effects with BHA. Unripe banana peel extract at 200 and 300 ppm demonstrated inhibitory effect against both primary and secondary oxidation up to 24 days under accelerated storage conditions. Unripe banana peel extract may be used as a potential source of natural antioxidants in the application of food industry to suppress lipid oxidation.

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

Howell, C; Vu, TL; Lin, JJ

Inspired by the long-term effectiveness of living antifouling materials, we have developed a method for the self-replenishment of synthetic biofouling-release surfaces. These surfaces are created by either molding or directly embedding 3D vascular systems into polydimethylsiloxane (PDMS) and filling them with a silicone oil to generate a nontoxic oil-infused material. When replenished with silicone oil from an outside source, these materials are capable of self-lubrication and continuous renewal of the interfacial fouling-release layer. Under accelerated lubricant loss conditions, fully infused vascularized samples retained significantly more lubricant than equivalent nonvascularized controls. Tests of lubricant-infused PDMS in static cultures of the infectiousmore » bacteria Staphylococcus aureus and Escherichia coli as well as the green microalgae Botryococcus braunii, Chlamydomonas reinhardtii, Dunaliella sauna, and Nannochloropsis oculata showed a significant reduction in biofilm adhesion compared to PDMS and glass controls containing no lubricant. Further experiments on vascularized versus nonvascularized samples that had been subjected to accelerated lubricant evaporation conditions for up to 48 h showed significantly less biofilm adherence on the vascularized surfaces. These results demonstrate the ability of an embedded lubricant-filled vascular network to improve the longevity of fouling-release surfaces.« less

Self-Replenishing Vascularized Fouling-Release Surfaces

DOE PAGES

Howell, Caitlin; Vu, Thy L.; Lin, Jennifer J.; ...

2014-08-13

Inspired by the long-term effectiveness of living antifouling materials, we have developed a method for the selfreplenishment of synthetic biofouling-release surfaces. These surfaces are created by either molding or directly embedding 3D vascular systems into polydimethylsiloxane (PDMS) and filling them with a silicone oil to generate a nontoxic oil-infused material. When replenished with silicone oil from an outside source, these materials are capable of self-lubrication and continuous renewal of the interfacial fouling-release layer. Under accelerated lubricant loss conditions, fully infused vascularized samples retained significantly more lubricant than equivalent nonvascularized controls. Tests of lubricant-infused PDMS in static cultures of the infectiousmore » bacteria Staphylococcus aureus and Escherichia coli as well as the green microalgae Botryococcus braunii, Chlamydomonas reinhardtii, Dunaliella salina, and Nannochloropsis oculata showed a significant reduction in biofilm adhesion compared to PDMS and glass controls containing no lubricant. Further experiments on vascularized versus nonvascularized samples that had been subjected to accelerated lubricant evaporation conditions for up to 48 h showed significantly less biofilm adherence on the vascularized surfaces. These results demonstrate the ability of an embedded lubricant-filled vascular network to improve the longevity of fouling-release surfaces.« less

Design of biomimetic catalysts by molecular imprinting in synthetic polymers: the role of transition state stabilization.

PubMed

Wulff, Günter; Liu, Junqiu

2012-02-21

The impressive efficiency and selectivity of biological catalysts has engendered a long-standing effort to understand the details of enzyme action. It is widely accepted that enzymes accelerate reactions through their steric and electronic complementarity to the reactants in the rate-determining transition states. Thus, tight binding to the transition state of a reactant (rather than to the corresponding substrate) lowers the activation energy of the reaction, providing strong catalytic activity. Debates concerning the fundamentals of enzyme catalysis continue, however, and non-natural enzyme mimics offer important additional insight in this area. Molecular structures that mimic enzymes through the design of a predetermined binding site that stabilizes the transition state of a desired reaction are invaluable in this regard. Catalytic antibodies, which can be quite active when raised against stable transition state analogues of the corresponding reaction, represent particularly successful examples. Recently, synthetic chemistry has begun to match nature's ability to produce antibody-like binding sites with high affinities for the transition state. Thus, synthetic, molecularly imprinted polymers have been engineered to provide enzyme-like specificity and activity, and they now represent a powerful tool for creating highly efficient catalysts. In this Account, we review recent efforts to develop enzyme models through the concept of transition state stabilization. In particular, models for carboxypeptidase A were prepared through the molecular imprinting of synthetic polymers. On the basis of successful experiments with phosphonic esters as templates to arrange amidinium groups in the active site, the method was further improved by combining the concept of transition state stabilization with the introduction of special catalytic moieties, such as metal ions in a defined orientation in the active site. In this way, the imprinted polymers were able to provide both an electrostatic stabilization for the transition state through the amidinium group as well as a synergism of transition state recognition and metal ion catalysis. The result was an excellent catalyst for carbonate hydrolysis. These enzyme mimics represent the most active catalysts ever prepared through the molecular imprinting strategy. Their catalytic activity, catalytic efficiency, and catalytic proficiency clearly surpass those of the corresponding catalytic antibodies. The active structures in natural enzymes evolve within soluble proteins, typically by the refining of the folding of one polypeptide chain. To incorporate these characteristics into synthetic polymers, we used the concept of transition state stabilization to develop soluble, nanosized carboxypeptidase A models using a new polymerization method we term the "post-dilution polymerization method". With this methodology, we were able to prepare soluble, highly cross-linked, single-molecule nanoparticles. These particles have controlled molecular weights (39 kDa, for example) and, on average, one catalytically active site per particle. Our strategies have made it possible to obtain efficient new enzyme models and further advance the structural and functional analogy with natural enzymes. Moreover, this bioinspired design based on molecular imprinting in synthetic polymers offers further support for the concept of transition state stabilization in catalysis.

Robust and transferable quantification of NMR spectral quality using IROC analysis

NASA Astrophysics Data System (ADS)

Zambrello, Matthew A.; Maciejewski, Mark W.; Schuyler, Adam D.; Weatherby, Gerard; Hoch, Jeffrey C.

2017-12-01

Non-Fourier methods are increasingly utilized in NMR spectroscopy because of their ability to handle nonuniformly-sampled data. However, non-Fourier methods present unique challenges due to their nonlinearity, which can produce nonrandom noise and render conventional metrics for spectral quality such as signal-to-noise ratio unreliable. The lack of robust and transferable metrics (i.e. applicable to methods exhibiting different nonlinearities) has hampered comparison of non-Fourier methods and nonuniform sampling schemes, preventing the identification of best practices. We describe a novel method, in situ receiver operating characteristic analysis (IROC), for characterizing spectral quality based on the Receiver Operating Characteristic curve. IROC utilizes synthetic signals added to empirical data as "ground truth", and provides several robust scalar-valued metrics for spectral quality. This approach avoids problems posed by nonlinear spectral estimates, and provides a versatile quantitative means of characterizing many aspects of spectral quality. We demonstrate applications to parameter optimization in Fourier and non-Fourier spectral estimation, critical comparison of different methods for spectrum analysis, and optimization of nonuniform sampling schemes. The approach will accelerate the discovery of optimal approaches to nonuniform sampling experiment design and non-Fourier spectrum analysis for multidimensional NMR.

Automatic design of synthetic gene circuits through mixed integer non-linear programming.

PubMed

Huynh, Linh; Kececioglu, John; Köppe, Matthias; Tagkopoulos, Ilias

2012-01-01

Automatic design of synthetic gene circuits poses a significant challenge to synthetic biology, primarily due to the complexity of biological systems, and the lack of rigorous optimization methods that can cope with the combinatorial explosion as the number of biological parts increases. Current optimization methods for synthetic gene design rely on heuristic algorithms that are usually not deterministic, deliver sub-optimal solutions, and provide no guaranties on convergence or error bounds. Here, we introduce an optimization framework for the problem of part selection in synthetic gene circuits that is based on mixed integer non-linear programming (MINLP), which is a deterministic method that finds the globally optimal solution and guarantees convergence in finite time. Given a synthetic gene circuit, a library of characterized parts, and user-defined constraints, our method can find the optimal selection of parts that satisfy the constraints and best approximates the objective function given by the user. We evaluated the proposed method in the design of three synthetic circuits (a toggle switch, a transcriptional cascade, and a band detector), with both experimentally constructed and synthetic promoter libraries. Scalability and robustness analysis shows that the proposed framework scales well with the library size and the solution space. The work described here is a step towards a unifying, realistic framework for the automated design of biological circuits.

Toward Intelligent Synthetic Neural Circuits: Directing and Accelerating Neuron Cell Growth by Self-Rolled-Up Silicon Nitride Microtube Array

PubMed Central

2015-01-01

In neural interface platforms, cultures are often carried out on a flat, open, rigid, and opaque substrate, posing challenges to reflecting the native microenvironment of the brain and precise engagement with neurons. Here we present a neuron cell culturing platform that consists of arrays of ordered microtubes (2.7–4.4 μm in diameter), formed by strain-induced self-rolled-up nanomembrane (s-RUM) technology using ultrathin (<40 nm) silicon nitride (SiNx) film on transparent substrates. These microtubes demonstrated robust physical confinement and unprecedented guidance effect toward outgrowth of primary cortical neurons, with a coaxially confined configuration resembling that of myelin sheaths. The dynamic neural growth inside the microtube, evaluated with continuous live-cell imaging, showed a marked increase (20×) of the growth rate inside the microtube compared to regions outside the microtubes. We attribute the dramatic accelerating effect and precise guiding of the microtube array to three-dimensional (3D) adhesion and electrostatic interaction with the SiNx microtubes, respectively. This work has clear implications toward building intelligent synthetic neural circuits by arranging the size, site, and patterns of the microtube array, for potential treatment of neurological disorders. PMID:25329686

Stochastic strong motion generation using slip model of 21 and 22 May 1960 mega-thrust earthquakes in the main cities of Central-South Chile

NASA Astrophysics Data System (ADS)

Ruiz, S.; Ojeda, J.; DelCampo, F., Sr.; Pasten, C., Sr.; Otarola, C., Sr.; Silva, R., Sr.

2017-12-01

In May 1960 took place the most unusual seismic sequence registered instrumentally. The Mw 8.1, Concepción earthquake occurred May, 21, 1960. The aftershocks of this event apparently migrated to the south-east, and the Mw 9.5, Valdivia mega-earthquake occurred after 33 hours. The structural damage produced by both events is not larger than other earthquakes in Chile and lower than crustal earthquakes of smaller magnitude. The damage was located in the sites with shallow soil layers of low shear wave velocity (Vs). However, no seismological station recorded this sequence. For that reason, we generate synthetic acceleration times histories for strong motion in the main cities affected by these events. We use 155 points of vertical surface displacements recopiled by Plafker and Savage in 1968, and considering the observations of this authors and local residents we separated the uplift and subsidence information associated to the first earthquake Mw 8.1 and the second mega-earthquake Mw 9.5. We consider the elastic deformation propagation, assume realist lithosphere geometry, and compute a Bayesian method that maximizes the probability density a posteriori to obtain the slip distribution. Subsequently, we use a stochastic method of generation of strong motion considering the finite fault model obtained for both earthquakes. We considered the incidence angle of ray to the surface, free surface effect and energy partition for P, SV and SH waves, dynamic corner frequency and the influence of site effect. The results show that the earthquake Mw 8.1 occurred down-dip the slab, the strong motion records are similar to other Chilean earthquake like Tocopilla Mw 7.7 (2007). For the Mw 9.5 earthquake we obtain synthetic acceleration time histories with PGA values around 0.8 g in cities near to the maximum asperity or that have low velocity soil layers. This allows us to conclude that strong motion records have important influence of the shallow soil deposits. These records correlate well with our structural damage observations.

Method for producing and regenerating a synthetic CO.sub.2 acceptor

DOEpatents

Lancet, Michael S [Pittsburgh, PA; Curran, George P [Pittsburgh, PA; Gorin, Everett [San Rafael, CA

1982-01-01

A method for producing a synthetic CO.sub.2 acceptor by feeding a mixture of finely divided silica and at least one finely divided calcium compound selected from the group consisting of calcium oxide and calcium carbonate to a fluidized bed; operating the fluidized bed at suitable conditions to produce pellets of synthetic CO.sub.2 acceptor and recovering the pellets of synthetic CO.sub.2 acceptor from the fluidized bed. Optionally, spent synthetic CO.sub.2 acceptor can be charged to the fluidized bed to produce regenerated pellets of synthetic CO.sub.2 acceptor.

Method for producing and regenerating a synthetic CO[sub 2] acceptor

DOEpatents

Lancet, M. S.; Curran, G. P.; Gorin, E.

1982-05-18

A method is described for producing a synthetic CO[sub 2] acceptor by feeding a mixture of finely divided silica and at least one finely divided calcium compound selected from the group consisting of calcium oxide and calcium carbonate to a fluidized bed; operating the fluidized bed at suitable conditions to produce pellets of synthetic CO[sub 2] acceptor and recovering the pellets of synthetic CO[sub 2] acceptor from the fluidized bed. Optionally, spent synthetic CO[sub 2] acceptor can be charged to the fluidized bed to produce regenerated pellets of synthetic CO[sub 2] acceptor. 1 fig.

Vacuum-assisted decellularization: an accelerated protocol to generate tissue-engineered human tracheal scaffolds.

PubMed

Butler, Colin R; Hynds, Robert E; Crowley, Claire; Gowers, Kate H C; Partington, Leanne; Hamilton, Nicholas J; Carvalho, Carla; Platé, Manuela; Samuel, Edward R; Burns, Alan J; Urbani, Luca; Birchall, Martin A; Lowdell, Mark W; De Coppi, Paolo; Janes, Sam M

2017-04-01

Patients with large tracheal lesions unsuitable for conventional endoscopic or open operations may require a tracheal replacement but there is no present consensus of how this may be achieved. Tissue engineering using decellularized or synthetic tracheal scaffolds offers a new avenue for airway reconstruction. Decellularized human donor tracheal scaffolds have been applied in compassionate-use clinical cases but naturally derived extracellular matrix (ECM) scaffolds demand lengthy preparation times. Here, we compare a clinically applied detergent-enzymatic method (DEM) with an accelerated vacuum-assisted decellularization (VAD) protocol. We examined the histological appearance, DNA content and extracellular matrix composition of human donor tracheae decellularized using these techniques. Further, we performed scanning electron microscopy (SEM) and biomechanical testing to analyze decellularization performance. To assess the biocompatibility of scaffolds generated using VAD, we seeded scaffolds with primary human airway epithelial cells in vitro and performed in vivo chick chorioallantoic membrane (CAM) and subcutaneous implantation assays. Both DEM and VAD protocols produced well-decellularized tracheal scaffolds with no adverse mechanical effects and scaffolds retained the capacity for in vitro and in vivo cellular integration. We conclude that the substantial reduction in time required to produce scaffolds using VAD compared to DEM (approximately 9 days vs. 3-8 weeks) does not compromise the quality of human tracheal scaffold generated. These findings might inform clinical decellularization techniques as VAD offers accelerated scaffold production and reduces the associated costs. Copyright © 2017 The Authors. Published by Elsevier Ltd.. All rights reserved.

Smart-DS: Synthetic Models for Advanced, Realistic Testing: Distribution Systems and Scenarios

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

Krishnan, Venkat K; Palmintier, Bryan S; Hodge, Brian S

The National Renewable Energy Laboratory (NREL) in collaboration with Massachusetts Institute of Technology (MIT), Universidad Pontificia Comillas (Comillas-IIT, Spain) and GE Grid Solutions, is working on an ARPA-E GRID DATA project, titled Smart-DS, to create: 1) High-quality, realistic, synthetic distribution network models, and 2) Advanced tools for automated scenario generation based on high-resolution weather data and generation growth projections. Through these advancements, the Smart-DS project is envisioned to accelerate the development, testing, and adoption of advanced algorithms, approaches, and technologies for sustainable and resilient electric power systems, especially in the realm of U.S. distribution systems. This talk will present themore » goals and overall approach of the Smart-DS project, including the process of creating the synthetic distribution datasets using reference network model (RNM) and the comprehensive validation process to ensure network realism, feasibility, and applicability to advanced use cases. The talk will provide demonstrations of early versions of synthetic models, along with the lessons learnt from expert engagements to enhance future iterations. Finally, the scenario generation framework, its development plans, and co-ordination with GRID DATA repository teams to house these datasets for public access will also be discussed.« less

Phage Therapy in the Era of Synthetic Biology.

PubMed

Barbu, E Magda; Cady, Kyle C; Hubby, Bolyn

2016-10-03

For more than a century, bacteriophage (or phage) research has enabled some of the most important discoveries in biological sciences and has equipped scientists with many of the molecular biology tools that have advanced our understanding of replication, maintenance, and expression of genetic material. Phages have also been recognized and exploited as natural antimicrobial agents and nanovectors for gene therapy, but their potential as therapeutics has not been fully exploited in Western medicine because of challenges such as narrow host range, bacterial resistance, and unique pharmacokinetics. However, increasing concern related to the emergence of bacteria resistant to multiple antibiotics has heightened interest in phage therapy and the development of strategies to overcome hurdles associated with bacteriophage therapeutics. Recent progress in sequencing technologies, DNA manipulation, and synthetic biology allowed scientists to refactor the entire bacterial genome of Mycoplasma mycoides, thereby creating the first synthetic cell. These new strategies for engineering genomes may have the potential to accelerate the construction of designer phage genomes with superior therapeutic potential. Here, we discuss the use of phage as therapeutics, as well as how synthetic biology can create bacteriophage with desirable attributes. Copyright © 2016 Cold Spring Harbor Laboratory Press; all rights reserved.

Angular Multigrid Preconditioner for Krylov-Based Solution Techniques Applied to the Sn Equations with Highly Forward-Peaked Scattering

NASA Astrophysics Data System (ADS)

Turcksin, Bruno; Ragusa, Jean C.; Morel, Jim E.

2012-01-01

It is well known that the diffusion synthetic acceleration (DSA) methods for the Sn equations become ineffective in the Fokker-Planck forward-peaked scattering limit. In response to this deficiency, Morel and Manteuffel (1991) developed an angular multigrid method for the 1-D Sn equations. This method is very effective, costing roughly twice as much as DSA per source iteration, and yielding a maximum spectral radius of approximately 0.6 in the Fokker-Planck limit. Pautz, Adams, and Morel (PAM) (1999) later generalized the angular multigrid to 2-D, but it was found that the method was unstable with sufficiently forward-peaked mappings between the angular grids. The method was stabilized via a filtering technique based on diffusion operators, but this filtering also degraded the effectiveness of the overall scheme. The spectral radius was not bounded away from unity in the Fokker-Planck limit, although the method remained more effective than DSA. The purpose of this article is to recast the multidimensional PAM angular multigrid method without the filtering as an Sn preconditioner and use it in conjunction with the Generalized Minimal RESidual (GMRES) Krylov method. The approach ensures stability and our computational results demonstrate that it is also significantly more efficient than an analogous DSA-preconditioned Krylov method.

Radiation from Accelerated Particles in Shocks and Reconnections

NASA Technical Reports Server (NTRS)

Nishikawa, K.-I.; Zhang, B.; Niemiec, J.; Medvedev, M.; Hardee, P.; Mizuno, Y.; Nordlund, A.; Frederiksen, J. T.; Sol, H.; Pohl, M.;

Study of the heat stability of sunflower oil enriched in natural antioxidants by different analytical techniques and front-face fluorescence spectroscopy combined with Independent Components Analysis.

PubMed

Ammari, Faten; Jouan-Rimbaud-Bouveresse, Delphine; Boughanmi, Néziha; Rutledge, Douglas N

2012-09-15

The aim of this study was to find objective analytical methods to study the degradation of edible oils during heating and thus to suggest solutions to improve their stability. The efficiency of Nigella seed extract as natural antioxidant was compared with butylated hydroxytoluene (BHT) during accelerated oxidation of edible vegetable oils at 120 and 140 °C. The modifications during heating were monitored by 3D-front-face fluorescence spectroscopy along with Independent Components Analysis (ICA), (1)H NMR spectroscopy and classical physico-chemical methods such as anisidine value and viscosity. The results of the study clearly indicate that the natural seed extract at a level of 800 ppm exhibited antioxidant effects similar to those of the synthetic antioxidant BHT at a level of 200 ppm and thus contributes to an increase in the oxidative stability of the oil. Copyright © 2012 Elsevier B.V. All rights reserved.

Biosynthesis and genetic encoding of phosphothreonine through parallel selection and deep sequencing

PubMed Central

Huguenin-Dezot, Nicolas; Liang, Alexandria D.; Schmied, Wolfgang H.; Rogerson, Daniel T.; Chin, Jason W.

2017-01-01

The phosphorylation of threonine residues in proteins regulates diverse processes in eukaryotic cells, and thousands of threonine phosphorylations have been identified. An understanding of how threonine phosphorylation regulates biological function will be accelerated by general methods to bio-synthesize defined phospho-proteins. Here we address limitations in current methods for discovering aminoacyl-tRNA synthetase/tRNA pairs for incorporating non-natural amino acids into proteins, by combining parallel positive selections with deep sequencing and statistical analysis, to create a rapid approach for directly discovering aminoacyl-tRNA synthetase/tRNA pairs that selectively incorporate non-natural substrates. Our approach is scalable and enables the direct discovery of aminoacyl-tRNA synthetase/tRNA pairs with mutually orthogonal substrate specificity. We biosynthesize phosphothreonine in cells, and use our new selection approach to discover a phosphothreonyl-tRNA synthetase/tRNACUA pair. By combining these advances we create an entirely biosynthetic route to incorporating phosphothreonine in proteins and biosynthesize several phosphoproteins; enabling phosphoprotein structure determination and synthetic protein kinase activation. PMID:28553966

A Sweet Spot for Molecular Diagnostics: Coupling Isothermal Amplification and Strand Exchange Circuits to Glucometers

NASA Astrophysics Data System (ADS)

Du, Yan; Hughes, Randall A.; Bhadra, Sanchita; Jiang, Yu Sherry; Ellington, Andrew D.; Li, Bingling

2015-06-01

Strand exchange nucleic acid circuitry can be used to transduce isothermal nucleic acid amplification products into signals that can be readable on an off-the-shelf glucometer. Loop-mediated isothermal amplification (LAMP) is limited by the accumulation of non-specific products, but nucleic acid circuitry can be used to probe and distinguish specific amplicons. By combining this high temperature isothermal amplification method with a thermostable invertase, we can directly transduce Middle-East respiratory syndrome coronavirus and Zaire Ebolavirus templates into glucose signals, with a sensitivity as low as 20-100 copies/μl, equating to atto-molar (or low zepto-mole). Virus from cell lysates and synthetic templates could be readily amplified and detected even in sputum or saliva. An OR gate that coordinately triggered on viral amplicons further guaranteed fail-safe virus detection. The method describes has potential for accelerating point-of-care applications, in that biological samples could be applied to a transducer that would then directly interface with an off-the-shelf, approved medical device.

A simple fluorescence-based assay for quantification of the Toll-Like Receptor agonist E6020 in vaccine formulations.

PubMed

Pollet, Jeroen; Versteeg, Leroy; Rezende, Wanderson; Strych, Ulrich; Gusovsky, Fabian; Hotez, Peter J; Bottazzi, Maria Elena

2017-03-07

Despite the generally accepted immunostimulatory effect of Toll-Like Receptor 4 (TLR4) agonists and their value as vaccine adjuvants, there remains a demand for fast and easy quantification assays for these TLR4 agonists in order to accelerate and improve vaccine formulation studies. A new medium-throughput method was developed for the quantification of the TLR4 agonist, E6020, independent of the formulation composition. The assay uses a fluorescent hydrazide (DCCH) to label the synthetic lipopolysaccharide (LPS) analog E6020 through its diketone groups. This novel, low-cost, and fluorescence based assay may obviate the need for traditional approaches that primarily rely on Fourier transform infrared spectroscopy (FTIR) or mass spectrometry. The experiments were performed in a wide diversity of vaccine formulations containing E6020 to assess method robustness and accuracy. The assay was also expanded to evaluate the loading efficiency of E6020 in poly(lactic-co-glycolic acid) (PLGA) micro-particles. Copyright © 2017 Elsevier Ltd. All rights reserved.

Cell-free protein synthesis in micro compartments: building a minimal cell from biobricks.

PubMed

Jia, Haiyang; Heymann, Michael; Bernhard, Frank; Schwille, Petra; Kai, Lei

2017-10-25

The construction of a minimal cell that exhibits the essential characteristics of life is a great challenge in the field of synthetic biology. Assembling a minimal cell requires multidisciplinary expertise from physics, chemistry and biology. Scientists from different backgrounds tend to define the essence of 'life' differently and have thus proposed different artificial cell models possessing one or several essential features of living cells. Using the tools and methods of molecular biology, the bottom-up engineering of a minimal cell appears in reach. However, several challenges still remain. In particular, the integration of individual sub-systems that is required to achieve a self-reproducing cell model presents a complex optimization challenge. For example, multiple self-organisation and self-assembly processes have to be carefully tuned. We review advances and developments of new methods and techniques, for cell-free protein synthesis as well as micro-fabrication, for their potential to resolve challenges and to accelerate the development of minimal cells. Copyright © 2017 Elsevier B.V. All rights reserved.

Biotechnology and synthetic biology approaches for metabolic engineering of bioenergy crops.

PubMed

Shih, Patrick M; Liang, Yan; Loqué, Dominique

2016-07-01

The Green Revolution has fuelled an exponential growth in human population since the mid-20th century. Due to population growth, food and energy demands will soon surpass supply capabilities. To overcome these impending problems, significant improvements in genetic engineering will be needed to complement breeding efforts in order to accelerate the improvement of agronomical traits. The new field of plant synthetic biology has emerged in recent years and is expected to support rapid, precise, and robust engineering of plants. In this review, we present recent advances made in the field of plant synthetic biology, specifically in genome editing, transgene expression regulation, and bioenergy crop engineering, with a focus on traits related to lignocellulose, oil, and soluble sugars. Ultimately, progress and innovation in these fields may facilitate the development of beneficial traits in crop plants to meet society's bioenergy needs. © 2016 The Authors. The Plant Journal published by Society for Experimental Biology and John Wiley & Sons Ltd.

Automatic Design of Synthetic Gene Circuits through Mixed Integer Non-linear Programming

PubMed Central

Huynh, Linh; Kececioglu, John; Köppe, Matthias; Tagkopoulos, Ilias

2012-01-01

Automatic design of synthetic gene circuits poses a significant challenge to synthetic biology, primarily due to the complexity of biological systems, and the lack of rigorous optimization methods that can cope with the combinatorial explosion as the number of biological parts increases. Current optimization methods for synthetic gene design rely on heuristic algorithms that are usually not deterministic, deliver sub-optimal solutions, and provide no guaranties on convergence or error bounds. Here, we introduce an optimization framework for the problem of part selection in synthetic gene circuits that is based on mixed integer non-linear programming (MINLP), which is a deterministic method that finds the globally optimal solution and guarantees convergence in finite time. Given a synthetic gene circuit, a library of characterized parts, and user-defined constraints, our method can find the optimal selection of parts that satisfy the constraints and best approximates the objective function given by the user. We evaluated the proposed method in the design of three synthetic circuits (a toggle switch, a transcriptional cascade, and a band detector), with both experimentally constructed and synthetic promoter libraries. Scalability and robustness analysis shows that the proposed framework scales well with the library size and the solution space. The work described here is a step towards a unifying, realistic framework for the automated design of biological circuits. PMID:22536398

Synthetic IRIS spectra of the solar transition region: Effect of high-energy tails

NASA Astrophysics Data System (ADS)

Dzifčáková, E.; Vocks, C.; Dudík, J.

2017-06-01

Aims: The solar transition region satisfies the conditions for presence of non-Maxwellian electron energy distributions with high-energy tails at energies corresponding to the ionization potentials of many ions emitting in the extreme-ultraviolet and ultraviolet portions of the spectrum. Methods: We calculate the synthetic Si iv, O iv, and S iv spectra in the far ultraviolet channel of the Interface Region Imaging Spectrograph (IRIS). Ionization, recombination, and excitation rates are obtained by integration of the cross-sections or their approximations over the model electron distributions considering particle propagation from the hotter corona. Results: The ionization rates are significantly affected by the presence of high-energy tails. This leads to the peaks of the relative abundance of individual ions to be broadened with pronounced low-temperature shoulders. As a result, the contribution functions of individual lines observable by IRIS also exhibit low-temperature shoulders, or their peaks are shifted to temperatures an order of magnitude lower than for the Maxwellian distribution. The integrated emergent spectra can show enhancements of Si iv compared to O iv by more than a factor of two. Conclusions: The high-energy particles can have significant impact on the emergent spectra and their presence needs to be considered even in situations without strong local acceleration.

Insecticide cytotoxicology in China: Current status and challenges.

PubMed

Zhong, Guohua; Cui, Gaofeng; Yi, Xin; Sun, Ranran; Zhang, Jingjing

2016-09-01

The insecticide cytotoxicology, as a new branch of toxicology, has rapidly developed in China. During the past twenty years, thousands of investigations have sprung up to evaluate the damages and clarify the mechanisms of insecticidal chemical substances to insect cells in vivo or in vitro. The mechanisms of necrosis, apoptosis or autophagy induced by synthetic or biogenic pesticides and virus infections have been systematically illuminated in many important models, including S2, BmN, SL-1, Sf21 and Sf9 cell lines. In addition, a variety of methods have also been applied to examine the effects of insecticides and elaborate the modes of action. As a result, many vital factors and pathways, such as cytochrome c, the Bcl-2 family and caspases, in mitochondrial signaling pathways, intracellular free calcium and lysosome signal pathways have been illuminated and drawn much attention. Benefiting from the application of insecticide cytotoxicology, natural products purifications, biological activities assessments of synthetic compounds and high throughput screening models have been accelerated in China. However, many questions remained, and there exist great challenges, especially in theory system, evaluation criterion, evaluation model, relationship between activity in vitro and effectiveness in vivo, and the toxicological mechanism. Fortunately, the generation of "omics" could bring opportunities for the development of insecticide cytotoxicology. Copyright © 2016 Elsevier B.V. All rights reserved.

Modelling the future Israel EEWS performance using synthetic catalogue

NASA Astrophysics Data System (ADS)

Pinsky, V.

2017-10-01

In 2012 June, Israel government decided about building an Earthquake Early Warning System (EEWS) in the country. The network configuration suggested was to be a staggered line of ˜100 stations along the regional main faults: Dead Sea fault and Carmel fault and additional ˜22 stations spread over the country. The EEWS alarm system should have to utilize two approaches: the P-wave-based algorithm combined with the S-threshold method. The former utilizes first wave arrivals to several closest stations for prompt location and the three initial seconds of the waveform data for magnitude estimation. The latter issues alarm when the surface shaking (velocity or acceleration) exceeds the relatively high threshold corresponding to a magnitude 5 earthquake at a short distance of about 10 km at least for the two neighbouring stations. For each of the approaches and for a reasonable combination of them, we simulate the EEWS performance based on a synthetic catalogue. The input seismicity parameters for the processing are extracted from the real instrumental catalogue. Using a general ground-motion prediction equations for peak ground accelaration, τc and Pd we then evaluate how false and missed alarm rates depend on the corresponding thresholds. Practically, in turn, these dependencies approve choosing initial thresholds for the EEWS providing suitable false and missed alarms rates.

Selective transformations of complex molecules are enabled by aptameric protective groups

NASA Astrophysics Data System (ADS)

Bastian, Andreas A.; Marcozzi, Alessio; Herrmann, Andreas

2012-10-01

Emerging trends in drug discovery are prompting a renewed interest in natural products as a source of chemical diversity and lead structures. However, owing to the structural complexity of many natural compounds, the synthesis of derivatives is not easily realized. Here, we demonstrate a conceptually new approach using oligonucleotides as aptameric protective groups. These block several functionalities by non-covalent interactions in a complex molecule and enable the highly chemo- and regioselective derivatization (>99%) of natural antibiotics in a single synthetic step with excellent conversions of up to 83%. This technique reveals an important structure-activity relationship in neamine-based antibiotics and should help both to accelerate the discovery of new biologically active structures and to avoid potentially costly and cumbersome synthetic routes.

Anderson acceleration and application to the three-temperature energy equations

NASA Astrophysics Data System (ADS)

An, Hengbin; Jia, Xiaowei; Walker, Homer F.

2017-10-01

The Anderson acceleration method is an algorithm for accelerating the convergence of fixed-point iterations, including the Picard method. Anderson acceleration was first proposed in 1965 and, for some years, has been used successfully to accelerate the convergence of self-consistent field iterations in electronic-structure computations. Recently, the method has attracted growing attention in other application areas and among numerical analysts. Compared with a Newton-like method, an advantage of Anderson acceleration is that there is no need to form the Jacobian matrix. Thus the method is easy to implement. In this paper, an Anderson-accelerated Picard method is employed to solve the three-temperature energy equations, which are a type of strong nonlinear radiation-diffusion equations. Two strategies are used to improve the robustness of the Anderson acceleration method. One strategy is to adjust the iterates when necessary to satisfy the physical constraint. Another strategy is to monitor and, if necessary, reduce the matrix condition number of the least-squares problem in the Anderson-acceleration implementation so that numerical stability can be guaranteed. Numerical results show that the Anderson-accelerated Picard method can solve the three-temperature energy equations efficiently. Compared with the Picard method without acceleration, Anderson acceleration can reduce the number of iterations by at least half. A comparison between a Jacobian-free Newton-Krylov method, the Picard method, and the Anderson-accelerated Picard method is conducted in this paper.

Simultaneous deblending and interpolation using structure-oriented filters

NASA Astrophysics Data System (ADS)

Zhou, Yatong; Li, Song

2018-03-01

Simultaneous source shooting is a modern marine acquisition technology that accelerates field acquisition tremendously. However, we need to carefully remove the spike-like noise in the recorded seismic data, the process of which is called deblending. Considering the field obstacles, the recorded data may also contain missing traces. In this paper, we propose a very efficient way to simultaneously remove the spike-like noise to separate simultaneous sources and fill the data gaps in the recorded data. We propose to apply structure-oriented median and mean filters to reject the spike-like noise and restore the missing data. The commonly used median and mean filters guarantee the efficiency and convenience of the proposed algorithm framework. We use a robust slope estimation method to calculate the local slope of the structure patterns in the seismic data. Both synthetic and field data examples demonstrate the successful performance of the proposed algorithm. When compared with the state-of-the-art FK transform based projection onto convex sets (POCS) method, the presented method can obtain better performance with much less computational cost.

To Investigate the Absorption, Dynamic Contact Angle and Printability Effects of Synthetic Zeolite Pigments in an Inkjet Receptive Coating

NASA Astrophysics Data System (ADS)

Jalindre, Swaraj Sunil

Ink absorption performance in inkjet receptive coatings containing synthetic zeolite pigments was studied. Coating pigment pore and particle size distribution are the key parameters that influence in modifying media surface properties, thus affecting the rate of ink penetration and drying time (Scholkopf, et al. 2004). The primary objective of this study was: (1) to investigate the synthetic zeolite pigment effects on inkjet ink absorption, dynamic contact angle and printability, and (2) to evaluate these novel synthetic zeolite pigments in replacing the fumed silica pigments in conventional inkjet receptive coatings. In this research study, single pigment coating formulations (in equal P:B ratio) were prepared using microporous synthetic zeolite pigments (5A, Organophilic and 13X) and polyvinyl alcohol (PVOH) binder. The laboratory-coated samples were characterized for absorption, air permeance, roughness, drying time, wettability and print fidelity. Based on the rheological data, it was found that the synthetic zeolite formulated coatings depicted a Newtonian flow behavior at low shear; while the industry accepted fumed silica based coatings displayed a characteristically high pseudoplastic flow behavior. Our coated samples generated using microporous synthetic zeolite pigments produced low absorption, reduced wettability and accelerated ink drying characteristics. These characteristics were caused due to the synthetic zeolite pigments, which resulted in relatively closed surface structure coated samples. The research suggested that no single selected synthetic zeolite coating performed better than the conventional fumed silica based coatings. Experimental data also showed that there was no apparent relationship between synthetic zeolite pigment pore sizes and inkjet ink absorption. For future research, above coated samples should be evaluated for pore size distribution using Mercury Porosimeter, which quantifies surface porosity of coated samples. This presented approach can be easily used for investigating other such microporous coating pigments in formulating inkjet receptive coating. The research findings will benefit the coating formulators, engineers and material science students, in understanding the absorption characteristics of selected synthetic zeolite pigments thereby encouraging them in identifying other such alternative pigments in conventional inkjet receptive coatings.

Predicting mesoscale microstructural evolution in electron beam welding

DOE PAGES

Rodgers, Theron M.; Madison, Jonathan D.; Tikare, Veena; ...

2016-03-16

Using the kinetic Monte Carlo simulator, Stochastic Parallel PARticle Kinetic Simulator, from Sandia National Laboratories, a user routine has been developed to simulate mesoscale predictions of a grain structure near a moving heat source. Here, we demonstrate the use of this user routine to produce voxelized, synthetic, three-dimensional microstructures for electron-beam welding by comparing them with experimentally produced microstructures. When simulation input parameters are matched to experimental process parameters, qualitative and quantitative agreement for both grain size and grain morphology are achieved. The method is capable of simulating both single- and multipass welds. As a result, the simulations provide anmore » opportunity for not only accelerated design but also the integration of simulation and experiments in design such that simulations can receive parameter bounds from experiments and, in turn, provide predictions of a resultant microstructure.« less

Template-Directed Ligation of Peptides to Oligonucleotides

NASA Technical Reports Server (NTRS)

Bruick, Richard K.; Dawson, Philip E.; Kent, Stephen BH; Usman, Nassim; Joyce, Gerald F.

1996-01-01

Synthetic oligonucleotides and peptides have enjoyed a wide range of applications in both biology and chemistry. As a consequence, oligonucleotide-peptide conjugates have received considerable attention, most notably in the development of antisense constructs with improved pharmacological properties. In addition, oligonucleotide-peptide conjugates have been used as molecular tags, in the assembly of supramolecular arrays and in the construction of encoded combinatorial libraries. To make these chimeric molecules more accessible for a broad range of investigations, we sought to develop a facile method for joining fully deprotected oligonucleotides and peptides through a stable amide bond linkage. Furthermore, we wished to make this ligation reaction addressable, enabling one to direct the ligation of specific oligonucleotide and peptide components.To confer specificity and accelerate the rate of the reaction, the ligation process was designed to be dependent on the presence of a complementary oligonucleotide template.

Synthetic and semi-synthetic strategies to study ubiquitin signaling.

PubMed

van Tilburg, Gabriëlle Ba; Elhebieshy, Angela F; Ovaa, Huib

2016-06-01

The post-translational modification ubiquitin can be attached to the ɛ-amino group of lysine residues or to a protein's N-terminus as a mono ubiquitin moiety. Via its seven intrinsic lysine residues and its N-terminus, it can also form ubiquitin chains on substrates in many possible ways. To study ubiquitin signals, many synthetic and semi-synthetic routes have been developed for generation of ubiquitin-derived tools and conjugates. The strength of these methods lies in their ability to introduce chemo-selective ligation handles at sites that currently cannot be enzymatically modified. Here, we review the different synthetic and semi-synthetic methods available for ubiquitin conjugate synthesis and their contribution to how they have helped investigating conformational diversity of diubiquitin signals. Next, we discuss how these methods help understanding the ubiquitin conjugation-deconjugation system by recent advances in ubiquitin ligase probes and diubiquitin-based DUB probes. Lastly, we discuss how these methods help studying post-translational modification of ubiquitin itself. Copyright © 2016 Elsevier Ltd. All rights reserved.

Synthetic Decapeptide Enhances Bacterial Clearance and Accelerates Healing in the Wounds of Restraint-Stressed Mice

DTIC Science & Technology

2012-02-06

resistance in cancer . Adv. Drug Deliv. Rev. 54, 759. Kabanov, A.V., Nazarova, I.R., Astafieva, I.V., Batrakova, E.V., Alakhov, Yu, V., Yaroslavov, A.A...S186–S187. Wang, C., Li, M., Dong, D., Wang, J., Ren, J., Otto, M., Gao, Q., 2007. Role of ClpP in biofilm formation and virulence of Staphylococcus

JPRS Report, Science & Technology Europe

DTIC Science & Technology

1988-05-10

given environment essentially depends on three parameters ; these are: • the adhesion between the adhesive and the supports; • the cohesion of the...durability/CND J Electric current under high field/Tensile test at 4 degrees K I Synthetic hydroxyapatite /behavior under friction and wear GB NaCl, s...French programs GB Inventory of accelerated test procedures, correlation among parameters FC Influence of experimental parameters 8615 JPRS-EST-88

Human vaccines & immunotherapeutics: news.

PubMed

Riedmann, Eva M

2013-07-01

Recent advances in the development of immunotherapeutic mAbs for cancer New vaccine reduces malaria infection by 72% Bavarian Nordic's cancer immunotherapy shows promise in colorectal cancer Chinese HFMD vaccine shows high efficacy in Phase 3 Two-dose regimen of Merck's Gardasil looks effective Accelerating influenza vaccine development using synthetic biology A key role for gut microbes in vaccination Understanding of and attitudes towards vaccines: a study in teenagers.

A COMPARISON OF EXTRACTION EFFICIENCIES IN SEAFOOD MATRICES USING A SYNTHETIC STOMACH AND AN ACCELERATED SOLVENT EXTRACTION APPROACH WITH IC-ICP-MS DETECTION

EPA Science Inventory

Seafood is one of the largest sources of dietary arsenic exposure. Because most of the arsenic present is non-toxic (such as arsenobetaine [AsB]), the consumption of seafood is thought to result in a low risk or non-toxic exposure. This can be misleading for two reasons. First...

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

Voigt, Christopher

SEED2014 focused on advances in the science and technology emerging from the field of synthetic biology. We broadly define this as technologies that accelerate the process of genetic engineering. It highlighted new tool development, as well as the application of these tools to diverse problems in biotechnology, including therapeutics, industrial chemicals and fuels, natural products, and agriculture. Systems spanned from in vitro experiments and viruses, through diverse bacteria, to eukaryotes (yeast, mammalian cells, plants).

Synthetic Absorption Lines for a Clumpy Medium: A Spectral Signature for Cloud Acceleration in AGN?

NASA Technical Reports Server (NTRS)

Waters, Tim; Proga, Daniel; Dannen, Randall; Kallman, Timothy R.

2017-01-01

There is increasing evidence that the highly ionized multiphase components of AGN disc winds may be due to thermal instability. The ions responsible for forming the observed X-ray absorption lines may only exist in relatively cool clumps that can be identified with the so-called warm absorbers. Here we calculate synthetic absorption lines for such warm absorbers from first principles by combining 2D hydrodynamic solutions of a two-phase medium with a dense grid of photoionization models to determine the detailed ionization structure of the gas. Our calculations reveal that cloud disruption, which leads to a highly complicated velocity field (i.e. a clumpy flow), will only mildly affect line shapes and strengths when the warm gas becomes highly mixed but not depleted. Prior to complete disruption, clouds that are optically thin to the driving UV resonance lines will cause absorption at an increasingly blueshifted line-of-sight velocity as they are accelerated. This behavior will imprint an identifiable signature on the line profile if warm absorbers are enshrouded in an even broader absorption line produced by a high column of intercloud gas. Interestingly, we show that it is possible to develop a spectral diagnostic for cloud acceleration by differencing the absorption components of a doublet line, a result that can be qualitatively understood using a simple partial covering model. Our calculations also permit us to comment on the spectral differences between cloud disruption and ionization changes driven by flux variability. Notably, cloud disruption offers another possibility for explaining absorption line variability.

Microwave and Millimeter Wave Imaging Using Synthetic Aperture Focusing and Holographical Techniques

NASA Technical Reports Server (NTRS)

Case, Joseph Tobias

2005-01-01

Microwave and millimeter wave nondestructive testing and evaluation (NDT&E) methods have shown great potential for determining material composition in composite structures, determining material thickness or debond thickness between two layers, and determining the location and size of flaws, defects, and anomalies. The same testing methods have also shown great potential to produce relatively high-resolution images of voids inside Spray On Foam Insulation (SOFI) test panels using real focused methods employing lens antennas. An alternative to real focusing methods are synthetic focusing methods. The essence of synthetic focusing is to match the phase of the scattered signal to measured points spaced regularly on a plane. Many variations of synthetic focusing methods have already been developed for radars, ultrasonic testing applications, and microwave concealed weapon detection. Two synthetic focusing methods were investigated; namely, a) frequency-domain synthetic aperture focusing technique (FDSAFT), and b) wide-band microwave holography. These methods were applied towards materials whose defects were of low dielectric contrast like air void in SOFI. It is important to note that this investigation used relatively low frequencies from 8.2 GHz to 26.5 GHz that are not conducive for direct imaging of the SOFI. The ultimate goal of this work has been to demonstrate the capability of these methods before they are applied to much higher frequencies such as the millimeter wave frequency spectrum (e.g., 30-300 GHz).

High Frequency Ground Motion from Finite Fault Rupture Simulations

NASA Astrophysics Data System (ADS)

Crempien, Jorge G. F.

There are many tectonically active regions on earth with little or no recorded ground motions. The Eastern United States is a typical example of regions with active faults, but with low to medium seismicity that has prevented sufficient ground motion recordings. Because of this, it is necessary to use synthetic ground motion methods in order to estimate the earthquake hazard a region might have. Ground motion prediction equations for spectral acceleration typically have geometric attenuation proportional to the inverse of distance away from the fault. Earthquakes simulated with one-dimensional layered earth models have larger geometric attenuation than the observed ground motion recordings. We show that as incident angles of rays increase at welded boundaries between homogeneous flat layers, the transmitted rays decrease in amplitude dramatically. As the receiver distance increases away from the source, the angle of incidence of up-going rays increases, producing negligible transmitted ray amplitude, thus increasing the geometrical attenuation. To work around this problem we propose a model in which we separate wave propagation for low and high frequencies at a crossover frequency, typically 1Hz. The high-frequency portion of strong ground motion is computed with a homogeneous half-space and amplified with the available and more complex one- or three-dimensional crustal models using the quarter wavelength method. We also make use of seismic coda energy density observations as scattering impulse response functions. We incorporate scattering impulse response functions into our Green's functions by convolving the high-frequency homogeneous half-space Green's functions with normalized synthetic scatterograms to reproduce scattering physical effects in recorded seismograms. This method was validated against ground motion for earthquakes recorded in California and Japan, yielding results that capture the duration and spectral response of strong ground motion.

Mass Spectrometric Analysis of Synthetic Organic Pigments.

PubMed

Sugaya, Naeko; Takahashi, Mitsuko; Sakurai, Katsumi; Tanaka, Nobuko; Okubo, Ichiro; Kawakami, Tsuyoshi

2018-04-18

Though synthetic organic colorants are used in various applications nowadays, there is the concern that impurities by-produced during the manufacturing and degradation products in some of these colorants are persistent organic pollutants and carcinogens. Thus, it is important to identify the synthetic organic colorants in various products, such as commercial paints, ink, cosmetics, food, textile, and plastics. Dyes, which are soluble in water and other solvents, could be analyzed by chromatographic methods. In contrast, it is difficult to analyze synthetic organic pigments by these methods because of their insolubility. This review is an overview of mass spectrometric analysis of synthetic organic pigments by various ionization methods. We highlight a recent study of textile samples by atmospheric pressure solid analysis probe MS. Furthermore, the mass spectral features of synthetic organic pigments and their separation from other components such as paint media and plasticizers are discussed.

Research on a dem Coregistration Method Based on the SAR Imaging Geometry

NASA Astrophysics Data System (ADS)

Niu, Y.; Zhao, C.; Zhang, J.; Wang, L.; Li, B.; Fan, L.

2018-04-01

Due to the systematic error, especially the horizontal deviation that exists in the multi-source, multi-temporal DEMs (Digital Elevation Models), a method for high precision coregistration is needed. This paper presents a new fast DEM coregistration method based on a given SAR (Synthetic Aperture Radar) imaging geometry to overcome the divergence and time-consuming problem of the conventional DEM coregistration method. First, intensity images are simulated for two DEMs under the given SAR imaging geometry. 2D (Two-dimensional) offsets are estimated in the frequency domain using the intensity cross-correlation operation in the FFT (Fast Fourier Transform) tool, which can greatly accelerate the calculation process. Next, the transformation function between two DEMs is achieved via the robust least-square fitting of 2D polynomial operation. Accordingly, two DEMs can be precisely coregistered. Last, two DEMs, i.e., one high-resolution LiDAR (Light Detection and Ranging) DEM and one low-resolution SRTM (Shutter Radar Topography Mission) DEM, covering the Yangjiao landslide region of Chongqing are taken as an example to test the new method. The results indicate that, in most cases, this new method can achieve not only a result as much as 80 times faster than the minimum elevation difference (Least Z-difference, LZD) DEM registration method, but also more accurate and more reliable results.

Novel Applications of Donor-Acceptor Cyclopropanes and Dearomatization towards the Expedient Synthesis of Highly Substituted Carbocycles

NASA Astrophysics Data System (ADS)

Mackay, William Daniel

I. Lewis Acid Catalyzed (3+2)-Annulations of Donor-Acceptor Cyclopropanes and Ynamides. The Sc(OTf)3-catalyzed (3+2)-annulation of donor-acceptor cyclopropanes and ynamides is described, providing the corresponding cyclopentene sulfonamides in good to excellent yield. Deprotection and hydrolysis of the resulting cyclopentenesulfonamides delivers 2,3-substituted cyclopentanones with high diastereoselectivity. II. Kinetic Separation and Asymmetric Reactions of Norcaradiene Cycloadducts: Facilitated Access via H2O-Accelerated Cycloaddition. We exploit the Buchner reaction to access 1,2-disubstituted cyclohexadiene synthons (norcaradienes), which participate in H2O-accelerated cycloaddition with dienophiles to provide cyclopropyl-fused [2.2.2]-bicyclooctene derivatives in good yields. Regioisomeric mixtures can be kinetically separated exploiting different reaction rates in Diels-Alder reactions. meso -Diels-Alder products may be enantioselectively desymmetrized, providing highly substituted cyclohexanes with up to seven contiguous stereocenters. III. The Development of Regioisomerically Enriched Buchner Products for Use as Cyclohexadienyl Synthetic Intermediates. We have investigated two conceptual methods to generate highly regioisomerically enriched norcaradienyl intermediates through arene cyclopropanation. Intermolecular Buchner reaction of aryl diazoacetates under either thermolysis or silver(I) catalysis provide expedient routes to single regioisomeric norcaradienes, in some cases favoring the least sterically encumbered site of cyclopropanation. Intramolecular Buchner reaction of benzyl cyanodiazoacetates allow for the site-selective cyclopropanation of the tethered arene, and the installation of an activated cyclopropane for downstream functionalization. Both methods generate norcaradienes that are amenable to further transformations to generate highly stereochemically complex carbocyclic products.

Properties of Asymmetric Detrended Fluctuation Analysis in the time series of RR intervals

NASA Astrophysics Data System (ADS)

Piskorski, J.; Kosmider, M.; Mieszkowski, D.; Krauze, T.; Wykretowicz, A.; Guzik, P.

2018-02-01

Heart rate asymmetry is a phenomenon by which the accelerations and decelerations of heart rate behave differently, and this difference is consistent and unidirectional, i.e. in most of the analyzed recordings the inequalities have the same directions. So far, it has been established for variance and runs based types of descriptors of RR intervals time series. In this paper we apply the newly developed method of Asymmetric Detrended Fluctuation Analysis, which so far has mainly been used with economic time series, to the set of 420 stationary 30 min time series of RR intervals from young, healthy individuals aged between 20 and 40. This asymmetric approach introduces separate scaling exponents for rising and falling trends. We systematically study the presence of asymmetry in both global and local versions of this method. In this study global means "applying to the whole time series" and local means "applying to windows jumping along the recording". It is found that the correlation structure of the fluctuations left over after detrending in physiological time series shows strong asymmetric features in both magnitude, with α+ <α-, where α+ is related to heart rate decelerations and α- to heart rate accelerations, and the proportion of the signal in which the above inequality holds. A very similar effect is observed if asymmetric noise is added to a symmetric self-affine function. No such phenomena are observed in the same physiological data after shuffling or with a group of symmetric synthetic time series.

Using Acceleration Records as Diffuse Fields for Tomography of the Valley of Mexico City: Synthetic Results

NASA Astrophysics Data System (ADS)

Baena, M.; Perton, M.; Molina-Villegas, J. C.; Sanchez-Sesma, F. J.

2013-12-01

In order to improve the understanding of the seismic response of Mexico City Valley, we have proposed to perform a tomography study of the seismic wave velocities. For that purpose, we used a collection of acceleration seismograms (corresponding to earthquakes with magnitudes ranging from 4.5 to 8.1 and various epicentral distances to the City) recorded since 1985 in 83 stations distributed across the Valley. The H/V spectral ratios (obtained from average autocorrelations) strongly suggest these movements belong to a 3D generalized diffuse field. Thus, we interpret that cross-correlations between the signals of station pairs are proportional to the imaginary part of the corresponding Green function. Finally, the dispersion curves are constructed from the Green function which lead to the tomography. Other tomographies have already been made around the world using either the seismic coda or seismic noise. We used instead the ensemble of many earthquakes from distant sources that have undergone multiple scattering by the heterogeneities of the Earth and assume the wave fields are equipartitioned. The purpose of the present study is to describe the different steps of the data processing by using synthetic models. The wave propagation within an alluvial basin is simulated using the Indirect Boundary Element Method (IBEM) in 2D configuration for the propagation of P and SV waves. The theoretical Green function for a station pair is obtained by placing a unit force at one station and a receiver at the other. The valley illumination is composed by incoming waves which are simulated using distant independent sources and several diffractors. Data process is validated by the correct retrieval the theoretical Green function. We present here the in-plane Green function for the P-SV case and show the dispersion curves constructed from the cross-correlations compared with analytic results for a layer over a half-space. ACKNOWLEDGEMENTS. This study is partially supported by AXA Research Fund and by DGAPA-UNAM under Project IN104712.

Dosimetry of cone-defined stereotactic radiosurgery fields with a commercial synthetic diamond detector.

PubMed

Morales, Johnny E; Crowe, Scott B; Hill, Robin; Freeman, Nigel; Trapp, J V

2014-11-01

Small field x-ray beam dosimetry is difficult due to lack of lateral electronic equilibrium, source occlusion, high dose gradients, and detector volume averaging. Currently, there is no single definitive detector recommended for small field dosimetry. The objective of this work was to evaluate the performance of a new commercial synthetic diamond detector, namely, the PTW 60019 microDiamond, for the dosimetry of small x-ray fields as used in stereotactic radiosurgery (SRS). Small field sizes were defined by BrainLAB circular cones (4-30 mm diameter) on a Novalis Trilogy linear accelerator and using the 6 MV SRS x-ray beam mode for all measurements. Percentage depth doses (PDDs) were measured and compared to an IBA SFD and a PTW 60012 E diode. Cross profiles were measured and compared to an IBA SFD diode. Field factors, ΩQclin,Qmsr (fclin,fmsr) , were calculated by Monte Carlo methods using BEAMnrc and correction factors, kQclin,Qmsr (fclin,fmsr) , were derived for the PTW 60019 microDiamond detector. For the small fields of 4-30 mm diameter, there were dose differences in the PDDs of up to 1.5% when compared to an IBA SFD and PTW 60012 E diode detector. For the cross profile measurements the penumbra values varied, depending upon the orientation of the detector. The field factors, ΩQclin,Qmsr (fclin,fmsr) , were calculated for these field diameters at a depth of 1.4 cm in water and they were within 2.7% of published values for a similar linear accelerator. The corrections factors, kQclin,Qmsr (fclin,fmsr) , were derived for the PTW 60019 microDiamond detector. The authors conclude that the new PTW 60019 microDiamond detector is generally suitable for relative dosimetry in small 6 MV SRS beams for a Novalis Trilogy linear equipped with circular cones.

Synthetic Sediments and Stochastic Groundwater Hydrology

NASA Astrophysics Data System (ADS)

Wilson, J. L.

2002-12-01

For over twenty years the groundwater community has pursued the somewhat elusive goal of describing the effects of aquifer heterogeneity on subsurface flow and chemical transport. While small perturbation stochastic moment methods have significantly advanced theoretical understanding, why is it that stochastic applications use instead simulations of flow and transport through multiple realizations of synthetic geology? Allan Gutjahr was a principle proponent of the Fast Fourier Transform method for the synthetic generation of aquifer properties and recently explored new, more geologically sound, synthetic methods based on multi-scale Markov random fields. Focusing on sedimentary aquifers, how has the state-of-the-art of synthetic generation changed and what new developments can be expected, for example, to deal with issues like conceptual model uncertainty, the differences between measurement and modeling scales, and subgrid scale variability? What will it take to get stochastic methods, whether based on moments, multiple realizations, or some other approach, into widespread application?

Retrieving atmospheric turbulence information from regular commercial aircraft using Mode-S and ADS-B

NASA Astrophysics Data System (ADS)

Kopeć, Jacek M.; Kwiatkowski, Kamil; de Haan, Siebren; Malinowski, Szymon P.

2016-05-01

Navigational information broadcast by commercial aircraft in the form of Mode-S EHS (Mode-S Enhanced Surveillance) and ADS-B (Automatic Dependent Surveillance-Broadcast) messages can be considered a new source of upper tropospheric and lower stratospheric turbulence estimates. A set of three processing methods is proposed and analysed using a quality record of turbulence encounters made by a research aircraft.The proposed methods are based on processing the vertical acceleration or the background wind into the eddy dissipation rate. Turbulence intensity can be estimated using the standard content of the Mode-S EHS/ADS-B.The results are based on a Mode-S EHS/ADS-B data set generated synthetically based on the transmissions from the research aircraft. This data set was validated using the overlapping record of the Mode-S EHS/ADS-B received from the same research aircraft. The turbulence intensity, meaning the eddy dissipation rate, obtained from the proposed methods based on the Mode-S EHS/ADS-B is compared with the value obtained using on-board accelerometer. The results of the comparison indicate the potential of the methods. The advantages and limitation of the presented approaches are discussed.

Photoreactive synthetic regulator of protein function and methods of use thereof

DOEpatents

Trauner, Dirk; Isacoff, Ehud Y; Kramer, Richard H; Banghart, Matthew R; Fortin, Doris L; Mourot, Alexandre

2015-03-31

The present disclosure provides a photoreactive synthetic regulator of protein function. The present disclosure further provides a light-regulated polypeptide that includes a subject synthetic regulator. Also provided are cells and membranes comprising a subject light-regulated polypeptide. The present disclosure further provides methods of modulating protein function, involving use of light.

Method of removing contaminants from plastic resins

DOEpatents

Bohnert, George W.; Hand, Thomas E.; DeLaurentiis, Gary M.

2008-11-18

A method for removing contaminants from synthetic resin material containers using a first organic solvent system and a second carbon dioxide system. The organic solvent is utilized for removing the contaminants from the synthetic resin material and the carbon dioxide is used to separate any residual organic solvent from the synthetic resin material.

Method of removing contaminants from plastic resins

DOEpatents

Bohnert, George W [Harrisonville, MO; Hand, Thomas E [Lee's Summit, MO; Delaurentiis, Gary M [Jamestown, CA

2007-08-07

A method for removing contaminants from synthetic resin material containers using a first organic solvent system and a second carbon dioxide system. The organic solvent is utilized for removing the contaminants from the synthetic resin material and the carbon dioxide is used to separate any residual organic solvent from the synthetic resin material.

Method for removing contaminants from plastic resin

DOEpatents

Bohnert, George W.; Hand, Thomas E.; DeLaurentiis, Gary M.

2008-12-30

A method for removing contaminants from synthetic resin material containers using a first organic solvent system and a second carbon dioxide system. The organic solvent is utilized for removing the contaminants from the synthetic resin material and the carbon dioxide is used to separate any residual organic solvent from the synthetic resin material.

Synthetic orocutaneous stimulation entrains preterm infants with feeding difficulties to suck

PubMed Central

Barlow, SM; Finan, DS; Lee, J; Chu, S

2013-01-01

Background Prematurity can disrupt the development of a specialized neural circuit known as suck central pattern generator (sCPG), which often leads to poor feeding skills. The extent to which suck can be entrained using a synthetically patterned orocutaneous input to promote its development in preterm infants who lack a functional suck is unknown. Objective To evaluate the effects of a new motorized ‘pulsating’ pacifier capable of entraining the sCPG in tube-fed premature infants who lack a functional suck and exhibit feeding disorders. Methods Prospective cohort study of 31 preterm infants assigned to either the oral patterned entrainment intervention (study) or non-treated (controls) group, matched by gestational age, birth weight, oxygen supplementation history, and oral feed status. Study infants received a daily regimen of orocutaneous pulse trains through a pneumatically-controlled silicone pacifier concurrent with gavage feeds. Results The patterned orocutaneous stimulus was highly effective in accelerating the development of NNS in preterm infants. A repeated-measure multivariate analysis of covariance revealed significant increases in minute-rates for total oral compressions, NNS bursts, and NNS cycles, suck cycles per burst, and the ratiometric measure of NNS cycles as a percentage of total ororhythmic output. Moreover, study infants also manifest significantly greater success at achieving oral feeds, surpassing their control counterparts by a factor of 3.1× (72.8% daily oral feed versus 23.3% daily oral feed, respectively). Conclusion Functional expression of the sCPG among preterm infants who lack an organized suck can be induced through the delivery of synthetically patterned orocutaneous pulse trains. The rapid emergence of NNS in treated infants is accompanied by a significant increase in the proportion of nutrient taken orally. PMID:18548084

The Effectiveness of Rambutan (Nephelium lappaceum L.) Extract in Stabilization of Sunflower Oil under Accelerated Conditions

PubMed Central

Mei, Winne Sia Chiaw; Ismail, Amin; Mohd. Esa, Norhaizan; Akowuah, Gabriel Akyirem; Wai, Ho Chun; Seng, Yim Hip

2014-01-01

The oxidative properties of sunflower oil supplemented with rambutan extract, (crude extract and its fractionated fraction, SF II) in comparison with synthetic antioxidant were investigated. The supplemented sunflower oils were stored under accelerated conditions for 24 days at 60 °C. For every 6-day interval, the oxidative properties of the supplemented sunflower oil were evaluated based on the following tests, namely peroxide value, p-anisidine value, Thiobarbituric Acid Reactive Substances (TBARS) assay, iodine value and free fatty acids. The total oxidation (TOTOX) values were also calculated based on the peroxide values and p-anisidine values. Rambutan extract is a potential source of antioxidant. The oxidative activities of the extracts at all concentrations were significantly (p < 0.05) higher than the control. Generally, the partially fractionated fraction was more effective than the crude extract. With a 2-year storage period at ambient temperature, the fractionated fraction of the extract, SF II at 300 ppm, was observed to work more effectively than the synthetic antioxidant, t-Tocopherol, and it possessed a protective effect comparable with butylatedhydrioxynanisole (BHA). Therefore, rambutan extract could be used as a potential alternative source of antioxidant in the oil industry or other fat-based products to delay lipid oxidation. PMID:26784877

The Effectiveness of Rambutan (Nephelium lappaceum L.) Extract in Stabilization of Sunflower Oil under Accelerated Conditions.

PubMed

Mei, Winne Sia Chiaw; Ismail, Amin; Esa, Norhaizan Mohd; Akowuah, Gabriel Akyirem; Wai, Ho Chun; Seng, Yim Hip

2014-05-09

The oxidative properties of sunflower oil supplemented with rambutan extract, (crude extract and its fractionated fraction, SF II) in comparison with synthetic antioxidant were investigated. The supplemented sunflower oils were stored under accelerated conditions for 24 days at 60 °C. For every 6-day interval, the oxidative properties of the supplemented sunflower oil were evaluated based on the following tests, namely peroxide value, p-anisidine value, Thiobarbituric Acid Reactive Substances (TBARS) assay, iodine value and free fatty acids. The total oxidation (TOTOX) values were also calculated based on the peroxide values and p-anisidine values. Rambutan extract is a potential source of antioxidant. The oxidative activities of the extracts at all concentrations were significantly (p < 0.05) higher than the control. Generally, the partially fractionated fraction was more effective than the crude extract. With a 2-year storage period at ambient temperature, the fractionated fraction of the extract, SF II at 300 ppm, was observed to work more effectively than the synthetic antioxidant, t-Tocopherol, and it possessed a protective effect comparable with butylatedhydrioxynanisole (BHA). Therefore, rambutan extract could be used as a potential alternative source of antioxidant in the oil industry or other fat-based products to delay lipid oxidation.

GPU-accelerated two dimensional synthetic aperture focusing for photoacoustic microscopy

NASA Astrophysics Data System (ADS)

Liu, Siyu; Feng, Xiaohua; Gao, Fei; Jin, Haoran; Zhang, Ruochong; Luo, Yunqi; Zheng, Yuanjin

2018-02-01

Acoustic resolution photoacoustic microscopy (AR-PAM) generally suffers from limited depth of focus, which had been extended by synthetic aperture focusing techniques (SAFTs). However, for three dimensional AR-PAM, current one dimensional (1D) SAFT and its improved version like cross-shaped SAFT do not provide isotropic resolution in the lateral direction. The full potential of the SAFT remains to be tapped. To this end, two dimensional (2D) SAFT with fast computing architecture is proposed in this work. Explained by geometric modeling and Fourier acoustics theories, 2D-SAFT provide the narrowest post-focusing capability, thus to achieve best lateral resolution. Compared with previous 1D-SAFT techniques, the proposed 2D-SAFT improved the lateral resolution by at least 1.7 times and the signal-to-noise ratio (SNR) by about 10 dB in both simulation and experiments. Moreover, the improved 2D-SAFT algorithm is accelerated by a graphical processing unit that reduces the long period of reconstruction to only a few seconds. The proposed 2D-SAFT is demonstrated to outperform previous reported 1D SAFT in the aspects of improving the depth of focus, imaging resolution, and SNR with fast computational efficiency. This work facilitates future studies on in vivo deeper and high-resolution photoacoustic microscopy beyond several centimeters.

Particle acceleration in laser-driven magnetic reconnection

DOE PAGES

Totorica, S. R.; Abel, T.; Fiuza, F.

2017-04-03

Particle acceleration induced by magnetic reconnection is thought to be a promising candidate for producing the nonthermal emissions associated with explosive phenomena such as solar flares, pulsar wind nebulae, and jets from active galactic nuclei. Laboratory experiments can play an important role in the study of the detailed microphysics of magnetic reconnection and the dominant particle acceleration mechanisms. We have used two- and three-dimensional particle-in-cell simulations to study particle acceleration in high Lundquist number reconnection regimes associated with laser-driven plasma experiments. For current experimental conditions, we show that nonthermal electrons can be accelerated to energies more than an order ofmore » magnitude larger than the initial thermal energy. The nonthermal electrons gain their energy mainly from the reconnection electric field near the X points, and particle injection into the reconnection layer and escape from the finite system establish a distribution of energies that resembles a power-law spectrum. Energetic electrons can also become trapped inside the plasmoids that form in the current layer and gain additional energy from the electric field arising from the motion of the plasmoid. We compare simulations for finite and infinite periodic systems to demonstrate the importance of particle escape on the shape of the spectrum. Based on our findings, we provide an analytical estimate of the maximum electron energy and threshold condition for observing suprathermal electron acceleration in terms of experimentally tunable parameters. We also discuss experimental signatures, including the angular distribution of the accelerated particles, and construct synthetic detector spectra. Finally, these results open the way for novel experimental studies of particle acceleration induced by reconnection.« less

Signal transduction and amplification through enzyme-triggered ligand release and accelerated catalysis.

PubMed

Goggins, Sean; Marsh, Barrie J; Lubben, Anneke T; Frost, Christopher G

2015-08-01

Signal transduction and signal amplification are both important mechanisms used within biological signalling pathways. Inspired by this process, we have developed a signal amplification methodology that utilises the selectivity and high activity of enzymes in combination with the robustness and generality of an organometallic catalyst, achieving a hybrid biological and synthetic catalyst cascade. A proligand enzyme substrate was designed to selectively self-immolate in the presence of the enzyme to release a ligand that can bind to a metal pre-catalyst and accelerate the rate of a transfer hydrogenation reaction. Enzyme-triggered catalytic signal amplification was then applied to a range of catalyst substrates demonstrating that signal amplification and signal transduction can both be achieved through this methodology.

Role of platelet-rich plasma in combination with alloplastic bone substitute in regeneration of osseous defects

PubMed Central

Singh, Indrajeet; Gupta, Hemant; Pradhan, R; Sinha, VP; Gupta, Sumit

2012-01-01

Introduction Bone grafts are frequently used for the treatment of bone defects, but can cause postoperative complications, and sometimes a sufficient quantity of bone is not available. Hence, synthetic biomaterials have been used as an alternative to autogenous bone grafts. Recent clinical reports suggest that application of autologous blood plasma enriched with platelets can enhance the formation of new bone. There are very few in vitro or in vivo studies published on the efficiency of platelet-rich plasma (PRP). The objective of this study was to evaluate the alloplastic bone substitute for its osteogenic potential with or without PRP. Materials and Methods Twenty-three patients with periapical bony defects were selected for this study. Clinical parameters such as pain visual analog scale (VAS), swelling, infection, graft migration, rejection, radiographical interpretations at regular interval and scintigraphic evaluation were done to evaluate osteogenic potential of alloplastic bone substitute with or without PRP. Results The highest acceleration in bone formation was observed in groups where alloplastic bone substitute was used with PRP. There were no statistically significant differences between the two groups regarding other outcome variables throughout the postoperative period. Conclusion Addition of PRP significantly accelerates vascularization of the graft, improves soft tissue healing, reduces postoperative morbidity and enhances bone regeneration. PMID:25756013

Computational screening of organic polymer dielectrics for novel accelerator technologies

DOE PAGES

Pilania, Ghanshyam; Weis, Eric; Walker, Ethan M.; ...

2018-06-18

The use of infrared lasers to power accelerating dielectric structures is a developing area of research. Within this technology, the choice of the dielectric material forming the accelerating structures, such as the photonic band gap (PBG) structures, is dictated by a range of interrelated factors including their dielectric and optical properties, amenability to photo-polymerization, thermochemical stability and other target performance metrics of the particle accelerator. In this direction, electronic structure theory aided computational screening and design of dielectric materials can play a key role in identifying potential candidate materials with the targeted functionalities to guide experimental synthetic efforts. In anmore » attempt to systematically understand the role of chemistry in controlling the electronic structure and dielectric properties of organic polymeric materials, here we employ empirical screening and density functional theory (DFT) computations, as a part of our multi-step hierarchal screening strategy. Our DFT based analysis focused on the bandgap, dielectric permittivity, and frequency-dependent dielectric losses due to lattice absorption as key properties to down-select promising polymer motifs. In addition to the specific application of dielectric laser acceleration, the general methodology presented here is deemed to be valuable in the design of new insulators with an attractive combination of dielectric properties.« less

Synthetic biology stretching the realms of possibility in wine yeast research.

PubMed

Jagtap, Umesh B; Jadhav, Jyoti P; Bapat, Vishwas A; Pretorius, Isak S

2017-07-03

It took several millennia to fully understand the scientific intricacies of the process through which grape juice is turned into wine. This yeast-driven fermentation process is still being perfected and advanced today. Motivated by ever-changing consumer preferences and the belief that the 'best' wine is yet to be made, numerous approaches are being pursued to improve the process of yeast fermentation and the quality of wine. Central to recent enhancements in winemaking processes and wine quality is the development of Saccharomyces cerevisiae yeast strains with improved robustness, fermentation efficiencies and sensory properties. The emerging science of Synthetic Biology - including genome engineering and DNA editing technologies - is taking yeast strain development into a totally new realm of possibility. The first example of how future wine strain development might be impacted by these new 'history-making' Synthetic Biology technologies, is the de novo production of the raspberry ketone aroma compound, 4-[4-hydroxyphenyl]butan-2-one, in a wine yeast containing a synthetic DNA cassette. This article explores how this breakthrough and the imminent outcome of the international Yeast 2.0 (or Sc2.0) project, aimed at the synthesis of the entire genome of a laboratory strain of S. cerevisiae, might accelerate the design of improved wine yeasts. Copyright © 2017 Elsevier B.V. All rights reserved.

Synthetic analogs of bacterial quorum sensors

DOEpatents

Iyer, Rashi [Los Alamos, NM; Ganguly, Kumkum [Los Alamos, NM; Silks, Louis A [Los Alamos, NM

2011-12-06

Bacterial quorum-sensing molecule analogs having the following structures: ##STR00001## and methods of reducing bacterial pathogenicity, comprising providing a biological system comprising pathogenic bacteria which produce natural quorum-sensing molecule; providing a synthetic bacterial quorum-sensing molecule having the above structures and introducing the synthetic quorum-sensing molecule into the biological system comprising pathogenic bacteria. Further is provided a method of targeted delivery of an antibiotic, comprising providing a synthetic quorum-sensing molecule; chemically linking the synthetic quorum-sensing molecule to an antibiotic to produce a quorum-sensing molecule-antibiotic conjugate; and introducing the conjugate into a biological system comprising pathogenic bacteria susceptible to the antibiotic.

Synthetic analogs of bacterial quorum sensors

DOEpatents

Iyer, Rashi S.; Ganguly, Kumkum; Silks, Louis A.

2013-01-08

Bacterial quorum-sensing molecule analogs having the following structures: ##STR00001## and methods of reducing bacterial pathogenicity, comprising providing a biological system comprising pathogenic bacteria which produce natural quorum-sensing molecule; providing a synthetic bacterial quorum-sensing molecule having the above structures and introducing the synthetic quorum-sensing molecule into the biological system comprising pathogenic bacteria. Further is provided a method of targeted delivery of an antibiotic, comprising providing a synthetic quorum-sensing molecule; chemically linking the synthetic quorum-sensing molecule to an antibiotic to produce a quorum-sensing molecule-antibiotic conjugate; and introducing the conjugate into a biological system comprising pathogenic bacteria susceptible to the antibiotic.

Compared to What? The Effectiveness of Synthetic Control Methods for Causal Inference in Educational Assessment

ERIC Educational Resources Information Center

Johnson, Clay Stephen

2013-01-01

Synthetic control methods are an innovative matching technique first introduced within the economics and political science literature that have begun to find application in educational research as well. Synthetic controls create an aggregate-level, time-series comparison for a single treated unit of interest for causal inference with observational…

[Simultaneous determination of 15 industrial synthetic dyes in condiment by solid phase extraction-high performance liquid chromatography].

PubMed

Liu, Min; Li, Xiaolin; Bie, Wei; Wang, Minglin; Feng, Qian

2011-02-01

A new method was established for the determination of 15 industrial synthetic dyes in condiment by solid phase extraction-high performance liquid chromatography (SPE-HPLC). The samples were extracted by methanol-water (1:1, v/v) and purified by a solid phase extraction column. Then, the chromatographic separation was achieved on a Luna C18 column by linear gradient elution. The mobile phase was 10 mmol/L ammonium acetate-acetonitrile (containing 1% acetic acid). The results showed that the 15 industrial synthetic dyes can be separated efficiently. The recoveries of the 15 industrial synthetic dyes spiked in condiment were between 84.6% and 114.2% with the relative standard deviations of 0.9% - 10.3%. The limits of detection of this method was 0.05 - 0.18 mg/kg for the 15 industrial synthetic dyes. The method is simple, sensitive, accurate, repeatable and can be used for simultaneous determination of the 15 illegally added industrial synthetic dyes.

Plant synthetic biology: a new platform for industrial biotechnology.

PubMed

Fesenko, Elena; Edwards, Robert

2014-05-01

Thirty years after the production of the first generation of genetically modified plants we are now set to move into a new era of recombinant crop technology through the application of synthetic biology to engineer new and complex input and output traits. The use of synthetic biology technologies will represent more than incremental additions of transgenes, but rather the directed design of completely new metabolic pathways, physiological traits, and developmental control strategies. The need to enhance our ability to improve crops through new engineering capability is now increasingly pressing as we turn to plants not just for food, but as a source of renewable feedstocks for industry. These accelerating and diversifying demands for new output traits coincide with a need to reduce inputs and improve agricultural sustainability. Faced with such challenges, existing technologies will need to be supplemented with new and far-more-directed approaches to turn valuable resources more efficiently into usable agricultural products. While these objectives are challenging enough, the use of synthetic biology in crop improvement will face public acceptance issues as a legacy of genetically modified technologies in many countries. Here we review some of the potential benefits of adopting synthetic biology approaches in improving plant input and output traits for their use as industrial chemical feedstocks, as linked to the rapidly developing biorefining industry. Several promising technologies and biotechnological targets are identified along with some of the key regulatory and societal challenges in the safe and acceptable introduction of such technology.

ACCELERATED FITTING OF STELLAR SPECTRA

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

Ting, Yuan-Sen; Conroy, Charlie; Rix, Hans-Walter

2016-07-20

Stellar spectra are often modeled and fitted by interpolating within a rectilinear grid of synthetic spectra to derive the stars’ labels: stellar parameters and elemental abundances. However, the number of synthetic spectra needed for a rectilinear grid grows exponentially with the label space dimensions, precluding the simultaneous and self-consistent fitting of more than a few elemental abundances. Shortcuts such as fitting subsets of labels separately can introduce unknown systematics and do not produce correct error covariances in the derived labels. In this paper we present a new approach—Convex Hull Adaptive Tessellation (chat)—which includes several new ideas for inexpensively generating amore » sufficient stellar synthetic library, using linear algebra and the concept of an adaptive, data-driven grid. A convex hull approximates the region where the data lie in the label space. A variety of tests with mock data sets demonstrate that chat can reduce the number of required synthetic model calculations by three orders of magnitude in an eight-dimensional label space. The reduction will be even larger for higher dimensional label spaces. In chat the computational effort increases only linearly with the number of labels that are fit simultaneously. Around each of these grid points in the label space an approximate synthetic spectrum can be generated through linear expansion using a set of “gradient spectra” that represent flux derivatives at every wavelength point with respect to all labels. These techniques provide new opportunities to fit the full stellar spectra from large surveys with 15–30 labels simultaneously.« less

Data-driven approach for creating synthetic electronic medical records.

PubMed

Buczak, Anna L; Babin, Steven; Moniz, Linda

2010-10-14

New algorithms for disease outbreak detection are being developed to take advantage of full electronic medical records (EMRs) that contain a wealth of patient information. However, due to privacy concerns, even anonymized EMRs cannot be shared among researchers, resulting in great difficulty in comparing the effectiveness of these algorithms. To bridge the gap between novel bio-surveillance algorithms operating on full EMRs and the lack of non-identifiable EMR data, a method for generating complete and synthetic EMRs was developed. This paper describes a novel methodology for generating complete synthetic EMRs both for an outbreak illness of interest (tularemia) and for background records. The method developed has three major steps: 1) synthetic patient identity and basic information generation; 2) identification of care patterns that the synthetic patients would receive based on the information present in real EMR data for similar health problems; 3) adaptation of these care patterns to the synthetic patient population. We generated EMRs, including visit records, clinical activity, laboratory orders/results and radiology orders/results for 203 synthetic tularemia outbreak patients. Validation of the records by a medical expert revealed problems in 19% of the records; these were subsequently corrected. We also generated background EMRs for over 3000 patients in the 4-11 yr age group. Validation of those records by a medical expert revealed problems in fewer than 3% of these background patient EMRs and the errors were subsequently rectified. A data-driven method was developed for generating fully synthetic EMRs. The method is general and can be applied to any data set that has similar data elements (such as laboratory and radiology orders and results, clinical activity, prescription orders). The pilot synthetic outbreak records were for tularemia but our approach may be adapted to other infectious diseases. The pilot synthetic background records were in the 4-11 year old age group. The adaptations that must be made to the algorithms to produce synthetic background EMRs for other age groups are indicated.

Computer aided weld defect delineation using statistical parametric active contours in radiographic inspection.

PubMed

Goumeidane, Aicha Baya; Nacereddine, Nafaa; Khamadja, Mohammed

2015-01-01

A perfect knowledge of a defect shape is determinant for the analysis step in automatic radiographic inspection. Image segmentation is carried out on radiographic images and extract defects indications. This paper deals with weld defect delineation in radiographic images. The proposed method is based on a new statistics-based explicit active contour. An association of local and global modeling of the image pixels intensities is used to push the model to the desired boundaries. Furthermore, other strategies are proposed to accelerate its evolution and make the convergence speed depending only on the defect size as selecting a band around the active contour curve. The experimental results are very promising, since experiments on synthetic and radiographic images show the ability of the proposed model to extract a piece-wise homogenous object from very inhomogeneous background, even in a bad quality image.

Strong Ground Motions Scenarios for Mexico City

NASA Astrophysics Data System (ADS)

Cabrera, E.; Chavez, M.; Madariaga, R.; Mai, P. M.; Frisenda, M.; Perea, N.

2005-12-01

The recordings available in Mexico City (MC) for extreme magnitude Subduction Superficial (SS), Subduction Deep (SD), and Crustal Superficial (CS) events are about 30 accelerograms (obtained at 10 sites) for the SS 19 09 1985 earthquake (Ms 8.1, Mw 8.01). In this work we generated broadband synthetic accelerograms expected in MC stiff (S) and compressive soils (C),for SS (Mw 8.5, 8.7), SD (Mw 7.6) and CS (Mw 7.5) earthquakes.The frequencies lower than 0.5 Hz were simulated by using a 4th order FD method, including a (fractal) finite-fault description of the sources. The frequencies larger than 0.5 Hz were modeled by the empirical Green function technique. We propose upper bounds of 0.4g and 2g (g=9.8m/s2)for the maximum response spectra acceleration(5 percent damping) expected in the S and C soils of MC, respectively.

Gold and silver nanoparticles conjugated with heparin derivative possess anti-angiogenesis properties

NASA Astrophysics Data System (ADS)

Kemp, Melissa M.; Kumar, Ashavani; Mousa, Shaymaa; Dyskin, Evgeny; Yalcin, Murat; Ajayan, Pulickel; Linhardt, Robert J.; Mousa, Shaker A.

2009-11-01

Silver and gold nanoparticles display unique physical and biological properties that have been extensively studied for biological and medical applications. Typically, gold and silver nanoparticles are prepared by chemical reductants that utilize excess toxic reactants, which need to be removed for biological purposes. We utilized a clean method involving a single synthetic step to prepare metal nanoparticles for evaluating potential effects on angiogenesis modulation. These nanoparticles were prepared by reducing silver nitrate and gold chloride with diaminopyridinyl (DAP)-derivatized heparin (HP) polysaccharides. Both gold and silver nanoparticles reduced with DAPHP exhibited effective inhibition of basic fibroblast growth factor (FGF-2)-induced angiogenesis, with an enhanced anti-angiogenesis efficacy with the conjugation to DAPHP (P<0.01) as compared to glucose conjugation. These results suggest that DAPHP-reduced silver nanoparticles and gold nanoparticles have potential in pathological angiogenesis accelerated disorders such as cancer and inflammatory diseases.

Toward a new paradigm of DNA writing using a massively parallel sequencing platform and degenerate oligonucleotide

PubMed Central

Hwang, Byungjin; Bang, Duhee

2016-01-01

All synthetic DNA materials require prior programming of the building blocks of the oligonucleotide sequences. The development of a programmable microarray platform provides cost-effective and time-efficient solutions in the field of data storage using DNA. However, the scalability of the synthesis is not on par with the accelerating sequencing capacity. Here, we report on a new paradigm of generating genetic material (writing) using a degenerate oligonucleotide and optomechanical retrieval method that leverages sequencing (reading) throughput to generate the desired number of oligonucleotides. As a proof of concept, we demonstrate the feasibility of our concept in digital information storage in DNA. In simulation, the ability to store data is expected to exponentially increase with increase in degenerate space. The present study highlights the major framework change in conventional DNA writing paradigm as a sequencer itself can become a potential source of making genetic materials. PMID:27876825

Toward a new paradigm of DNA writing using a massively parallel sequencing platform and degenerate oligonucleotide.

PubMed

Hwang, Byungjin; Bang, Duhee

2016-11-23

All synthetic DNA materials require prior programming of the building blocks of the oligonucleotide sequences. The development of a programmable microarray platform provides cost-effective and time-efficient solutions in the field of data storage using DNA. However, the scalability of the synthesis is not on par with the accelerating sequencing capacity. Here, we report on a new paradigm of generating genetic material (writing) using a degenerate oligonucleotide and optomechanical retrieval method that leverages sequencing (reading) throughput to generate the desired number of oligonucleotides. As a proof of concept, we demonstrate the feasibility of our concept in digital information storage in DNA. In simulation, the ability to store data is expected to exponentially increase with increase in degenerate space. The present study highlights the major framework change in conventional DNA writing paradigm as a sequencer itself can become a potential source of making genetic materials.

Fast viscosity solutions for shape from shading under a more realistic imaging model

NASA Astrophysics Data System (ADS)

Wang, Guohui; Han, Jiuqiang; Jia, Honghai; Zhang, Xinman

2009-11-01

Shape from shading (SFS) has been a classical and important problem in the domain of computer vision. The goal of SFS is to reconstruct the 3-D shape of an object from its 2-D intensity image. To this end, an image irradiance equation describing the relation between the shape of a surface and its corresponding brightness variations is used. Then it is derived as an explicit partial differential equation (PDE). Using the nonlinear programming principle, we propose a detailed solution to Prados and Faugeras's implicit scheme for approximating the viscosity solution of the resulting PDE. Furthermore, by combining implicit and semi-implicit schemes, a new approximation scheme is presented. In order to accelerate the convergence speed, we adopt the Gauss-Seidel idea and alternating sweeping strategy to the approximation schemes. Experimental results on both synthetic and real images are performed to demonstrate that the proposed methods are fast and accurate.

Determination of small field synthetic single-crystal diamond detector correction factors for CyberKnife, Leksell Gamma Knife Perfexion and linear accelerator.

PubMed

Veselsky, T; Novotny, J; Pastykova, V; Koniarova, I

2017-12-01

The aim of this study was to determine small field correction factors for a synthetic single-crystal diamond detector (PTW microDiamond) for routine use in clinical dosimetric measurements. Correction factors following small field Alfonso formalism were calculated by comparison of PTW microDiamond measured ratio M Qclin fclin /M Qmsr fmsr with Monte Carlo (MC) based field output factors Ω Qclin,Qmsr fclin,fmsr determined using Dosimetry Diode E or with MC simulation itself. Diode measurements were used for the CyberKnife and Varian Clinac 2100C/D linear accelerator. PTW microDiamond correction factors for Leksell Gamma Knife (LGK) were derived using MC simulated reference values from the manufacturer. PTW microDiamond correction factors for CyberKnife field sizes 25-5 mm were mostly smaller than 1% (except for 2.9% for 5 mm Iris field and 1.4% for 7.5 mm fixed cone field). The correction of 0.1% and 2.0% for 8 mm and 4 mm collimators, respectively, needed to be applied to PTW microDiamond measurements for LGK Perfexion. Finally, PTW microDiamond M Qclin fclin /M Qmsr fmsr for the linear accelerator varied from MC corrected Dosimetry Diode data by less than 0.5% (except for 1 × 1 cm 2 field size with 1.3% deviation). Regarding low resulting correction factor values, the PTW microDiamond detector may be considered an almost ideal tool for relative small field dosimetry in a large variety of stereotactic and radiosurgery treatment devices. Copyright © 2017 Associazione Italiana di Fisica Medica. Published by Elsevier Ltd. All rights reserved.

Quantitative characterization of genetic parts and circuits for plant synthetic biology.

PubMed

Schaumberg, Katherine A; Antunes, Mauricio S; Kassaw, Tessema K; Xu, Wenlong; Zalewski, Christopher S; Medford, June I; Prasad, Ashok

2016-01-01

Plant synthetic biology promises immense technological benefits, including the potential development of a sustainable bio-based economy through the predictive design of synthetic gene circuits. Such circuits are built from quantitatively characterized genetic parts; however, this characterization is a significant obstacle in work with plants because of the time required for stable transformation. We describe a method for rapid quantitative characterization of genetic plant parts using transient expression in protoplasts and dual luciferase outputs. We observed experimental variability in transient-expression assays and developed a mathematical model to describe, as well as statistical normalization methods to account for, this variability, which allowed us to extract quantitative parameters. We characterized >120 synthetic parts in Arabidopsis and validated our method by comparing transient expression with expression in stably transformed plants. We also tested >100 synthetic parts in sorghum (Sorghum bicolor) protoplasts, and the results showed that our method works in diverse plant groups. Our approach enables the construction of tunable gene circuits in complex eukaryotic organisms.

Continuous, One-pot Synthesis and Post-Synthetic Modification of NanoMOFs Using Droplet Nanoreactors

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

Jambovane, Sachin R.; Nune, Satish K.; Kelly, Ryan T.

Metal-organic frameworks (MOFs); also known as porous coordination polymers (PCP) are a class of porous crystalline materials constructed by connecting metal clusters via organic linkers. The possibility of functionalization leads to virtually infinite MOF designs using generic modular methods. Functionalized MOFs can exhibit interesting physical and chemical properties including accelerated adsorption kinetics and catalysis. Although there are discrete methods to synthesize well-defined nanoscale MOFs, rapid and flexible methods are not available for continuous, one-pot synthesis and post synthesis modification (functionalization) of MOFs. Here, we show a continuous, scalable nanodroplet-based microfluidic route that not only facilitates the synthesis of MOFs atmore » nanoscale, but also offers flexibility for direct functionalization with desired functional groups (e.g., -NH 2, -COCH 3, fluorescein isothiocyanate; FITC). In addition, the presented route of continuous manufacturing of functionalized MOFs takes significantly less time compared to state-of-the-art batch methods currently available (1 hr vs. several days). We envisage our approach to be a breakthrough method for synthesizing complex functionalized nanomaterials (metal, metal oxides, quantum dots and MOFs) that are not accessible by direct batch processing, and expand the range of a new class of functionalized MOF-based functional nanomaterials.« less

A Robust and Fast Method for Sidescan Sonar Image Segmentation Using Nonlocal Despeckling and Active Contour Model.

PubMed

Huo, Guanying; Yang, Simon X; Li, Qingwu; Zhou, Yan

2017-04-01

Sidescan sonar image segmentation is a very important issue in underwater object detection and recognition. In this paper, a robust and fast method for sidescan sonar image segmentation is proposed, which deals with both speckle noise and intensity inhomogeneity that may cause considerable difficulties in image segmentation. The proposed method integrates the nonlocal means-based speckle filtering (NLMSF), coarse segmentation using k -means clustering, and fine segmentation using an improved region-scalable fitting (RSF) model. The NLMSF is used before the segmentation to effectively remove speckle noise while preserving meaningful details such as edges and fine features, which can make the segmentation easier and more accurate. After despeckling, a coarse segmentation is obtained by using k -means clustering, which can reduce the number of iterations. In the fine segmentation, to better deal with possible intensity inhomogeneity, an edge-driven constraint is combined with the RSF model, which can not only accelerate the convergence speed but also avoid trapping into local minima. The proposed method has been successfully applied to both noisy and inhomogeneous sonar images. Experimental and comparative results on real and synthetic sonar images demonstrate that the proposed method is robust against noise and intensity inhomogeneity, and is also fast and accurate.

Anisotropic Stochastic Vortex Structure Method for Simulating Particle Collision in Turbulent Shear Flows

NASA Astrophysics Data System (ADS)

Dizaji, Farzad; Marshall, Jeffrey; Grant, John; Jin, Xing

2017-11-01

Accounting for the effect of subgrid-scale turbulence on interacting particles remains a challenge when using Reynolds-Averaged Navier Stokes (RANS) or Large Eddy Simulation (LES) approaches for simulation of turbulent particulate flows. The standard stochastic Lagrangian method for introducing turbulence into particulate flow computations is not effective when the particles interact via collisions, contact electrification, etc., since this method is not intended to accurately model relative motion between particles. We have recently developed the stochastic vortex structure (SVS) method and demonstrated its use for accurate simulation of particle collision in homogeneous turbulence; the current work presents an extension of the SVS method to turbulent shear flows. The SVS method simulates subgrid-scale turbulence using a set of randomly-positioned, finite-length vortices to generate a synthetic fluctuating velocity field. It has been shown to accurately reproduce the turbulence inertial-range spectrum and the probability density functions for the velocity and acceleration fields. In order to extend SVS to turbulent shear flows, a new inversion method has been developed to orient the vortices in order to generate a specified Reynolds stress field. The extended SVS method is validated in the present study with comparison to direct numerical simulations for a planar turbulent jet flow. This research was supported by the U.S. National Science Foundation under Grant CBET-1332472.

Constraining mass anomalies in the interior of spherical bodies using Trans-dimensional Bayesian Hierarchical inference.

NASA Astrophysics Data System (ADS)

Izquierdo, K.; Lekic, V.; Montesi, L.

2017-12-01

Gravity inversions are especially important for planetary applications since measurements of the variations in gravitational acceleration are often the only constraint available to map out lateral density variations in the interiors of planets and other Solar system objects. Currently, global gravity data is available for the terrestrial planets and the Moon. Although several methods for inverting these data have been developed and applied, the non-uniqueness of global density models that fit the data has not yet been fully characterized. We make use of Bayesian inference and a Reversible Jump Markov Chain Monte Carlo (RJMCMC) approach to develop a Trans-dimensional Hierarchical Bayesian (THB) inversion algorithm that yields a large sample of models that fit a gravity field. From this group of models, we can determine the most likely value of parameters of a global density model and a measure of the non-uniqueness of each parameter when the number of anomalies describing the gravity field is not fixed a priori. We explore the use of a parallel tempering algorithm and fast multipole method to reduce the number of iterations and computing time needed. We applied this method to a synthetic gravity field of the Moon and a long wavelength synthetic model of density anomalies in the Earth's lower mantle. We obtained a good match between the given gravity field and the gravity field produced by the most likely model in each inversion. The number of anomalies of the models showed parsimony of the algorithm, the value of the noise variance of the input data was retrieved, and the non-uniqueness of the models was quantified. Our results show that the ability to constrain the latitude and longitude of density anomalies, which is excellent at shallow locations (<200 km), decreases with increasing depth. With higher computational resources, this THB method for gravity inversion could give new information about the overall density distribution of celestial bodies even when there is no other geophysical data available.

Water-contained surfactant-based vortex-assisted microextraction method combined with liquid chromatography for determination of synthetic antioxidants from edible oil.

PubMed

Amlashi, Nadiya Ekbatani; Hadjmohammadi, Mohammad Reza; Nazari, Seyed Saman Seyed Jafar

2014-09-26

For the first time, a novel water-contained surfactant-based vortex-assisted microextraction method (WSVAME) was developed for the extraction of two synthetic antioxidants (t-butyl hydroquinone (TBHQ) and butylated hydroxyanisole (BHA)) from edible oil samples. The novel microextraction method is based on the injection of an aqueous solution of non-ionic surfactant, Brij-35, into the oil sample in a conical bottom glass tube to form a cloudy solution. Vortex mixing was applied to accelerate the dispersion process. After extraction and phase separation by centrifugation, the lower sediment phase was directly analyzed by HPLC. The effects of the four experimental parameters including volume and concentration of extraction solvent (aqueous solution of Brij-35), percentage of acetic acid added to the oil sample and vortex time on the extraction efficiency were studied with a full factorial design. The central composite design and multiple linear regression method were applied for the construction of the best polynomial model based on experimental recoveries. The proposed method showed good linearity within the range of 0.200-200 μg mL(-1), the square of correlation coefficient higher than 0.999 and appropriate limit of detection (0.026 and 0.020 μg mL(-1) for TBHQ and BHA, respectively), while the precision for inner-day was ≤ 3.0 (n=5) and it was ≤ 3.80 (n=5) for inter-day assay. Under the optimal condition (30 μL of 0.10 mol L(-1) Brij-35 solution as extraction solvent and vortex time 1 min), the method was successfully applied for determination of TBHQ and BHA in different commercial edible oil samples. The recoveries in all cases were above 95%, with relative standard deviations below 5%. This approach is considered as a simple, sensitive and environmentally friendly method because of biodegradability of the extraction phase and no use of organic solvent in the extraction procedure. Copyright © 2014 Elsevier B.V. All rights reserved.

3D synthetic aperture for controlled-source electromagnetics

NASA Astrophysics Data System (ADS)

Knaak, Allison

Locating hydrocarbon reservoirs has become more challenging with smaller, deeper or shallower targets in complicated environments. Controlled-source electromagnetics (CSEM), is a geophysical electromagnetic method used to detect and derisk hydrocarbon reservoirs in marine settings, but it is limited by the size of the target, low-spatial resolution, and depth of the reservoir. To reduce the impact of complicated settings and improve the detecting capabilities of CSEM, I apply synthetic aperture to CSEM responses, which virtually increases the length and width of the CSEM source by combining the responses from multiple individual sources. Applying a weight to each source steers or focuses the synthetic aperture source array in the inline and crossline directions. To evaluate the benefits of a 2D source distribution, I test steered synthetic aperture on 3D diffusive fields and view the changes with a new visualization technique. Then I apply 2D steered synthetic aperture to 3D noisy synthetic CSEM fields, which increases the detectability of the reservoir significantly. With more general weighting, I develop an optimization method to find the optimal weights for synthetic aperture arrays that adapts to the information in the CSEM data. The application of optimally weighted synthetic aperture to noisy, simulated electromagnetic fields reduces the presence of noise, increases detectability, and better defines the lateral extent of the target. I then modify the optimization method to include a term that minimizes the variance of random, independent noise. With the application of the modified optimization method, the weighted synthetic aperture responses amplifies the anomaly from the reservoir, lowers the noise floor, and reduces noise streaks in noisy CSEM responses from sources offset kilometers from the receivers. Even with changes to the location of the reservoir and perturbations to the physical properties, synthetic aperture is still able to highlight targets correctly, which allows use of the method in locations where the subsurface models are built from only estimates. In addition to the technical work in this thesis, I explore the interface between science, government, and society by examining the controversy over hydraulic fracturing and by suggesting a process to aid the debate and possibly other future controversies.

Size dependence of 13C nuclear spin-lattice relaxation in micro- and nanodiamonds

NASA Astrophysics Data System (ADS)

Panich, A. M.; Sergeev, N. A.; Shames, A. I.; Osipov, V. Yu; Boudou, J.-P.; Goren, S. D.

2015-02-01

Size dependence of physical properties of nanodiamond particles is of crucial importance for various applications in which defect density and location as well as relaxation processes play a significant role. In this work, the impact of defects induced by milling of micron-sized synthetic diamonds was studied by magnetic resonance techniques as a function of the particle size. EPR and 13C NMR studies of highly purified commercial synthetic micro- and nanodiamonds were done for various fractions separated by sizes. Noticeable acceleration of 13C nuclear spin-lattice relaxation with decreasing particle size was found. We showed that this effect is caused by the contribution to relaxation coming from the surface paramagnetic centers induced by sample milling. The developed theory of the spin-lattice relaxation for such a case shows good compliance with the experiment.

Multi-GPU parallel algorithm design and analysis for improved inversion of probability tomography with gravity gradiometry data

NASA Astrophysics Data System (ADS)

Hou, Zhenlong; Huang, Danian

2017-09-01

In this paper, we make a study on the inversion of probability tomography (IPT) with gravity gradiometry data at first. The space resolution of the results is improved by multi-tensor joint inversion, depth weighting matrix and the other methods. Aiming at solving the problems brought by the big data in the exploration, we present the parallel algorithm and the performance analysis combining Compute Unified Device Architecture (CUDA) with Open Multi-Processing (OpenMP) based on Graphics Processing Unit (GPU) accelerating. In the test of the synthetic model and real data from Vinton Dome, we get the improved results. It is also proved that the improved inversion algorithm is effective and feasible. The performance of parallel algorithm we designed is better than the other ones with CUDA. The maximum speedup could be more than 200. In the performance analysis, multi-GPU speedup and multi-GPU efficiency are applied to analyze the scalability of the multi-GPU programs. The designed parallel algorithm is demonstrated to be able to process larger scale of data and the new analysis method is practical.

SU-F-T-577: Comparison of Small Field Dosimetry Measurements in Fields Shaped with Conical Applicators On Two Different Accelerating Systems

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

Muir, B; McEwen, M; Belec, J

2016-06-15

Purpose: To investigate small field dosimetry measurements and associated uncertainties when conical applicators are used to shape treatment fields from two different accelerating systems. Methods: Output factor measurements are made in water in beams from the CyberKnife radiosurgery system, which uses conical applicators to shape fields from a (flattening filter-free) 6 MV beam, and in a 6 MV beam from the Elekta Precise linear accelerator (with flattening filter) with BrainLab external conical applicators fitted to shape the field. The measurements use various detectors: (i) an Exradin A16 ion chamber, (ii) two Exradin W1 plastic scintillation detectors, (iii) a Sun Nuclearmore » Edge diode, and (iv) two PTW microDiamond synthetic diamond detectors. Profiles are used for accurate detector positioning and to specify field size (FWHM). Output factor measurements are corrected with detector specific correction factors taken from the literature where available and/or from Monte Carlo simulations using the EGSnrc code system. Results: Differences in measurements of up to 1.7% are observed with a given detector type in the same beam (i.e., intra-detector variability). Corrected results from different detectors in the same beam (inter-detector differences) show deviations up to 3 %. Combining data for all detectors and comparing results from the two accelerators results in a 5.9% maximum difference for the smallest field sizes (FWHM=5.2–5.6 mm), well outside the combined uncertainties (∼1% for the smallest beams) and/or differences among detectors. This suggests that the FWHM of a measured profile is not a good specifier to compare results from different small fields with the same nominal energy. Conclusion: Large differences in results for both intra-detector variability and inter-detector differences suggest potentially high uncertainties in detector-specific correction factors. Differences between the results measured in circular fields from different accelerating systems provide insight into sources of variability in small field dosimetric measurements reported in the literature.« less

Graphene-assisted room-temperature synthesis of 2D nanostructured hybrid electrode materials: dramatic acceleration of the formation rate of 2D metal oxide nanoplates induced by reduced graphene oxide nanosheets.

PubMed

Sung, Da-Young; Gunjakar, Jayavant L; Kim, Tae Woo; Kim, In Young; Lee, Yu Ri; Hwang, Seong-Ju

2013-05-27

A new prompt room temperature synthetic route to 2D nanostructured metal oxide-graphene-hybrid electrode materials can be developed by the application of colloidal reduced graphene oxide (RGO) nanosheets as an efficient reaction accelerator for the synthesis of δ-MnO2 2D nanoplates. Whereas the synthesis of the 2D nanostructured δ-MnO2 at room temperature requires treating divalent manganese compounds with persulfate ions for at least 24 h, the addition of RGO nanosheet causes a dramatic shortening of synthesis time to 1 h, underscoring its effectiveness for the promotion of the formation of 2D nanostructured metal oxide. To the best of our knowledge, this is the first example of the accelerated synthesis of 2D nanostructured hybrid material induced by the RGO nanosheets. The observed acceleration of nanoplate formation upon the addition of RGO nanosheets is attributable to the enhancement of the oxidizing power of persulfate ions, the increase of the solubility of precursor MnCO3, and the promoted crystal growth of δ-MnO2 2D nanoplates. The resulting hybridization between RGO nanosheets and δ-MnO2 nanoplates is quite powerful not only in increasing the surface area of manganese oxide nanoplate but also in enhancing its electrochemical activity. Of prime importance is that the present δ-MnO2 -RGO nanocomposites show much superior electrode performance over most of 2D nanostructured manganate systems including a similar porous assembly of RGO and layered MnO2 nanosheets. This result underscores that the present RGO-assisted solution-based synthesis can provide a prompt and scalable method to produce nanostructured hybrid electrode materials. Copyright © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Accelerated uplift and magmatic intrusion of the Yellowstone caldera, 2004 to 2006

USGS Publications Warehouse

Chang, Wu-Lung; Smith, Robert B.; Wicks, Charles; Farrell, J.M.; Puskas, C.M.

2007-01-01

The Yellowstone caldera began a rapid episode of ground uplift in mid-2004, revealed by Global Positioning System and interferometric synthetic aperture radar measurements, at rates up to 7 centimeters per year, which is over three times faster than previously observed inflation rates. Source modeling of the deformation data suggests an expanding volcanic sill of ???1200 square kilometers at a 10-kilometer depth beneath the caldera, coincident with the top of a seismically imaged crustal magma chamber. The modeled rate of source volume increase is 0.1 cubic kilometer per year, similar to the amount of magma intrusion required to supply the observed high heat flow of the caldera. This evidence suggests magma recharge as the main mechanism for the accelerated uplift, although pressurization of magmatic fluids cannot be ruled out.

Modeling synthetic lethality

PubMed Central

Le Meur, Nolwenn; Gentleman, Robert

2008-01-01

Background Synthetic lethality defines a genetic interaction where the combination of mutations in two or more genes leads to cell death. The implications of synthetic lethal screens have been discussed in the context of drug development as synthetic lethal pairs could be used to selectively kill cancer cells, but leave normal cells relatively unharmed. A challenge is to assess genome-wide experimental data and integrate the results to better understand the underlying biological processes. We propose statistical and computational tools that can be used to find relationships between synthetic lethality and cellular organizational units. Results In Saccharomyces cerevisiae, we identified multi-protein complexes and pairs of multi-protein complexes that share an unusually high number of synthetic genetic interactions. As previously predicted, we found that synthetic lethality can arise from subunits of an essential multi-protein complex or between pairs of multi-protein complexes. Finally, using multi-protein complexes allowed us to take into account the pleiotropic nature of the gene products. Conclusions Modeling synthetic lethality using current estimates of the yeast interactome is an efficient approach to disentangle some of the complex molecular interactions that drive a cell. Our model in conjunction with applied statistical methods and computational methods provides new tools to better characterize synthetic genetic interactions. PMID:18789146

Radiation from Accelerated Particles in Shocks and Reconnections

NASA Technical Reports Server (NTRS)

Nishikawa, K. I.; Choi, E. J.; Min, K. W.; Niemiec, J.; Zhang, B.; Hardee, P.; Mizuno, Y.; Medvedev, M.; Nordlund, A.; Frederiksen, J.;

Coupling temporal and spatial gradient information in high-density unstructured Lagrangian measurements

NASA Astrophysics Data System (ADS)

Wong, Jaime G.; Rosi, Giuseppe A.; Rouhi, Amirreza; Rival, David E.

2017-10-01

Particle tracking velocimetry (PTV) produces high-quality temporal information that is often neglected when computing spatial gradients. A method is presented here to utilize this temporal information in order to improve the estimation of spatial gradients for spatially unstructured Lagrangian data sets. Starting with an initial guess, this method penalizes any gradient estimate where the substantial derivative of vorticity along a pathline is not equal to the local vortex stretching/tilting. Furthermore, given an initial guess, this method can proceed on an individual pathline without any further reference to neighbouring pathlines. The equivalence of the substantial derivative and vortex stretching/tilting is based on the vorticity transport equation, where viscous diffusion is neglected. By minimizing the residual of the vorticity-transport equation, the proposed method is first tested to reduce error and noise on a synthetic Taylor-Green vortex field dissipating in time. Furthermore, when the proposed method is applied to high-density experimental data collected with `Shake-the-Box' PTV, noise within the spatial gradients is significantly reduced. In the particular test case investigated here of an accelerating circular plate captured during a single run, the method acts to delineate the shear layer and vortex core, as well as resolve the Kelvin-Helmholtz instabilities, which were previously unidentifiable without the use of ensemble averaging. The proposed method shows promise for improving PTV measurements that require robust spatial gradients while retaining the unstructured Lagrangian perspective.

Evaluation of the effect of synthetic fibers and nonwoven geotextile reinforcement on the stability of heavy clay embankments.

DOT National Transportation Integrated Search

2003-04-01

This study evaluates two methods for repairing slope surface failures of clayey soil embankments. One method involves reinforcing the cohesive soils with randomly oriented synthetic fibers; the other method incorporates non-woven geotextiles. The per...

Determination of 30 synthetic food additives in soft drinks by HPLC/electrospray ionization-tandem mass spectrometry.

PubMed

Gao, Hui; Yang, Minli; Wang, Minglin; Zhao, Yansheng; Cao, Ya; Chu, Xiaogang

2013-01-01

A method combining SPE with HPLC/electrospray ionization-MS/MS was developed for simultaneous determination of 30 synthetic food additives, including synthetic colorants, preservatives, and sweeteners in soft drinks. All targets were efficiently separated using the optimized chromatographic and MS conditions and parameters in a single run within 18 min. The LOD of the analytes ranged from 0.01 to 20 microg/kg, and the method was validated with recoveries in the 80.8 to 106.4% range. This multisynthetic additive method was found to be accurate and reliable and will be useful to ensure the safety of food products, such as the labeling and proper use of synthetic food additives in soft drinks.

Rapid method for quantification of seven synthetic pigments in colored Chinese steamed buns using UFLC-MS/MS without SPE.

PubMed

Gao, He-Gang; Gong, Wen-Jie; Zhao, Yong-Gang

2015-01-01

Synthetic pigments are still used instead of natural pigments in many foods and their residues in food could be an important risk to human health. A simple and rapid analytical method combining the low-cost extraction protocol with ultra-fast liquid chromatography-tandem quadrupole mass spectrometry (UFLC-MS/MS) was developed for the simultaneous determination of seven synthetic pigments used in colored Chinese steamed buns. For the first time, ethanol/ammonia solution/water (7:2:1, v/v/v) was used as extraction solution for the synthetic pigments in colored Chinese steamed buns. The results showed that the property of the extraction solution used in this method was more effective than critic acid solution, which is used in the polyamide adsorption method. The limits of quantification for the seven synthetic pigments ranged from 0.15 to 0.50 μg/kg. The present method was successfully applied to samples of colored Chinese steamed buns for food-safety risk monitoring in Zhejiang Province, China. The results found sunset yellow pigment in six out of 300 colored Chinese steamed buns (from 0.50 to 32.6 μg/kg).

Improved tests reveal that the accelarating moment release hypothesis is statistically insignificant

USGS Publications Warehouse

Hardebeck, J.L.; Felzer, K.R.; Michael, A.J.

2008-01-01

We test the hypothesis that accelerating moment release (AMR) is a precursor to large earthquakes, using data from California, Nevada, and Sumatra. Spurious cases of AMR can arise from data fitting because the time period, area, and sometimes magnitude range analyzed before each main shock are often optimized to produce the strongest AMR signal. Optimizing the search criteria can identify apparent AMR even if no robust signal exists. For both 1950-2006 California-Nevada M ??? 6.5 earthquakes and the 2004 M9.3 Sumatra earthquake, we can find two contradictory patterns in the pre-main shock earthquakes by data fitting: AMR and decelerating moment release. We compare the apparent AMR found in the real data to the apparent AMR found in four types of synthetic catalogs with no inherent AMR. When spatiotemporal clustering is included in the simulations, similar AMR signals are found by data fitting in both the real and synthetic data sets even though the synthetic data sets contain no real AMR. These tests demonstrate that apparent AMR may arise from a combination of data fitting and normal foreshock and aftershock activity. In principle, data-fitting artifacts could be avoided if the free parameters were determined from scaling relationships between the duration and spatial extent of the AMR pattern and the magnitude of the earthquake that follows it. However, we demonstrate that previously proposed scaling relationships are unstable, statistical artifacts caused by the use of a minimum magnitude for the earthquake catalog that scales with the main shock magnitude. Some recent AMR studies have used spatial regions based on hypothetical stress loading patterns, rather than circles, to select the data. We show that previous tests were biased and that unbiased tests do not find this change to the method to be an improvement. The use of declustered catalogs has also been proposed to eliminate the effect of clustering but we demonstrate that this does not increase the statistical significance of AMR. Given the ease with which data fitting can find desired patterns in seismicity, future studies of AMR-like observations must include complete tests against synthetic catalogs that include spatiotemporal clustering.

System and method for forming synthetic protein crystals to determine the conformational structure by crystallography

DOEpatents

Craig, George D.; Glass, Robert; Rupp, Bernhard

1997-01-01

A method for forming synthetic crystals of proteins in a carrier fluid by use of the dipole moments of protein macromolecules that self-align in the Helmholtz layer adjacent to an electrode. The voltage gradients of such layers easily exceed 10.sup.6 V/m. The synthetic protein crystals are subjected to x-ray crystallography to determine the conformational structure of the protein involved.

Simultaneous identification of synthetic and natural dyes in different food samples by UPLC-MS

NASA Astrophysics Data System (ADS)

Mandal, Badal Kumar; Mathiyalagan, Siva; Dalavai, Ramesh; Ling, Yong-Chien

2017-11-01

Fast foods and variety food items are populating among the food lovers. To improve the appearance of the food product in surviving gigantic competitive environment synthetic or natural food dyes are added to food items and beverages. Although regulatory bodies permit addition of natural colorants due to its safe and nontoxic nature in food, synthetic dyes are stringently controlled in all food products due to their toxicity by regulatory bodies. Artificial colors are need certification from the regulatory bodies for human consumption. To analyze food dyes in different food samples many analytical techniques are available like high pressure liquid chromatography (HPLC), thin layer chromatography (TLC), spectroscopic and gas chromatographic methods. However all these reported methods analyzed only synthetic dyes or natural dyes. Not a single method has analyzed both synthetic and natural dyes in a single run. In this study a robust ultra-performance liquid chromatographic method for simultaneous identification of 6 synthetic dyes (Tartrazine, Indigo carmine, Briliant blue, Fast green, malachite green, sunset yellow) and one natural dye (Na-Cu-Chlorophyllin) was developed using acquitic UPLC system equipped with Mass detector and acquity UPLC HSS T3 column (1.8 μm, 2.1 × 50 mm, 100Å). All the dyes were separated and their masses were determined through fragments’ masses analyses.

Atomistic mechanisms of rapid energy transport in light-harvesting molecules

NASA Astrophysics Data System (ADS)

Ohmura, Satoshi; Koga, Shiro; Akai, Ichiro; Shimojo, Fuyuki; Kalia, Rajiv K.; Nakano, Aiichiro; Vashishta, Priya

2011-03-01

Synthetic supermolecules such as π-conjugated light-harvesting dendrimers efficiently harvest energy from sunlight, which is of significant importance for the global energy problem. Key to their success is rapid transport of electronic excitation energy from peripheral antennas to photochemical reaction cores, the atomistic mechanisms of which remains elusive. Here, quantum-mechanical molecular dynamics simulation incorporating nonadiabatic electronic transitions reveals the key molecular motion that significantly accelerates the energy transport based on the Dexter mechanism.

Method and apparatus for removing heat from electronic devices using synthetic jets

DOEpatents

Sharma, Rajdeep; Weaver, Jr., Stanton Earl; Seeley, Charles Erklin; Arik, Mehmet; Icoz, Tunc; Wolfe, Jr., Charles Franklin; Utturkar, Yogen Vishwas

2014-04-15

An apparatus for removing heat comprises a heat sink having a cavity, and a synthetic jet stack comprising at least one synthetic jet mounted within the cavity. At least one rod and at least one engaging structure to provide a rigid positioning of the at least one synthetic jet with respect to the at least one rod. The synthetic jet comprises at least one orifice through which a fluid is ejected.

Method and apparatus for removing heat from electronic devices using synthetic jets

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

Sharma, Rajdeep; Weaver, Stanton Earl; Seeley, Charles Erklin

An apparatus for removing heat comprises a heat sink having a cavity, and a synthetic jet stack comprising at least one synthetic jet mounted within the cavity. At least one rod and at least one engaging structure to provide a rigid positioning of the at least one synthetic jet with respect to the at least one rod. The synthetic jet comprises at least one orifice through which a fluid is ejected.

Synthetic LDL as targeted drug delivery vehicle

DOEpatents

Forte, Trudy M [Berkeley, CA; Nikanjam, Mina [Richmond, CA

2012-08-28

The present invention provides a synthetic LDL nanoparticle comprising a lipid moiety and a synthetic chimeric peptide so as to be capable of binding the LDL receptor. The synthetic LDL nanoparticle of the present invention is capable of incorporating and targeting therapeutics to cells expressing the LDL receptor for diseases associated with the expression of the LDL receptor such as central nervous system diseases. The invention further provides methods of using such synthetic LDL nanoparticles.

Implementation of a generic SFC-MS method for the quality control of potentially counterfeited medicinal cannabis with synthetic cannabinoids.

PubMed

Jambo, Hugues; Dispas, Amandine; Avohou, Hermane T; André, Sébastien; Hubert, Cédric; Lebrun, Pierre; Ziemons, Éric; Hubert, Philippe

2018-06-05

In this study, we describe the development of a SFC-MS method for the quality control of cannabis plants that could be potentially adulterated with synthetic cannabinoids. Considering the high number of already available synthetic cannabinoids and the high rate of development of novel structures, we aimed to develop a generic method suitable for the analysis of a large panel of substances using seventeen synthetic cannabinoids from multiple classes as model compounds. Firstly, a suitable column was chosen after a screening phase. Secondly, optimal operating conditions were obtained following a robust optimization strategy based on a design of experiments and design space methodology (DoE-DS). Finally, the quantitative performances of the method were assessed with a validation according to the total error approach. The developed method has a run time of 9.4 min. It uses a simple modifier composition of methanol with 2% H 2 O and requires minimal sample preparation. It can chromatographically separate natural cannabinoids (except THC-A and CBD-A) from the synthetics assessed. Also, the use of mass spectrometry provides sensitivity and specificity. Moreover, this quality by design (QbD) approach permits the tuning of the method (within the DS) during routine analysis to achieve a desirable separation since the future compounds that should be analyzed could be unknown. The method was validated for the quantitation of a selected synthetic cannabinoid in fiber-type cannabis matrix over the range of 2.5% - 7.5% (w/w) with LOD value as low as 14.4 ng/mL. This generic method should be easy to implement in customs or QC laboratories in the context of counterfeit drugs tracking. Copyright © 2018 Elsevier B.V. All rights reserved.

Phase retrieval from the phase-shift moiré fringe patterns in simultaneous dual-wavelength interferometry

NASA Astrophysics Data System (ADS)

Cheng, Jinlong; Gao, Zhishan; Bie, Shuyou; Dou, Yimeng; Ni, Ruihu; Yuan, Qun

2018-02-01

Simultaneous dual-wavelength interferometry (SDWI) could extend the measured range of each single-wavelength interferometry. The moiré fringe generated in SDWI indirectly represents the information of the measured long synthetic-wavelength ({λ }{{S}}) phase, thus the phase demodulation is rather arduous. To address this issue, we present a method to convert the moiré fringe pattern into a synthetic-wavelength interferogram (moiré to synthetic-wavelength, MTS). After the square of the moiré fringe pattern in the MTS method, the additive moiré pattern is turned into a multiplicative one. And the synthetic-wavelength interferogram could be obtained by a low-pass filtering in spectrum of the multiplicative moiré fringe pattern. Therefore, when the dual-wavelength interferometer is implemented with the π/2 phase shift at {λ }{{S}}, a sequence of synthetic-wavelength phase-shift interferograms with π/2 phase shift could be obtained after the MTS method processing on the captured moiré fringe patterns. And then the synthetic-wavelength phase could be retrieved by the conventional phase-shift algorithm. Compared with other methods in SDWI, the proposed MTS approach could reduce the restriction of the phase shift and frame numbers for the adoption of the conventional phase-shift algorithm. Following, numerical simulations are executed to evaluate the performance of the MTS method in processing time, frames of interferograms and the phase shift error compensation. And the necessary linear carrier for MTS method is less than 0.11 times of the traditional dual-wavelength spatial-domain Fourier transform method. Finally, the deviations for MTS method in experiment are 0.97% for a step with the height of 7.8 μm and 1.11% for a Fresnel lens with the step height of 6.2328 μm.

Dissolution of Biogenic and Synthetic UO2 under Varied Reducing Conditions

PubMed Central

ULRICH, KAI – UWE; SINGH, ABHAS; SCHOFIELD, ELEANOR J.; BARGAR, JOHN R.; VEERAMANI, HARISH; SHARP, JONATHAN O.; LATMANI, RIZLAN BERNIER -; GIAMMAR, DANIEL E.

2008-01-01

The chemical stability of biogenic UO2, a nanoparticulate product of environmental bioremediation, may be impacted by the particles’ surface free energy, structural defects, and compositional variability in analogy to abiotic UO2+x (0 ≤ x ≤ 0.25). This study quantifies and compares intrinsic solubility and dissolution rate constants of biogenic nano-UO2 and synthetic bulk UO2.00, taking molecular-scale structure into account. Rates were determined under anoxic conditions as a function of pH and dissolved inorganic carbon in continuous-flow experiments. The dissolution rates of biogenic and synthetic UO2 solids were lowest at near neutral pH and increased with decreasing pH. Similar surface area-normalized rates of biogenic and synthetic UO2 suggest comparable reactive surface site densities. This finding is consistent with the identified structural homology of biogenic UO2 and stoichiometric UO2.00. Compared to carbonate-free anoxic conditions, dissolved inorganic carbon accelerated the dissolution rate of biogenic UO2 by 3 orders of magnitude. This phenomenon suggests continuous surface oxidation of U(IV) to U(VI), with detachment of U(VI) as the rate-determining step in dissolution. Although reducing conditions were maintained throughout the experiments, the UO2 surface can be oxidized by water and radiogenic oxidants. Even in anoxic aquifers, UO2 dissolution may be controlled by surface U(VI) rather than U(IV) phases. PMID:18754482

Solution of the within-group multidimensional discrete ordinates transport equations on massively parallel architectures

NASA Astrophysics Data System (ADS)

Zerr, Robert Joseph

2011-12-01

The integral transport matrix method (ITMM) has been used as the kernel of new parallel solution methods for the discrete ordinates approximation of the within-group neutron transport equation. The ITMM abandons the repetitive mesh sweeps of the traditional source iterations (SI) scheme in favor of constructing stored operators that account for the direct coupling factors among all the cells and between the cells and boundary surfaces. The main goals of this work were to develop the algorithms that construct these operators and employ them in the solution process, determine the most suitable way to parallelize the entire procedure, and evaluate the behavior and performance of the developed methods for increasing number of processes. This project compares the effectiveness of the ITMM with the SI scheme parallelized with the Koch-Baker-Alcouffe (KBA) method. The primary parallel solution method involves a decomposition of the domain into smaller spatial sub-domains, each with their own transport matrices, and coupled together via interface boundary angular fluxes. Each sub-domain has its own set of ITMM operators and represents an independent transport problem. Multiple iterative parallel solution methods have investigated, including parallel block Jacobi (PBJ), parallel red/black Gauss-Seidel (PGS), and parallel GMRES (PGMRES). The fastest observed parallel solution method, PGS, was used in a weak scaling comparison with the PARTISN code. Compared to the state-of-the-art SI-KBA with diffusion synthetic acceleration (DSA), this new method without acceleration/preconditioning is not competitive for any problem parameters considered. The best comparisons occur for problems that are difficult for SI DSA, namely highly scattering and optically thick. SI DSA execution time curves are generally steeper than the PGS ones. However, until further testing is performed it cannot be concluded that SI DSA does not outperform the ITMM with PGS even on several thousand or tens of thousands of processors. The PGS method does outperform SI DSA for the periodic heterogeneous layers (PHL) configuration problems. Although this demonstrates a relative strength/weakness between the two methods, the practicality of these problems is much less, further limiting instances where it would be beneficial to select ITMM over SI DSA. The results strongly indicate a need for a robust, stable, and efficient acceleration method (or preconditioner for PGMRES). The spatial multigrid (SMG) method is currently incomplete in that it does not work for all cases considered and does not effectively improve the convergence rate for all values of scattering ratio c or cell dimension h. Nevertheless, it does display the desired trend for highly scattering, optically thin problems. That is, it tends to lower the rate of growth of number of iterations with increasing number of processes, P, while not increasing the number of additional operations per iteration to the extent that the total execution time of the rapidly converging accelerated iterations exceeds that of the slower unaccelerated iterations. A predictive parallel performance model has been developed for the PBJ method. Timing tests were performed such that trend lines could be fitted to the data for the different components and used to estimate the execution times. Applied to the weak scaling results, the model notably underestimates construction time, but combined with a slight overestimation in iterative solution time, the model predicts total execution time very well for large P. It also does a decent job with the strong scaling results, closely predicting the construction time and time per iteration, especially as P increases. Although not shown to be competitive up to 1,024 processing elements with the current state of the art, the parallelized ITMM exhibits promising scaling trends. Ultimately, compared to the KBA method, the parallelized ITMM may be found to be a very attractive option for transport calculations spatially decomposed over several tens of thousands of processes. Acceleration/preconditioning of the parallelized ITMM once developed will improve the convergence rate and improve its competitiveness. (Abstract shortened by UMI.)

GPU accelerated edge-region based level set evolution constrained by 2D gray-scale histogram.

PubMed

Balla-Arabé, Souleymane; Gao, Xinbo; Wang, Bin

2013-07-01

Due to its intrinsic nature which allows to easily handle complex shapes and topological changes, the level set method (LSM) has been widely used in image segmentation. Nevertheless, LSM is computationally expensive, which limits its applications in real-time systems. For this purpose, we propose a new level set algorithm, which uses simultaneously edge, region, and 2D histogram information in order to efficiently segment objects of interest in a given scene. The computational complexity of the proposed LSM is greatly reduced by using the highly parallelizable lattice Boltzmann method (LBM) with a body force to solve the level set equation (LSE). The body force is the link with image data and is defined from the proposed LSE. The proposed LSM is then implemented using an NVIDIA graphics processing units to fully take advantage of the LBM local nature. The new algorithm is effective, robust against noise, independent to the initial contour, fast, and highly parallelizable. The edge and region information enable to detect objects with and without edges, and the 2D histogram information enable the effectiveness of the method in a noisy environment. Experimental results on synthetic and real images demonstrate subjectively and objectively the performance of the proposed method.

A Novel Method for Vertical Acceleration Noise Suppression of a Thrust-Vectored VTOL UAV.

PubMed

Li, Huanyu; Wu, Linfeng; Li, Yingjie; Li, Chunwen; Li, Hangyu

2016-12-02

Acceleration is of great importance in motion control for unmanned aerial vehicles (UAVs), especially during the takeoff and landing stages. However, the measured acceleration is inevitably polluted by severe noise. Therefore, a proper noise suppression procedure is required. This paper presents a novel method to reduce the noise in the measured vertical acceleration for a thrust-vectored tail-sitter vertical takeoff and landing (VTOL) UAV. In the new procedure, a Kalman filter is first applied to estimate the UAV mass by using the information in the vertical thrust and measured acceleration. The UAV mass is then used to compute an estimate of UAV vertical acceleration. The estimated acceleration is finally fused with the measured acceleration to obtain the minimum variance estimate of vertical acceleration. By doing this, the new approach incorporates the thrust information into the acceleration estimate. The method is applied to the data measured in a VTOL UAV takeoff experiment. Two other denoising approaches developed by former researchers are also tested for comparison. The results demonstrate that the new method is able to suppress the acceleration noise substantially. It also maintains the real-time performance in the final estimated acceleration, which is not seen in the former denoising approaches. The acceleration treated with the new method can be readily used in the motion control applications for UAVs to achieve improved accuracy.

A Novel Method for Vertical Acceleration Noise Suppression of a Thrust-Vectored VTOL UAV

PubMed Central

Li, Huanyu; Wu, Linfeng; Li, Yingjie; Li, Chunwen; Li, Hangyu

2016-01-01

Acceleration is of great importance in motion control for unmanned aerial vehicles (UAVs), especially during the takeoff and landing stages. However, the measured acceleration is inevitably polluted by severe noise. Therefore, a proper noise suppression procedure is required. This paper presents a novel method to reduce the noise in the measured vertical acceleration for a thrust-vectored tail-sitter vertical takeoff and landing (VTOL) UAV. In the new procedure, a Kalman filter is first applied to estimate the UAV mass by using the information in the vertical thrust and measured acceleration. The UAV mass is then used to compute an estimate of UAV vertical acceleration. The estimated acceleration is finally fused with the measured acceleration to obtain the minimum variance estimate of vertical acceleration. By doing this, the new approach incorporates the thrust information into the acceleration estimate. The method is applied to the data measured in a VTOL UAV takeoff experiment. Two other denoising approaches developed by former researchers are also tested for comparison. The results demonstrate that the new method is able to suppress the acceleration noise substantially. It also maintains the real-time performance in the final estimated acceleration, which is not seen in the former denoising approaches. The acceleration treated with the new method can be readily used in the motion control applications for UAVs to achieve improved accuracy. PMID:27918422

Efficacy of ipamorelin, a ghrelin mimetic, on gastric dysmotility in a rodent model of postoperative ileus

PubMed Central

Greenwood-Van Meerveld, Beverley; Tyler, Karl; Mohammadi, Ehsan; Pietra, Claudio

2012-01-01

Background Delayed gastric emptying is a common disorder with few effective therapeutic options. The goal of this study was to investigate whether ipamorelin, a synthetic peptidomimetic that acts on the ghrelin receptor, accelerates gastric emptying in a rodent model of gastroparesis induced by abdominal surgery and intestinal manipulation. Methods Fasted adult male rats were subjected to laparotomy and intestinal manipulation. Following the surgery rats received ipamorelin (0.014–0.14 µmol/kg) or vehicle control via intravenous administration. Gastric emptying was measured by the percent of total recovered radioactivity remaining in the stomach 15 minutes after intragastric gavage of 1.5 mL of 99mTc (technicium-99m) sulfur colloid in 0.5% methylcellulose. In a separate group of rats subjected to laparotomy and intestinal manipulation, the gastric fundus was isolated and tissue segments were suspended in an organ bath to assess the effect of ipamorelin (1 µM) on gastric smooth muscle contractility induced by acetylcholine and electrical field stimulation. Results Abdominal surgery caused a delay in gastric emptying with 78% ± 5% of the meal remaining in the stomach in vehicle controls. Ipamorelin (0.014 µmol/kg intravenous) resulted in a significant acceleration (P < 0.05 vs vehicle-treated rat) of gastric emptying with 52% ± 11% of the meal remaining in the stomach compared to nonsurgical control animals with 44% ± 6%. Following abdominal surgery and intestinal manipulation, isolated preparations of gastric smooth muscle exhibited a marked inhibition of acetylcholine and electrical field stimulation-induced contractile responses, which were reversed by ipamorelin and ghrelin. Conclusion These results suggest that ipamorelin accelerates gastric emptying in a rodent model of postoperative ileus through the stimulation of gastric contractility by activating a ghrelin receptor-mediated mechanism involving cholinergic excitatory neurons. PMID:27186127

On Bayesian Testing of Additive Conjoint Measurement Axioms Using Synthetic Likelihood

ERIC Educational Resources Information Center

Karabatsos, George

2017-01-01

This article introduces a Bayesian method for testing the axioms of additive conjoint measurement. The method is based on an importance sampling algorithm that performs likelihood-free, approximate Bayesian inference using a synthetic likelihood to overcome the analytical intractability of this testing problem. This new method improves upon…

System and method for forming synthetic protein crystals to determine the conformational structure by crystallography

DOEpatents

Craig, G.D.; Glass, R.; Rupp, B.

1997-01-28

A method is disclosed for forming synthetic crystals of proteins in a carrier fluid by use of the dipole moments of protein macromolecules that self-align in the Helmholtz layer adjacent to an electrode. The voltage gradients of such layers easily exceed 10{sup 6}V/m. The synthetic protein crystals are subjected to x-ray crystallography to determine the conformational structure of the protein involved. 2 figs.

Long-Term Effects of Synthetic versus Analytic Phonics Teaching on the Reading and Spelling Ability of 10 Year Old Boys and Girls

ERIC Educational Resources Information Center

Johnston, Rhona S.; McGeown, Sarah; Watson, Joyce E.

2012-01-01

A comparison was made of 10-year-old boys and girls who had learnt to read by analytic or synthetic phonics methods as part of their early literacy programmes. The boys taught by the synthetic phonics method had better word reading than the girls in their classes, and their spelling and reading comprehension was as good. In contrast, with analytic…

Analysis of Parent Synthetic Cannabinoids in Blood and Urinary Metabolites by Liquid Chromatography Tandem Mass Spectrometry

PubMed Central

Knittel, Jessica L.; Holler, Justin M.; Chmiel, Jeffrey D.; Vorce, Shawn P.; Magluilo, Joseph; Levine, Barry; Ramos, Gerardo; Bosy, Thomas Z.

2016-01-01

Synthetic cannabinoids emerged on the designer drug market in recent years due to their ability to produce cannabis-like effects without the risk of detection by traditional drug testing techniques such as immunoassay and gas chromatography–mass spectrometry. As government agencies work to schedule existing synthetic cannabinoids, new, unregulated and structurally diverse compounds continue to be developed and sold. Synthetic cannabinoids undergo extensive metabolic conversion. Consequently, both blood and urine specimens may play an important role in the forensic analysis of synthetic cannabinoids. It has been observed that structurally similar synthetic cannabinoids follow common metabolic pathways, which often produce metabolites with similar metabolic transformations. Presented are two validated quantitative methods for extracting and identifying 15 parent synthetic cannabinoids in blood, 17 synthetic cannabinoid metabolites in urine and the qualitative identification of 2 additional parent compounds. The linear range for most synthetic cannabinoid compounds monitored was 0.1–10 ng/mL with the limit of detection between 0.01 and 0.5 ng/mL. Selectivity, specificity, accuracy, precision, recovery and matrix effect were also examined and determined to be acceptable for each compound. The validated methods were used to analyze a compilation of synthetic cannabinoid investigative cases where both blood and urine specimens were submitted. The study suggests a strong correlation between the metabolites detected in urine and the parent compounds found in blood. PMID:26792810

Robust synthetic biology design: stochastic game theory approach.

PubMed

Chen, Bor-Sen; Chang, Chia-Hung; Lee, Hsiao-Ching

2009-07-15

Synthetic biology is to engineer artificial biological systems to investigate natural biological phenomena and for a variety of applications. However, the development of synthetic gene networks is still difficult and most newly created gene networks are non-functioning due to uncertain initial conditions and disturbances of extra-cellular environments on the host cell. At present, how to design a robust synthetic gene network to work properly under these uncertain factors is the most important topic of synthetic biology. A robust regulation design is proposed for a stochastic synthetic gene network to achieve the prescribed steady states under these uncertain factors from the minimax regulation perspective. This minimax regulation design problem can be transformed to an equivalent stochastic game problem. Since it is not easy to solve the robust regulation design problem of synthetic gene networks by non-linear stochastic game method directly, the Takagi-Sugeno (T-S) fuzzy model is proposed to approximate the non-linear synthetic gene network via the linear matrix inequality (LMI) technique through the Robust Control Toolbox in Matlab. Finally, an in silico example is given to illustrate the design procedure and to confirm the efficiency and efficacy of the proposed robust gene design method. http://www.ee.nthu.edu.tw/bschen/SyntheticBioDesign_supplement.pdf.

Hydrogen enrichment of synthetic fuel

NASA Technical Reports Server (NTRS)

Jay, C. G.

1978-01-01

Synthetic gas may be produced at lower cost and higher efficiency by using outside source of hydrogen. Method is compatible with same temperatures and pressures as shift reaction. Process increases efficiency by using less coal and water to provide equal amount of synthetic gas.

Using Synthetic Nanopores for Single-Molecule Analyses: Detecting SNPs, Trapping DNA Molecules, and the Prospects for Sequencing DNA

ERIC Educational Resources Information Center

Dimitrov, Valentin V.

2009-01-01

This work focuses on studying properties of DNA molecules and DNA-protein interactions using synthetic nanopores, and it examines the prospects of sequencing DNA using synthetic nanopores. We have developed a method for discriminating between alleles that uses a synthetic nanopore to measure the binding of a restriction enzyme to DNA. There exists…

Accelerator system and method of accelerating particles

NASA Technical Reports Server (NTRS)

Wirz, Richard E. (Inventor)

2010-01-01

An accelerator system and method that utilize dust as the primary mass flux for generating thrust are provided. The accelerator system can include an accelerator capable of operating in a self-neutralizing mode and having a discharge chamber and at least one ionizer capable of charging dust particles. The system can also include a dust particle feeder that is capable of introducing the dust particles into the accelerator. By applying a pulsed positive and negative charge voltage to the accelerator, the charged dust particles can be accelerated thereby generating thrust and neutralizing the accelerator system.

Terminator Operon Reporter: combining a transcription termination switch with reporter technology for improved gene synthesis and synthetic biology applications.

PubMed

Zampini, Massimiliano; Mur, Luis A J; Rees Stevens, Pauline; Pachebat, Justin A; Newbold, C James; Hayes, Finbarr; Kingston-Smith, Alison

2016-05-25

Synthetic biology is characterized by the development of novel and powerful DNA fabrication methods and by the application of engineering principles to biology. The current study describes Terminator Operon Reporter (TOR), a new gene assembly technology based on the conditional activation of a reporter gene in response to sequence errors occurring at the assembly stage of the synthetic element. These errors are monitored by a transcription terminator that is placed between the synthetic gene and reporter gene. Switching of this terminator between active and inactive states dictates the transcription status of the downstream reporter gene to provide a rapid and facile readout of the accuracy of synthetic assembly. Designed specifically and uniquely for the synthesis of protein coding genes in bacteria, TOR allows the rapid and cost-effective fabrication of synthetic constructs by employing oligonucleotides at the most basic purification level (desalted) and without the need for costly and time-consuming post-synthesis correction methods. Thus, TOR streamlines gene assembly approaches, which are central to the future development of synthetic biology.

Protein design in systems metabolic engineering for industrial strain development.

PubMed

Chen, Zhen; Zeng, An-Ping

2013-05-01

Accelerating the process of industrial bacterial host strain development, aimed at increasing productivity, generating new bio-products or utilizing alternative feedstocks, requires the integration of complementary approaches to manipulate cellular metabolism and regulatory networks. Systems metabolic engineering extends the concept of classical metabolic engineering to the systems level by incorporating the techniques used in systems biology and synthetic biology, and offers a framework for the development of the next generation of industrial strains. As one of the most useful tools of systems metabolic engineering, protein design allows us to design and optimize cellular metabolism at a molecular level. Here, we review the current strategies of protein design for engineering cellular synthetic pathways, metabolic control systems and signaling pathways, and highlight the challenges of this subfield within the context of systems metabolic engineering. Copyright © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

A potent synthetic inorganic antibiotic with activity against drug-resistant pathogens.

PubMed

Hubick, Shelby; Jayaraman, Arumugam; McKeen, Alexander; Reid, Shelby; Alcorn, Jane; Stavrinides, John; Sterenberg, Brian T

2017-02-06

The acronymously named "ESKAPE" pathogens represent a group of bacteria that continue to pose a serious threat to human health, not only due to their propensity for repeated emergence, but also due to their ability to "eskape" antibiotic treatment. The evolution of multi-drug resistance in these pathogens alone has greatly outpaced the development of new therapeutics, necessitating an alternative strategy for antibiotic development that considers the evolutionary mechanisms driving antibiotic resistance. In this study, we synthesize a novel inorganic antibiotic, phosphopyricin, which has antibiotic activity against the Gram-positive methicillin-resistant Staphylococcus aureus (MRSA) and vancomycin-resistant Enterococcus faecium (VRE). We show that this potent antibiotic is bactericidal, and exhibits low toxicity in an acute dose assay in mice. As a synthetic compound that does not occur naturally, phosphopyricin would be evolutionarily foreign to microbes, thereby slowing the evolution of resistance. In addition, it loses antibiotic activity upon exposure to light, meaning that the active antibiotic will not accumulate in the general environment where strong selective pressures imposed by antibiotic residuals are known to accelerate resistance. Phosphopyricin represents an innovation in antimicrobials, having a synthetic core, and a photosensitive chemical architecture that would reduce accumulation in the environment.

A potent synthetic inorganic antibiotic with activity against drug-resistant pathogens

PubMed Central

Hubick, Shelby; Jayaraman, Arumugam; McKeen, Alexander; Reid, Shelby; Alcorn, Jane; Stavrinides, John; Sterenberg, Brian T.

2017-01-01

The acronymously named “ESKAPE” pathogens represent a group of bacteria that continue to pose a serious threat to human health, not only due to their propensity for repeated emergence, but also due to their ability to “eskape” antibiotic treatment12. The evolution of multi-drug resistance in these pathogens alone has greatly outpaced the development of new therapeutics, necessitating an alternative strategy for antibiotic development that considers the evolutionary mechanisms driving antibiotic resistance. In this study, we synthesize a novel inorganic antibiotic, phosphopyricin, which has antibiotic activity against the Gram-positive methicillin-resistant Staphylococcus aureus (MRSA) and vancomycin-resistant Enterococcus faecium (VRE). We show that this potent antibiotic is bactericidal, and exhibits low toxicity in an acute dose assay in mice. As a synthetic compound that does not occur naturally, phosphopyricin would be evolutionarily foreign to microbes, thereby slowing the evolution of resistance. In addition, it loses antibiotic activity upon exposure to light, meaning that the active antibiotic will not accumulate in the general environment where strong selective pressures imposed by antibiotic residuals are known to accelerate resistance. Phosphopyricin represents an innovation in antimicrobials, having a synthetic core, and a photosensitive chemical architecture that would reduce accumulation in the environment. PMID:28165020

Degradation and metabolism of synthetic plastics and associated products by Pseudomonas sp.: capabilities and challenges.

PubMed

Wilkes, R A; Aristilde, L

2017-09-01

Synthetic plastics, which are widely present in materials of everyday use, are ubiquitous and slowly-degrading polymers in environmental wastes. Of special interest are the capabilities of microorganisms to accelerate their degradation. Members of the metabolically diverse genus Pseudomonas are of particular interest due to their capabilities to degrade and metabolize synthetic plastics. Pseudomonas species isolated from environmental matrices have been identified to degrade polyethylene, polypropylene, polyvinyl chloride, polystyrene, polyurethane, polyethylene terephthalate, polyethylene succinate, polyethylene glycol and polyvinyl alcohol at varying degrees of efficiency. Here, we present a review of the current knowledge on the factors that control the ability of Pseudomonas sp. to process these different plastic polymers and their by-products. These factors include cell surface attachment within biofilms, catalytic enzymes involved in oxidation or hydrolysis of the plastic polymer, metabolic pathways responsible for uptake and assimilation of plastic fragments and chemical factors that are advantageous or inhibitory to the biodegradation process. We also highlight future research directions required in order to harness fully the capabilities of Pseudomonas sp. in bioremediation strategies towards eliminating plastic wastes. © 2017 The Society for Applied Microbiology.

Design and development of synthetic microbial platform cells for bioenergy

PubMed Central

Lee, Sang Jun; Lee, Sang-Jae; Lee, Dong-Woo

2013-01-01

The finite reservation of fossil fuels accelerates the necessity of development of renewable energy sources. Recent advances in synthetic biology encompassing systems biology and metabolic engineering enable us to engineer and/or create tailor made microorganisms to produce alternative biofuels for the future bio-era. For the efficient transformation of biomass to bioenergy, microbial cells need to be designed and engineered to maximize the performance of cellular metabolisms for the production of biofuels during energy flow. Toward this end, two different conceptual approaches have been applied for the development of platform cell factories: forward minimization and reverse engineering. From the context of naturally minimized genomes,non-essential energy-consuming pathways and/or related gene clusters could be progressively deleted to optimize cellular energy status for bioenergy production. Alternatively, incorporation of non-indigenous parts and/or modules including biomass-degrading enzymes, carbon uptake transporters, photosynthesis, CO2 fixation, and etc. into chassis microorganisms allows the platform cells to gain novel metabolic functions for bioenergy. This review focuses on the current progress in synthetic biology-aided pathway engineering in microbial cells and discusses its impact on the production of sustainable bioenergy. PMID:23626588

Synfuel production in nuclear reactors

DOEpatents

Henning, C.D.

Apparatus and method for producing synthetic fuels and synthetic fuel components by using a neutron source as the energy source, such as a fusion reactor. Neutron absorbers are disposed inside a reaction pipe and are heated by capturing neutrons from the neutron source. Synthetic fuel feedstock is then placed into contact with the heated neutron absorbers. The feedstock is heated and dissociates into its constituent synfuel components, or alternatively is at least preheated sufficiently to use in a subsequent electrolysis process to produce synthetic fuels and synthetic fuel components.

Multiscale Dynamics of Aseismic Slip on Central San Andreas Fault

NASA Astrophysics Data System (ADS)

Khoshmanesh, M.; Shirzaei, M.

2018-03-01

Understanding the evolution of aseismic slip enables constraining the fault's seismic budget and provides insight into dynamics of creep. Inverting the time series of surface deformation measured along the Central San Andreas Fault obtained from interferometric synthetic aperture radar in combination with measurements of repeating earthquakes, we constrain the spatiotemporal distribution of creep during 1992-2010. We identify a new class of intermediate-term creep rate variations that evolve over decadal scale, releasing stress on the accelerating zone and loading adjacent decelerating patches. We further show that in short-term (<2 year period), creep avalanches, that is, isolated clusters of accelerated aseismic slip with velocities exceeding the long-term rate, govern the dynamics of creep. The statistical properties of these avalanches suggest existence of elevated pore pressure in the fault zone, consistent with laboratory experiments.

Stable electron beams from laser wakefield acceleration with few-terawatt driver using a supersonic air jet

NASA Astrophysics Data System (ADS)

Boháček, K.; Kozlová, M.; Nejdl, J.; Chaulagain, U.; Horný, V.; Krůs, M.; Ta Phuoc, K.

2018-03-01

The generation of stable electron beams produced by the laser wakefield acceleration mechanism with a few-terawatt laser system (600 mJ, 50 fs) in a supersonic synthetic air jet is reported and the requirements necessary to build such a stable electron source are experimentally investigated in conditions near the bubble regime threshold. The resulting electron beams have stable energies of (17.4 ± 1.1) MeV and an energy spread of (13.5 ± 1.5) MeV (FWHM), which has been achieved by optimizing the properties of the supersonic gas jet target for the given laser system. Due to the availability of few-terawatt laser systems in many laboratories around the world these stable electron beams open possibilities for applications of this type of particle source.

Improvement in vehicle agility and stability by G-Vectoring control

NASA Astrophysics Data System (ADS)

Yamakado, Makoto; Takahashi, Jyunya; Saito, Shinjiro; Yokoyama, Atsushi; Abe, Masato

2010-12-01

We extracted a trade-off strategy between longitudinal traction/braking force and cornering force by using jerk information through observing an expert driver's voluntary braking and turning action. Using the expert driver's strategy, we developed a new control concept, called 'G-Vectoring control', which is an automatic longitudinal acceleration control (No DYC) in accordance with the vehicle's lateral jerk caused by the driver's steering manoeuvres. With the control, the direction of synthetic acceleration (G) changes seamlessly (i.e. vectoring). The improvements in vehicle agility and stability were evaluated by theoretical analysis and through computer simulation. We then introduced a 'G-Vectoring' equipped test vehicle realised by brake-by-wire technology and executed a detailed examination on a test track. We have confirmed that the vehicle motion in view of both handling and ride quality has improved dramatically.

CUDA-Accelerated Geodesic Ray-Tracing for Fiber Tracking

PubMed Central

van Aart, Evert; Sepasian, Neda; Jalba, Andrei; Vilanova, Anna

2011-01-01

Diffusion Tensor Imaging (DTI) allows to noninvasively measure the diffusion of water in fibrous tissue. By reconstructing the fibers from DTI data using a fiber-tracking algorithm, we can deduce the structure of the tissue. In this paper, we outline an approach to accelerating such a fiber-tracking algorithm using a Graphics Processing Unit (GPU). This algorithm, which is based on the calculation of geodesics, has shown promising results for both synthetic and real data, but is limited in its applicability by its high computational requirements. We present a solution which uses the parallelism offered by modern GPUs, in combination with the CUDA platform by NVIDIA, to significantly reduce the execution time of the fiber-tracking algorithm. Compared to a multithreaded CPU implementation of the same algorithm, our GPU mapping achieves a speedup factor of up to 40 times. PMID:21941525

Using Synthetic Controls to Evaluate the Effect of Unique Interventions: The Case of Say Yes to Education.

PubMed

Bifulco, Robert; Rubenstein, Ross; Sohn, Hosung

2017-12-01

"Place-based" scholarships seek to improve student outcomes in urban school districts and promote urban revitalization in economically challenged cities. Say Yes to Education is a unique district-wide school reform effort adopted in Syracuse, NY, in 2008. It includes full-tuition scholarships for public and private universities, coupled with extensive wraparound support services in schools. This study uses synthetic control methods to evaluate the effect of Say Yes on district enrollment and graduation rates. It also introduces the synthetic control method and provides guidance for its use in evaluating single-site interventions. Combining school district-level data from the National Center for Education Statistics' Common Core of Data and New York State School Report Cards, this article uses synthetic control methods to construct a synthetic comparison district to estimate counterfactual enrollment and graduation trends for Syracuse. We find that Say Yes to Education was associated with enrollment increases in the Syracuse City School District, a district that had previously experienced decades of sustained enrollment declines. We do not find consistent evidence of changes in graduation rates following adoption of the program. Graduation rate analyses demonstrate that estimates of treatment effects can be sensitive to choices that the researcher has to make in applying synthetic control methods, particularly when pretreatment outcome measures appear to have considerable amounts of noise.

Localization of Short-Chain Polyphosphate Enhances its Ability to Clot Flowing Blood Plasma

NASA Astrophysics Data System (ADS)

Yeon, Ju Hun; Mazinani, Nima; Schlappi, Travis S.; Chan, Karen Y. T.; Baylis, James R.; Smith, Stephanie A.; Donovan, Alexander J.; Kudela, Damien; Stucky, Galen D.; Liu, Ying; Morrissey, James H.; Kastrup, Christian J.

2017-02-01

Short-chain polyphosphate (polyP) is released from platelets upon platelet activation, but it is not clear if it contributes to thrombosis. PolyP has increased propensity to clot blood with increased polymer length and when localized onto particles, but it is unknown whether spatial localization of short-chain polyP can accelerate clotting of flowing blood. Here, numerical simulations predicted the effect of localization of polyP on clotting under flow, and this was tested in vitro using microfluidics. Synthetic polyP was more effective at triggering clotting of flowing blood plasma when localized on a surface than when solubilized in solution or when localized as nanoparticles, accelerating clotting at 10-200 fold lower concentrations, particularly at low to sub-physiological shear rates typical of where thrombosis occurs in large veins or valves. Thus, sub-micromolar concentrations of short-chain polyP can accelerate clotting of flowing blood plasma under flow at low to sub-physiological shear rates. However, a physiological mechanism for the localization of polyP to platelet or vascular surfaces remains unknown.

Accelerating Aerobic Sludge Granulation by Adding Dry Sewage Sludge Micropowder in Sequencing Batch Reactors

PubMed Central

Li, Jun; Liu, Jun; Wang, Danjun; Chen, Tao; Ma, Ting; Wang, Zhihong; Zhuo, Weilong

2015-01-01

Micropowder (20–250 µm) made from ground dry waste sludge from a municipal sewage treatment plant was added in a sequencing batch reactor (R2), which was fed by synthetic wastewater with acetate as carbon source. Compared with the traditional SBR (R1), aerobic sludge granulation time was shortened 15 days in R2. Furthermore, filamentous bacteria in bulking sludge were controlled to accelerate aerobic granulation and form large granules. Correspondingly, the SVI decreased from 225 mL/g to 37 mL/g. X-ray Fluorescence (XRF) analysis demonstrated that Al and Si from the micropowder were accumulated in granules. A mechanism hypotheses for the acceleration of aerobic granulation by adding dry sludge micropowder is proposed: added micropowder acts as nuclei to induce bacterial attachment; dissolved matters from the micropowder increase abruptly the organic load for starved sludge to control overgrown filamentous bacteria as a framework for aggregation; increased friction from the movement of micropowder forces the filaments which extend outwards to shrink for shaping granules. PMID:26308025

Performance of Point and Range Queries for In-memory Databases using Radix Trees on GPUs

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

Alam, Maksudul; Yoginath, Srikanth B; Perumalla, Kalyan S

In in-memory database systems augmented by hardware accelerators, accelerating the index searching operations can greatly increase the runtime performance of database queries. Recently, adaptive radix trees (ART) have been shown to provide very fast index search implementation on the CPU. Here, we focus on an accelerator-based implementation of ART. We present a detailed performance study of our GPU-based adaptive radix tree (GRT) implementation over a variety of key distributions, synthetic benchmarks, and actual keys from music and book data sets. The performance is also compared with other index-searching schemes on the GPU. GRT on modern GPUs achieves some of themore » highest rates of index searches reported in the literature. For point queries, a throughput of up to 106 million and 130 million lookups per second is achieved for sparse and dense keys, respectively. For range queries, GRT yields 600 million and 1000 million lookups per second for sparse and dense keys, respectively, on a large dataset of 64 million 32-bit keys.« less

Design of a diamond-crystal monochromator for the LCLS hard x-ray self-seeding project

NASA Astrophysics Data System (ADS)

Shu, D.; Shvyd'ko, Y.; Amann, J.; Emma, P.; Stoupin, S.; Quintana, J.

2013-03-01

As the result of collaborations between the Advanced Photon Source (APS), Argonne National Laboratory, and the Linac Coherent Light Source (LCLS) at SLAC National Accelerator Laboratory, we have designed and constructed a diamond crystal monochromator for the LCLS hard x-ray self-seeding project. The novel monochromator is ultrahigh-vacuum compatible to meet the LCLS linear accelerator vacuum environmental requirement. A special graphite holder was designed for strain-free mount of the 110-μm thin synthetic diamond crystal plate provided by Technological Institute for Super-hard and Novel Carbon Materials of Russia (TISNCM). An in-vacuum multi-axis precision positioning mechanism is designed to manipulate the thin-film diamond holder with resolutions and stabilities required by the hard x-ray self-seeding physics. Optical encoders, limit switches, and hardware stops are established in the mechanism to ensure system reliability and to meet the accelerator personal and equipment safety interlock requirements. Molybdenum shields are installed in the monochromator to protect the encoders and associated electronics from radiation damage. Mechanical specifications, designs, and preliminary test results of the diamond monochromator are presented in this paper.

LC/ESI-MS/MS method for quantification of 28 synthetic cannabinoids in neat oral fluid and its application to preliminary studies on their detection windows.

PubMed

Kneisel, Stefan; Speck, Michael; Moosmann, Bjoern; Corneillie, Todd M; Butlin, Nathaniel G; Auwärter, Volker

2013-05-01

Serum and urine samples are commonly used for the analysis of synthetic cannabinoids in biofluids; however, their utilization as analytical matrices for drug abstinence control features some substantial drawbacks. While for blood collection invasive sampling is inevitable, the urinary analysis of synthetic cannabinoids is limited by the lack of available reference standards of the respective major metabolites. Moreover, the long detectability of synthetic cannabinoids in both matrices hampers the identification of a recent synthetic cannabinoid use. This article describes the development, validation and application of an LC/ESI-MS/MS method for the quantification of 28 synthetic cannabinoids in neat oral fluid (OF) samples. OF samples were prepared by protein precipitation using ice-cold acetonitrile. Chromatographic separation was achieved by gradient elution on a Luna Phenyl Hexyl column (50 × 2 mm, 5 μm), while detection was carried out on a QTrap 4000 instrument in positive ionization mode. The limits of detection ranged from 0.02 to 0.40 ng/mL, whereas the lower limits of quantification ranged from 0.2 to 4.0 ng/mL. The method was applied to authentic samples collected during two preliminary studies in order to obtain insights into the general detectability and detection windows of synthetic cannabinoids in this matrix. The results indicate that synthetic cannabinoids are transferred from the blood stream into OF and vice versa only at a very low rate. Therefore, positive OF samples are due to contamination of the oral cavity during smoking. As these drug-contaminations could be detected up to approximately 2 days, neat oral fluid appears to be well suited for detection of a recent synthetic cannabinoid use.

Systems and methods for the magnetic insulation of accelerator electrodes in electrostatic accelerators

DOEpatents

Grisham, Larry R

2013-12-17

The present invention provides systems and methods for the magnetic insulation of accelerator electrodes in electrostatic accelerators. Advantageously, the systems and methods of the present invention improve the practically obtainable performance of these electrostatic accelerators by addressing, among other things, voltage holding problems and conditioning issues. The problems and issues are addressed by flowing electric currents along these accelerator electrodes to produce magnetic fields that envelope the accelerator electrodes and their support structures, so as to prevent very low energy electrons from leaving the surfaces of the accelerator electrodes and subsequently picking up energy from the surrounding electric field. In various applications, this magnetic insulation must only produce modest gains in voltage holding capability to represent a significant achievement.

Chemical Amplification with Encapsulated Reagents

NASA Technical Reports Server (NTRS)

Chen, Jian; Koemer, Steffi; Craig, Stephen; Lin, Shirley; Rudkevich, Dmitry M.; Rebek, Julius, Jr.

2002-01-01

Autocatalysis and chemical amplification are characteristic properties of living systems, and they give rise to behaviors such as increased sensitivity, responsiveness, and self-replication. Here we report a synthetic system in which a unique form of compartmentalization leads to nonlinear, autocatalytic behavior. The compartment is a reversibly formed capsule in which a reagent is sequestered. Reaction products displace the reagent from the capsule into solution and the reaction rate is accelerated. The resulting self-regulation is sensitive to the highly selective molecular recognition properties of the capsule.

Harmful Effects of Synthetic Surface-Active Detergents against Atopic Dermatitis.

PubMed

Deguchi, Hajime; Aoyama, Riho; Takahashi, Hideaki; Isobe, Yoshinari; Tsutsumi, Yutaka

2015-01-01

We report herein two cases of intractable atopic dermatitis successfully treated by simply avoiding the contact with surface-active detergents in the daily life and living. The detergents were closely related to the exacerbation and remission of the disease. Steroid ointment was no longer used. We discuss that the removal of horny layer lipids by surface-active detergents accelerates the transepidermal water loss and disturbs the barrier function of the epidermis and thus is intimately involved in the pathogenesis of atopic dermatitis.

Application of the Organic Synthetic Designs to Astrobiology

NASA Astrophysics Data System (ADS)

Kolb, V. M.

2009-12-01

In this paper we propose a synthesis of the heterocyclic compounds and the insoluble materials on the meteorites. Our synthetic scheme involves the reaction of sugars and amino acids, the so-called Maillard reaction. We have developed this scheme based on the combined analysis of the regular and retrosynthetic organic synthetic principles. The merits of these synthetic methods for the prebiotic design are addressed.

A synthetic biology approach to the development of transcriptional regulatory models and custom enhancer design☆,☆☆

PubMed Central

Martinez, Carlos A.; Barr, Kenneth; Kim, Ah-Ram; Reinitz, John

2013-01-01

Synthetic biology offers novel opportunities for elucidating transcriptional regulatory mechanisms and enhancer logic. Complex cis-regulatory sequences—like the ones driving expression of the Drosophila even-skipped gene—have proven difficult to design from existing knowledge, presumably due to the large number of protein-protein interactions needed to drive the correct expression patterns of genes in multicellular organisms. This work discusses two novel computational methods for the custom design of enhancers that employ a sophisticated, empirically validated transcriptional model, optimization algorithms, and synthetic biology. These synthetic elements have both utilitarian and academic value, including improving existing regulatory models as well as evolutionary questions. The first method involves the use of simulated annealing to explore the sequence space for synthetic enhancers whose expression output fit a given search criterion. The second method uses a novel optimization algorithm to find functionally accessible pathways between two enhancer sequences. These paths describe a set of mutations wherein the predicted expression pattern does not significantly vary at any point along the path. Both methods rely on a predictive mathematical framework that maps the enhancer sequence space to functional output. PMID:23732772

Analysis of Parent Synthetic Cannabinoids in Blood and Urinary Metabolites by Liquid Chromatography Tandem Mass Spectrometry.

PubMed

Knittel, Jessica L; Holler, Justin M; Chmiel, Jeffrey D; Vorce, Shawn P; Magluilo, Joseph; Levine, Barry; Ramos, Gerardo; Bosy, Thomas Z

2016-04-01

Synthetic cannabinoids emerged on the designer drug market in recent years due to their ability to produce cannabis-like effects without the risk of detection by traditional drug testing techniques such as immunoassay and gas chromatography-mass spectrometry. As government agencies work to schedule existing synthetic cannabinoids, new, unregulated and structurally diverse compounds continue to be developed and sold. Synthetic cannabinoids undergo extensive metabolic conversion. Consequently, both blood and urine specimens may play an important role in the forensic analysis of synthetic cannabinoids. It has been observed that structurally similar synthetic cannabinoids follow common metabolic pathways, which often produce metabolites with similar metabolic transformations. Presented are two validated quantitative methods for extracting and identifying 15 parent synthetic cannabinoids in blood, 17 synthetic cannabinoid metabolites in urine and the qualitative identification of 2 additional parent compounds. The linear range for most synthetic cannabinoid compounds monitored was 0.1-10 ng/mL with the limit of detection between 0.01 and 0.5 ng/mL. Selectivity, specificity, accuracy, precision, recovery and matrix effect were also examined and determined to be acceptable for each compound. The validated methods were used to analyze a compilation of synthetic cannabinoid investigative cases where both blood and urine specimens were submitted. The study suggests a strong correlation between the metabolites detected in urine and the parent compounds found in blood. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Quantitative urine confirmatory testing for synthetic cannabinoids in randomly collected urine specimens

PubMed Central

Castaneto, Marisol S.; Scheidweiler, Karl B.; Gandhi, Adarsh; Wohlfarth, Ariane; Klette, Kevin L.; Martin, Thomas M.; Huestis, Marilyn A.

2014-01-01

Synthetic cannabinoid intake is an ongoing health issue worldwide, with new compounds continually emerging, making drug testing complex. Parent synthetic cannabinoids are rarely detected in urine, the most common matrix employed in workplace drug testing. Optimal identification of synthetic cannabinoid markers in authentic urine specimens and correlation of metabolite concentrations and toxicities would improve synthetic cannabinoid result interpretation. We screened 20,017 randomly collected US military urine specimens between July 2011 and June 2012 with a synthetic cannabinoid immunoassay yielding 1,432 presumptive positive specimens. We analyzed all presumptive positive and 1,069 negative specimens with our qualitative synthetic cannabinoid LC-MS/MS method, which confirmed 290 positive specimens. All 290 positive and 487 randomly-selected negative specimens were quantified with the most comprehensive urine quantitative LC-MS/MS method published to date. 290 specimens confirmed positive for 22 metabolites from 11 parent synthetic cannabinoids. The five most predominant metabolites were JWH-018 pentanoic acid (93%), JWH-018 N-hydroxypentyl (84%), AM2201 N-hydroxypentyl (69%), JWH-073 butanoic acid (69%), and JWH-122 N-hydroxypentyl (45%) with 11.1 (0.1–2434), 5.1 (0.1–1239), 2.0 (0.1–321), 1.1 (0.1–48.6), and 1.1 (0.1–250) μg/L median (range) concentrations, respectively. Alkyl hydroxy and carboxy metabolites provided suitable biomarkers for 11 parent synthetic cannabinoids; although, hydroxyindoles also were observed. This is by far the largest data set of synthetic cannabinoid metabolites urine concentrations from randomly collected workplace drug testing specimens rather than acute intoxications or driving under the influence of drugs. These data improve the interpretation of synthetic cannabinoid urine test results and suggest suitable urine markers of synthetic cannabinoid intake. PMID:25231213

A Synthetic Approach to the Transfer Matrix Method in Classical and Quantum Physics

ERIC Educational Resources Information Center

Pujol, O.; Perez, J. P.

2007-01-01

The aim of this paper is to propose a synthetic approach to the transfer matrix method in classical and quantum physics. This method is an efficient tool to deal with complicated physical systems of practical importance in geometrical light or charged particle optics, classical electronics, mechanics, electromagnetics and quantum physics. Teaching…

Clinical equivalence assessment of T2 synthesized pediatric brain magnetic resonance imaging.

PubMed

Kerleroux, Basile; Kober, Tobias; Hilbert, Tom; Serru, Maxence; Sirinelli, Dominique; Morel, Baptiste

2018-05-04

Automated synthetic magnetic resonance imaging (MRI) provides qualitative, weighted image contrasts as well as quantitative information from one scan and is well-suited for various applications such as analysis of white matter disorders. However, the synthesized contrasts have been poorly evaluated in pediatric applications. The purpose of this study was to compare the image quality of synthetic T2 to conventional turbo spin echo (TSE) T2 in pediatric brain MRI. This was a mono-center prospective study. Synthetic and conventional MRI acquisitions at 1.5 Tesla were performed for each patient during the same session using a prototype accelerated T2 mapping sequence package (TA synthetic =3:07min, TA conventional =2:33min). Image sets were blindly and randomly analyzed by pediatric neuro-radiologists. Global image quality, morphologic legibility of standard structures and artifacts were assessed using a 4-point Likert scale. Inter-observer kappa agreements were calculated. The capability of the synthesized contrasts and conventional TSE T2 to discern normal and pathologic cases was evaluated. Sixty patients were included. The overall diagnostic quality of the synthesized contrasts was non-inferior to conventional imaging scale (p=0.06). There was no significant difference in the legibility of normal and pathological anatomic structures of synthetized and conventional TSE T2 (all p > 0.05) as well as for artifacts except for phase encoding (p=0.008). Interobserver agreement was good to almost perfect (kappa between 0.66 and 1). T2 synthesized contrasts, which also provides quantitative T2 information that could be useful, could be suggested as an equivalent technique in pediatric neuro-imaging, compared to conventional TSE T2. Copyright © 2018. Published by Elsevier Masson SAS.

Evaluating a kinematic method for generating broadband ground motions for great subduction zone earthquakes: Application to the 2003 Mw 8.3 Tokachi‐Oki earthquake

USGS Publications Warehouse

Wirth, Erin A.; Frankel, Arthur; Vidale, John E.

2017-01-01

We compare broadband synthetic seismograms with recordings of the 2003 Mw">MwMw 8.3 Tokachi‐Oki earthquake to evaluate a compound rupture model, in which slip on the fault consists of multiple high‐stress‐drop asperities superimposed on a background slip distribution with longer rise times. Low‐frequency synthetics (<1  Hz"><1  Hz<1  Hz) are calculated using deterministic, 3D finite‐difference simulations and are combined with high‐frequency (>1  Hz">>1  Hz>1  Hz) stochastic synthetics using a matched filter at 1 Hz. We show that this compound rupture model and overall approach accurately reproduces waveform envelopes and observed response spectral accelerations (SAs) from the Tokachi‐Oki event. We find that sufficiently short subfault rise times (i.e., <∼1–2  s"><∼1–2  s<∼1–2  s) are necessary to reproduce energy ∼1  Hz">∼1  Hz∼1  Hz. This is achieved by either (1) including distinct subevents with short rise times, as may be suggested by the Tokachi‐Oki data, or (2) imposing a fast‐slip velocity over the entire rupture area. We also include a systematic study on the effects of varying several kinematic rupture parameters. We find that simulated strong ground motions are sensitive to the average rupture velocity and coherence of the rupture front, with more coherent ruptures yielding higher response SAs. We also assess the effects of varying the average slip velocity and the character (i.e., area, magnitude, and location) of high‐stress‐drop subevents. Even in the absence of precise constraints on these kinematic rupture parameters, our simulations still reproduce major features in the Tokachi‐Oki earthquake data, supporting its accuracy in modeling future large earthquakes.

Synthetic Bone Substitute Engineered with Amniotic Epithelial Cells Enhances Bone Regeneration after Maxillary Sinus Augmentation

PubMed Central

Barboni, Barbara; Mangano, Carlo; Valbonetti, Luca; Marruchella, Giuseppe; Berardinelli, Paolo; Martelli, Alessandra; Muttini, Aurelio; Mauro, Annunziata; Bedini, Rossella; Turriani, Maura; Pecci, Raffaella; Nardinocchi, Delia; Zizzari, Vincenzo Luca; Tetè, Stefano; Piattelli, Adriano; Mattioli, Mauro

2013-01-01

Background Evidence has been provided that a cell-based therapy combined with the use of bioactive materials may significantly improve bone regeneration prior to dental implant, although the identification of an ideal source of progenitor/stem cells remains to be determined. Aim In the present research, the bone regenerative property of an emerging source of progenitor cells, the amniotic epithelial cells (AEC), loaded on a calcium-phosphate synthetic bone substitute, made by direct rapid prototyping (rPT) technique, was evaluated in an animal study. Material And Methods Two blocks of synthetic bone substitute (∼0.14 cm3), alone or engineered with 1×106 ovine AEC (oAEC), were grafted bilaterally into maxillary sinuses of six adult sheep, an animal model chosen for its high translational value in dentistry. The sheep were then randomly divided into two groups and sacrificed at 45 and 90 days post implantation (p.i.). Tissue regeneration was evaluated in the sinus explants by micro-computer tomography (micro-CT), morphological, morphometric and biochemical analyses. Results And Conclusions The obtained data suggest that scaffold integration and bone deposition are positively influenced by allotransplantated oAEC. Sinus explants derived from sheep grafted with oAEC engineered scaffolds displayed a reduced fibrotic reaction, a limited inflammatory response and an accelerated process of angiogenesis. In addition, the presence of oAEC significantly stimulated osteogenesis either by enhancing bone deposition or making more extent the foci of bone nucleation. Besides the modulatory role played by oAEC in the crucial events successfully guiding tissue regeneration (angiogenesis, vascular endothelial growth factor expression and inflammation), data provided herein show that oAEC were also able to directly participate in the process of bone deposition, as suggested by the presence of oAEC entrapped within the newly deposited osteoid matrix and by their ability to switch-on the expression of a specific bone-related protein (osteocalcin, OCN) when transplanted into host tissues. PMID:23696804

Design of Ultrathin Pt-Based Multimetallic Nanostructures for Efficient Oxygen Reduction Electrocatalysis.

PubMed

Lai, Jianping; Guo, Shaojun

2017-12-01

Nanocatalysts with high platinum (Pt) utilization efficiency are attracting extensive attention for oxygen reduction reactions (ORR) conducted at the cathode of fuel cells. Ultrathin Pt-based multimetallic nanostructures show obvious advantages in accelerating the sluggish cathodic ORR due to their ultrahigh Pt utilization efficiency. A focus on recent important developments is provided in using wet chemistry techniques for making/tuning the multimetallic nanostructures with high Pt utilization efficiency for boosting ORR activity and durability. First, new synthetic methods for multimetallic core/shell nanoparticles with ultrathin shell sizes for achieving highly efficient ORR catalysts are reviewed. To obtain better ORR activity and stability, multimetallic nanowires or nanosheets with well-defined structure and surface are further highlighted. Furthermore, ultrathin Pt-based multimetallic nanoframes that feature 3D molecularly accessible surfaces for achieving more efficient ORR catalysis are discussed. Finally, the remaining challenges and outlooks for the future will be provided for this promising research field. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

NESSY: NLTE spectral synthesis code for solar and stellar atmospheres

NASA Astrophysics Data System (ADS)

Tagirov, R. V.; Shapiro, A. I.; Schmutz, W.

2017-07-01

Context. Physics-based models of solar and stellar magnetically-driven variability are based on the calculation of synthetic spectra for various surface magnetic features as well as quiet regions, which are a function of their position on the solar or stellar disc. Such calculations are performed with radiative transfer codes tailored for modeling broad spectral intervals. Aims: We aim to present the NLTE Spectral SYnthesis code (NESSY), which can be used for modeling of the entire (UV-visible-IR and radio) spectra of solar and stellar magnetic features and quiet regions. Methods: NESSY is a further development of the COde for Solar Irradiance (COSI), in which we have implemented an accelerated Λ-iteration (ALI) scheme for co-moving frame (CMF) line radiation transfer based on a new estimate of the local approximate Λ-operator. Results: We show that the new version of the code performs substantially faster than the previous one and yields a reliable calculation of the entire solar spectrum. This calculation is in a good agreement with the available observations.

Validation of an ELISA Synthetic Cannabinoids Urine Assay

PubMed Central

Barnes, Allan J.; Spinelli, Eliani; Young, Sheena; Martin, Thomas M.; Klette, Kevin L.; Huestis, Marilyn A.

2015-01-01

Background Synthetic cannabinoids are touted as legal alternatives to cannabis, at least when first released, and routine urine cannabinoid screening methods do not detect these novel psychoactive substances. Synthetic cannabinoids are widely available, are a major public health and safety problem, and a difficult challenge for drug testing laboratories. We evaluated performance of the NMS JWH-018 direct ELISA kit to sensitively, selectively, and rapidly screen urinary synthetic cannabinoids. Materials/ Methods The NMS ELISA kit targeting the JWH-018 N-(5-hydroxypentyl) metabolite was utilized to screen 2492 urine samples with 5 and 10µg/L cutoffs. A fully validated LC-MS/MS method for 29 synthetic cannabinoids markers confirmed all presumptive positive and negative results. Performance challenges at ±25 and ±50% of cutoffs determined intra- and inter-plate imprecision around proposed cutoffs. Result The immunoassay was linear from 1–500µg/L with intra- and inter-plate imprecision of ≤8.2% and <14.0%, respectively. No interferences were present from 93 common drugs of abuse, metabolites, co-administered drugs, over-the-counter medications or structurally similar compounds, and 19 of 73 individual, synthetic cannabinoids (26%) exhibited moderate to high cross-reactivity to JWH-018 N-(5-hydroxypentyl) metabolite. Sensitivity, specificity, and efficiency results were 83.7%, 99.4% and 97.6% and 71.6%, 99.7% and 96.4%, with the 5 and 10µg/L urine cutoffs, respectively. Conclusion This high throughput immunoassay exhibited good diagnostic efficiency and documented that the NMS JWH-018 direct ELISA is a viable method for screening synthetic cannabinoids in urine targeting the JWH-018 N-(5-hydroxypentyl) and related analytes. Optimal performance was achieved with a matrix-matched 5µg/L urine cutoff. PMID:25706046

A new method for separating first row transition metals and actinides from synthetic melt glass

DOE PAGES

Roman, Audrey Rae; Bond, Evelyn M.

2016-01-14

A new method was developed for separating Co, Fe, and Sc from complex debris matrices using the extraction chromatography resin DGA. The activation products Co-58, Mn-54, and Sc-46 were used to characterize the separation of the synthetic melt glass solutions. In the separation scheme that was developed, Au, Co, Cu, Fe, Sc, and Ti were separated from the rest of the sample constituents. In this paper, the synthetic melt glass separation method, efficiency, recoveries, and the length of procedure will be discussed. In conclusion, batch contact adsorption studies for Na and Sc for DGA resin are discussed as well.

Rapid and sensitive detection of synthetic cannabinoids AMB-FUBINACA and α-PVP using surface enhanced Raman scattering (SERS)

NASA Astrophysics Data System (ADS)

Islam, Syed K.; Cheng, Yin Pak; Birke, Ronald L.; Green, Omar; Kubic, Thomas; Lombardi, John R.

2018-04-01

The application of surface enhanced Raman scattering (SERS) has been reported as a fast and sensitive analytical method in the trace detection of the two most commonly known synthetic cannabinoids AMB-FUBINACA and alpha-pyrrolidinovalerophenone (α-PVP). FUBINACA and α-PVP are two of the most dangerous synthetic cannabinoids which have been reported to cause numerous deaths in the United States. While instruments such as GC-MS, LC-MS have been traditionally recognized as analytical tools for the detection of these synthetic drugs, SERS has been recently gaining ground in the analysis of these synthetic drugs due to its sensitivity in trace analysis and its effectiveness as a rapid method of detection. This present study shows the limit of detection of a concentration as low as picomolar for AMB-FUBINACA while for α-PVP, the limit of detection is in nanomolar concentration using SERS.

General relativistic magnetohydrodynamical κ-jet models for Sagittarius A*

NASA Astrophysics Data System (ADS)

Davelaar, J.; Mościbrodzka, M.; Bronzwaer, T.; Falcke, H.

2018-04-01

Context. The observed spectral energy distribution of an accreting supermassive black hole typically forms a power-law spectrum in the near infrared (NIR) and optical wavelengths, that may be interpreted as a signature of accelerated electrons along the jet. However, the details of acceleration remain uncertain. Aim. In this paper, we study the radiative properties of jets produced in axisymmetric general relativistic magnetohydrodynamics (GRMHD) simulations of hot accretion flows onto underluminous supermassive black holes both numerically and semi-analytically, with the aim of investigating the differences between models with and without accelerated electrons inside the jet. Methods: We assume that electrons are accelerated in the jet regions of our GRMHD simulation. To model them, we modify the electrons' distribution function in the jet regions from a purely relativistic thermal distribution to a combination of a relativistic thermal distribution and the κ-distribution function (the κ-distribution function is itself a combination of a relativistic thermal and a non-thermal power-law distribution, and thus it describes accelerated electrons). Inside the disk, we assume a thermal distribution for the electrons. In order to resolve the particle acceleration regions in the GRMHD simulations, we use a coordinate grid that is optimized for modeling jets. We calculate jet spectra and synchrotron maps by using the ray tracing code RAPTOR, and compare the synthetic observations to observations of Sgr A*. Finally, we compare numerical models of jets to semi-analytical ones. Results: We find that in the κ-jet models, the radio-emitting region size, radio flux, and spectral index in NIR/optical bands increase for decreasing values of the κ parameter, which corresponds to a larger amount of accelerated electrons. This is in agreement with analytical predictions. In our models, the size of the emission region depends roughly linearly on the observed wavelength λ, independently of the assumed distribution function. The model with κ = 3.5, ηacc = 5-10% (the percentage of electrons that are accelerated), and observing angle i = 30° fits the observed Sgr A* emission in the flaring state from the radio to the NIR/optical regimes, while κ = 3.5, ηacc < 1%, and observing angle i = 30° fit the upper limits in quiescence. At this point, our models (including the purely thermal ones) cannot reproduce the observed source sizes accurately, which is probably due to the assumption of axisymmetry in our GRMHD simulations. The κ-jet models naturally recover the observed nearly-flat radio spectrum of Sgr A* without invoking the somewhat artificial isothermal jet model that was suggested earlier. Conclusions: From our model fits we conclude that between 5% and 10% of the electrons inside the jet of Sgr A* are accelerated into a κ distribution function when Sgr A* is flaring. In quiescence, we match the NIR upper limits when this percentage is <1%.

Effects of adenosine 5'-monophosphate on epidermal turnover.

PubMed

Furukawa, Fukumi; Kanehara, Shoko; Harano, Fumiki; Shinohara, Shigeo; Kamimura, Junko; Kawabata, Shigekatsu; Igarashi, Sachiyo; Kawamura, Mitsuaki; Yamamoto, Yuki; Miyachi, Yoshiki

2008-10-01

The structure and function of the epidermis is maintained by cell renewal based on epidermal turnover. Epidermal turnover is delayed by aging, and it is thought that the delay of the epidermal turnover is a cause of aging alternation of skin. The epidermal turnover is related to the energy metabolism of epidermal basal cells. Adenosine 5'-triphosphate (ATP) is needed for cell renewal: cell division, and adenosine 5'-monophosphate (AMP) increases the amount of intracellular ATP. These findings suggest that AMP accelerates the epidermal turnover delayed by aging. This study investigated whether AMP and adenosine 5'-monophosphate disodium salt (AMP2Na) accelerates the epidermal turnover. An effect of AMP2Na on cell proliferation was examined by our counting of keratinocytes. An effect of AMP2Na on cell cycle was examined by our counting of basal cells in DNA synthetic period of hairless rats. The effects of AMP2Na (or AMP) on the epidermal turnover were examined by our measuring stratum corneum transit time by use of guinea pigs, and by our measuring stratum corneum surface area by use of hairless rats and in a clinical pharmacological study. The AMP2Na showed two different profiles on the proliferation of primary cultured keratinocytes. At a low concentration it induced cell growth, whereas at a high concentration it inhibited cell growth. The number of basal cells in the DNA synthetic period of AMP2Na was significantly higher than that of the vehicle in hairless rats. The stratum corneum transit time of AMP2Na was significantly shorter than that of the vehicle in guinea pigs. The corneocyte surface area of emulsion containing AMP2Na was significantly smaller than that of the vehicle in volunteers. We conclude that AMP promotes the cell proliferation and the cell cycle progression of epidermal basal cells and accelerates epidermal turnover safely. In addition, AMP is useful for skin rejuvenation in dermatology and aesthetic dermatology.

Efficient engineering of marker-free synthetic allotetraploids of Saccharomyces.

PubMed

Alexander, William G; Peris, David; Pfannenstiel, Brandon T; Opulente, Dana A; Kuang, Meihua; Hittinger, Chris Todd

2016-04-01

Saccharomyces interspecies hybrids are critical biocatalysts in the fermented beverage industry, including in the production of lager beers, Belgian ales, ciders, and cold-fermented wines. Current methods for making synthetic interspecies hybrids are cumbersome and/or require genome modifications. We have developed a simple, robust, and efficient method for generating allotetraploid strains of prototrophic Saccharomyces without sporulation or nuclear genome manipulation. S. cerevisiae×S. eubayanus, S. cerevisiae×S. kudriavzevii, and S. cerevisiae×S. uvarum designer hybrid strains were created as synthetic lager, Belgian, and cider strains, respectively. The ploidy and hybrid nature of the strains were confirmed using flow cytometry and PCR-RFLP analysis, respectively. This method provides an efficient means for producing novel synthetic hybrids for beverage and biofuel production, as well as for constructing tetraploids to be used for basic research in evolutionary genetics and genome stability. Copyright © 2015 Elsevier Inc. All rights reserved.

Accelerated in vitro release testing method for naltrexone loaded PLGA microspheres.

PubMed

Andhariya, Janki V; Choi, Stephanie; Wang, Yan; Zou, Yuan; Burgess, Diane J; Shen, Jie

2017-03-30

The objective of the present study was to develop a discriminatory and reproducible accelerated release testing method for naltrexone loaded parenteral polymeric microspheres. The commercially available naltrexone microsphere product (Vivitrol ® ) was used as the testing formulation in the in vitro release method development, and both sample-and-separate and USP apparatus 4 methods were investigated. Following an in vitro drug stability study, frequent media replacement and addition of anti-oxidant in the release medium were used to prevent degradation of naltrexone during release testing at "real-time" (37°C) and "accelerated" (45°C), respectively. The USP apparatus 4 method was more reproducible than the sample-and-separate method. In addition, the accelerated release profile obtained using USP apparatus 4 had a shortened release duration (within seven days), and good correlation with the "real-time" release profile. Lastly, the discriminatory ability of the developed accelerated release method was assessed using compositionally equivalent naltrexone microspheres with different release characteristics. The developed accelerated USP apparatus 4 release method was able to detect differences in the release characteristics of the prepared naltrexone microspheres. Moreover, a linear correlation was observed between the "real-time" and accelerated release profiles of all the formulations investigated, suggesting that the release mechanism(s) may be similar under both conditions. These results indicate that the developed accelerated USP apparatus 4 method has the potential to be an appropriate fast quality control tool for long-acting naltrexone PLGA microspheres. Copyright © 2017 Elsevier B.V. All rights reserved.

Accelerated in-vitro release testing methods for extended-release parenteral dosage forms.

PubMed

Shen, Jie; Burgess, Diane J

2012-07-01

This review highlights current methods and strategies for accelerated in-vitro drug release testing of extended-release parenteral dosage forms such as polymeric microparticulate systems, lipid microparticulate systems, in-situ depot-forming systems and implants. Extended-release parenteral dosage forms are typically designed to maintain the effective drug concentration over periods of weeks, months or even years. Consequently, 'real-time' in-vitro release tests for these dosage forms are often run over a long time period. Accelerated in-vitro release methods can provide rapid evaluation and therefore are desirable for quality control purposes. To this end, different accelerated in-vitro release methods using United States Pharmacopeia (USP) apparatus have been developed. Different mechanisms of accelerating drug release from extended-release parenteral dosage forms, along with the accelerated in-vitro release testing methods currently employed are discussed. Accelerated in-vitro release testing methods with good discriminatory ability are critical for quality control of extended-release parenteral products. Methods that can be used in the development of in-vitro-in-vivo correlation (IVIVC) are desirable; however, for complex parenteral products this may not always be achievable. © 2012 The Authors. JPP © 2012 Royal Pharmaceutical Society.

Accelerated in vitro release testing methods for extended release parenteral dosage forms

PubMed Central

Shen, Jie; Burgess, Diane J.

2012-01-01

Objectives This review highlights current methods and strategies for accelerated in vitro drug release testing of extended release parenteral dosage forms such as polymeric microparticulate systems, lipid microparticulate systems, in situ depot-forming systems, and implants. Key findings Extended release parenteral dosage forms are typically designed to maintain the effective drug concentration over periods of weeks, months or even years. Consequently, “real-time” in vitro release tests for these dosage forms are often run over a long time period. Accelerated in vitro release methods can provide rapid evaluation and therefore are desirable for quality control purposes. To this end, different accelerated in vitro release methods using United States Pharmacopoeia (USP) apparatus have been developed. Different mechanisms of accelerating drug release from extended release parenteral dosage forms, along with the accelerated in vitro release testing methods currently employed are discussed. Conclusions Accelerated in vitro release testing methods with good discriminatory ability are critical for quality control of extended release parenteral products. Methods that can be used in the development of in vitro-in vivo correlation (IVIVC) are desirable, however for complex parenteral products this may not always be achievable. PMID:22686344

Cost of nitrogen use in the US | Science Inventory | US EPA

EPA Pesticide Factsheets

Growing human demands for food, fuel and fiber have accelerated the human-driven fixation of reactive nitrogen (N) by at least 10-fold over the last century. This acceleration is one of the most dramatic changes to the sustainability of Earth’s systems. Approximately 65% of the N fixed within the US is used in agriculture as synthetic N fertilizers and by N-fixing crops such as alfalfa and soybeans. Leakage of from human activities to the environment can result in a host of human health and environmental problems (see figure). These costs include effects on human respiratory health via mortality, hospital visits and loss of work days due to the formation of smog, costs associated with treatment and replacement of drinking water contaminated with nitrate, losses to recreation and fisheries resulting from algal blooms and hypoxia in freshwater and coastal ecosystems. Often these harmful effects are not reflected in the costs of the food, fuel, and fiber that depend upon N use. A recent US EPA study (Sobota et al. 2015) quantified the potential damage costs associated with N leaked from the following sources: synthetic and manure fertilizers, crop N-fixation, wastewater, and fossil fuel combustion. Each source was traced through the nitrogen cascade to the environment (see figure) in order to connect to existing data on the costs of specific forms of N in specific situations in order to calculate the annual damage cost of anthropogenic N. Estimates of N l

Systems and methods for cylindrical hall thrusters with independently controllable ionization and acceleration stages

DOEpatents

Diamant, Kevin David; Raitses, Yevgeny; Fisch, Nathaniel Joseph

2014-05-13

Systems and methods may be provided for cylindrical Hall thrusters with independently controllable ionization and acceleration stages. The systems and methods may include a cylindrical channel having a center axial direction, a gas inlet for directing ionizable gas to an ionization section of the cylindrical channel, an ionization device that ionizes at least a portion of the ionizable gas within the ionization section to generate ionized gas, and an acceleration device distinct from the ionization device. The acceleration device may provide an axial electric field for an acceleration section of the cylindrical channel to accelerate the ionized gas through the acceleration section, where the axial electric field has an axial direction in relation to the center axial direction. The ionization section and the acceleration section of the cylindrical channel may be substantially non-overlapping.

Method for forming a layer of synthetic corrosion products on tubing surfaces

DOEpatents

Lane, Michael H.; Salamon, Eugene J. M.

1996-01-01

A method is provided for forming a synthetic corrosion product layer on tube surfaces. The method utilizes two dissimilar materials with different coefficients of thermal expansion. An object tube and sacrificial tube are positioned one inside the other such that an annular region is created between the two tubes' surfaces. A slurry of synthetic corrosion products is injected into this annular region and the assembly is heat treated. This heat causes the tubes to expand, the inner tube with the higher coefficient of expansion expanding more than the outer tube, thereby creating internal pressures which consolidate the corrosion products and adhere the corrosion products to the tubing surfaces. The sacrificial tube may then be removed by conventional chemical etching or mechanical methods.

Removal of synthetic dyes from wastewaters: a review.

PubMed

Forgacs, Esther; Cserháti, Tibor; Oros, Gyula

2004-09-01

The more recent methods for the removal of synthetic dyes from waters and wastewater are complied. The various methods of removal such as adsorption on various sorbents, chemical decomposition by oxidation, photodegradation, and microbiological decoloration, employing activated sludge, pure cultures and microbe consortiums are described. The advantages and disadvantages of the various methods are discussed and their efficacies are compared.

Seismic Hazard and Ground Motion Characterization at the Itoiz Dam (Northern Spain)

NASA Astrophysics Data System (ADS)

Rivas-Medina, A.; Santoyo, M. A.; Luzón, F.; Benito, B.; Gaspar-Escribano, J. M.; García-Jerez, A.

2012-08-01

This paper presents a new hazard-consistent ground motion characterization of the Itoiz dam site, located in Northern Spain. Firstly, we propose a methodology with different approximation levels to the expected ground motion at the dam site. Secondly, we apply this methodology taking into account the particular characteristics of the site and of the dam. Hazard calculations were performed following the Probabilistic Seismic Hazard Assessment method using a logic tree, which accounts for different seismic source zonings and different ground-motion attenuation relationships. The study was done in terms of peak ground acceleration and several spectral accelerations of periods coinciding with the fundamental vibration periods of the dam. In order to estimate these ground motions we consider two different dam conditions: when the dam is empty ( T = 0.1 s) and when it is filled with water to its maximum capacity ( T = 0.22 s). Additionally, seismic hazard analysis is done for two return periods: 975 years, related to the project earthquake, and 4,975 years, identified with an extreme event. Soil conditions were also taken into account at the site of the dam. Through the proposed methodology we deal with different forms of characterizing ground motion at the study site. In a first step, we obtain the uniform hazard response spectra for the two return periods. In a second step, a disaggregation analysis is done in order to obtain the controlling earthquakes that can affect the dam. Subsequently, we characterize the ground motion at the dam site in terms of specific response spectra for target motions defined by the expected values SA ( T) of T = 0.1 and 0.22 s for the return periods of 975 and 4,975 years, respectively. Finally, synthetic acceleration time histories for earthquake events matching the controlling parameters are generated using the discrete wave-number method and subsequently analyzed. Because of the short relative distances between the controlling earthquakes and the dam site we considered finite sources in these computations. We conclude that directivity effects should be taken into account as an important variable in this kind of studies for ground motion characteristics.

Thermally Drawn Fibers as Nerve Guidance Scaffolds

PubMed Central

Koppes, Ryan A.; Park, Seongjun; Hood, Tiffany; Jia, Xiaoting; Poorheravi, Negin Abdolrahim; Achyuta, Anilkumar Harapanahalli; Fink, Yoel; Anikeeva, Polina

2016-01-01

Synthetic neural scaffolds hold promise to eventually replace nerve autografts for tissue repair following peripheral nerve injury. Despite substantial evidence for the influence of scaffold geometry and dimensions on the rate of axonal growth, systematic evaluation of these parameters remains a challenge due to limitations in materials processing. We have employed fiber drawing to engineer a wide spectrum of polymer-based neural scaffolds with varied geometries and core sizes. Using isolated whole dorsal root ganglia as an in vitro model system we have identified key features enhancing nerve growth within these fiber scaffolds. Our approach enabled straightforward integration of microscopic topography at the scale of nerve fascicles within the scaffold cores, which led to accelerated Schwann cell migration, as well as neurite growth and alignment. Our findings indicate that fiber drawing provides a scalable and versatile strategy for producing nerve guidance channels capable of controlling direction and accelerating the rate of axonal growth. PMID:26717246

Accelerating the design of biomimetic materials by integrating RNA-seq with proteomics and materials science.

PubMed

Guerette, Paul A; Hoon, Shawn; Seow, Yiqi; Raida, Manfred; Masic, Admir; Wong, Fong T; Ho, Vincent H B; Kong, Kiat Whye; Demirel, Melik C; Pena-Francesch, Abdon; Amini, Shahrouz; Tay, Gavin Z; Ding, Dawei; Miserez, Ali

2013-10-01

Efforts to engineer new materials inspired by biological structures are hampered by the lack of genomic data from many model organisms studied in biomimetic research. Here we show that biomimetic engineering can be accelerated by integrating high-throughput RNA-seq with proteomics and advanced materials characterization. This approach can be applied to a broad range of systems, as we illustrate by investigating diverse high-performance biological materials involved in embryo protection, adhesion and predation. In one example, we rapidly engineer recombinant squid sucker ring teeth proteins into a range of structural and functional materials, including nanopatterned surfaces and photo-cross-linked films that exceed the mechanical properties of most natural and synthetic polymers. Integrating RNA-seq with proteomics and materials science facilitates the molecular characterization of natural materials and the effective translation of their molecular designs into a wide range of bio-inspired materials.

Each Monomer of the Dimeric Accessory Protein for Human Mitochondrial DNA Polymerase Has a Distinct Role in Conferring Processivity*

PubMed Central

Lee, Young-Sam; Lee, Sujin; Demeler, Borries; Molineux, Ian J.; Johnson, Kenneth A.; Yin, Y. Whitney

2010-01-01

The accessory protein polymerase (pol) γB of the human mitochondrial DNA polymerase stimulates the synthetic activity of the catalytic subunit. pol γB functions by both accelerating the polymerization rate and enhancing polymerase-DNA interaction, thereby distinguishing itself from the accessory subunits of other DNA polymerases. The molecular basis for the unique functions of human pol γB lies in its dimeric structure, where the pol γB monomer proximal to pol γA in the holoenzyme strengthens the interaction with DNA, and the distal pol γB monomer accelerates the reaction rate. We further show that human pol γB exhibits a catalytic subunit- and substrate DNA-dependent dimerization. By duplicating the monomeric pol γB of lower eukaryotes, the dimeric mammalian proteins confer additional processivity to the holoenzyme polymerase. PMID:19858216

LEVELS OF SYNTHETIC MUSK COMPOUNDS IN MUNICIPAL WASTEWATER FOR ESTIMATING BIOTA EXPOSURE IN RECEIVING WATER

EPA Science Inventory

To test the ruggedness of a newly developed analytical method for synthetic musks, a 1-year monthly monitoring of synthetic musks in water and biota was conducted for Lake

Mead (near Las Vegas, Nevada) as well as for combined sewage-dedicated effluent streams feeding Lake ...

Standard biological parts knowledgebase.

PubMed

Galdzicki, Michal; Rodriguez, Cesar; Chandran, Deepak; Sauro, Herbert M; Gennari, John H

2011-02-24

We have created the Knowledgebase of Standard Biological Parts (SBPkb) as a publically accessible Semantic Web resource for synthetic biology (sbolstandard.org). The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology. Its initial version includes all of the information about parts stored in the Registry of Standard Biological Parts (partsregistry.org). SBPkb transforms this information so that it is computable, using our semantic framework for synthetic biology parts. This framework, known as SBOL-semantic, was built as part of the Synthetic Biology Open Language (SBOL), a project of the Synthetic Biology Data Exchange Group. SBOL-semantic represents commonly used synthetic biology entities, and its purpose is to improve the distribution and exchange of descriptions of biological parts. In this paper, we describe the data, our methods for transformation to SBPkb, and finally, we demonstrate the value of our knowledgebase with a set of sample queries. We use RDF technology and SPARQL queries to retrieve candidate "promoter" parts that are known to be both negatively and positively regulated. This method provides new web based data access to perform searches for parts that are not currently possible.

Research on Acceleration Compensation Strategy of Electric Vehicle Based on Fuzzy Control Theory

NASA Astrophysics Data System (ADS)

Zhu, Tianjun; Li, Bin; Zong, Changfu; Wei, Zhicheng

2017-09-01

Nowadays, the driving technology of electric vehicle is developing rapidly. There are many kinds of methods in driving performance control technology. The paper studies the acceleration performance of electric vehicle. Under the premise of energy management, an acceleration power compensation method by fuzzy control theory based on driver intention recognition is proposed, which can meet the driver’s subjective feelings better. It avoids the problem that the pedal opening and power output are single correspondence when the traditional vehicle accelerates. Through the simulation test, this method can significantly improve the performance of acceleration and output torque smoothly in non-emergency acceleration to ensure vehicle comfortable and stable.

Rendering the "Not-So-Simple" Pendulum Experimentally Accessible.

ERIC Educational Resources Information Center

Jackson, David P.

1996-01-01

Presents three methods for obtaining experimental data related to acceleration of a simple pendulum. Two of the methods involve angular position measurements and the subsequent calculation of the acceleration while the third method involves a direct measurement of the acceleration. Compares these results with theoretical calculations and…

Acceleration of boundary element method for linear elasticity

NASA Astrophysics Data System (ADS)

Zapletal, Jan; Merta, Michal; Čermák, Martin

2017-07-01

In this work we describe the accelerated assembly of system matrices for the boundary element method using the Intel Xeon Phi coprocessors. We present a model problem, provide a brief overview of its discretization and acceleration of the system matrices assembly using the coprocessors, and test the accelerated version using a numerical benchmark.

Piezoelectric properties of synthetic hydroxyapatite-based organic-inorganic hydrated materials

NASA Astrophysics Data System (ADS)

Rodriguez, Rogelio; Rangel, Domingo; Fonseca, Gerardo; Gonzalez, Maykel; Vargas, Susana

Disks of synthetic hydroxyapatite agglutinated with a synthetic polymer and hydrated in a moisture fog, were prepared. A well-defined piezoelectric signal of these samples was obtained when a relative small compression stress of 35 MPa (corresponding a force of 450 daN) was applied; piezoelectric signals of up to 12 mV were obtained with this stress. Two different compression methods were followed to obtain the piezoelectric signal: (a) hold method, where the load was maintained constant once it reaches the maximum stress and (b) release method, where the load was removed rapidly when the stress reaches its maximum value. The samples were characterized using the techniques: X-ray Diffraction, Dielectric Relaxation Spectroscopy and mechanical test.

5 CFR 1315.5 - Accelerated payment methods.

Code of Federal Regulations, 2012 CFR

2012-01-01

... 5 Administrative Personnel 3 2012-01-01 2012-01-01 false Accelerated payment methods. 1315.5 Section 1315.5 Administrative Personnel OFFICE OF MANAGEMENT AND BUDGET OMB DIRECTIVES PROMPT PAYMENT § 1315.5 Accelerated payment methods. (a) A single invoice under $2,500. Payments may be made as soon as...

5 CFR 1315.5 - Accelerated payment methods.

Code of Federal Regulations, 2011 CFR

2011-01-01

... 5 Administrative Personnel 3 2011-01-01 2011-01-01 false Accelerated payment methods. 1315.5 Section 1315.5 Administrative Personnel OFFICE OF MANAGEMENT AND BUDGET OMB DIRECTIVES PROMPT PAYMENT § 1315.5 Accelerated payment methods. (a) A single invoice under $2,500. Payments may be made as soon as...

5 CFR 1315.5 - Accelerated payment methods.

Code of Federal Regulations, 2010 CFR

2010-01-01

... 5 Administrative Personnel 3 2010-01-01 2010-01-01 false Accelerated payment methods. 1315.5 Section 1315.5 Administrative Personnel OFFICE OF MANAGEMENT AND BUDGET OMB DIRECTIVES PROMPT PAYMENT § 1315.5 Accelerated payment methods. (a) A single invoice under $2,500. Payments may be made as soon as...

PARTICLE ACCELERATOR AND METHOD OF CONTROLLING THE TEMPERATURE THEREOF

DOEpatents

Neal, R.B.; Gallagher, W.J.

1960-10-11

A method and means for controlling the temperature of a particle accelerator and more particularly to the maintenance of a constant and uniform temperature throughout a particle accelerator is offered. The novel feature of the invention resides in the provision of two individual heating applications to the accelerator structure. The first heating application provided is substantially a duplication of the accelerator heat created from energization, this first application being employed only when the accelerator is de-energized thereby maintaining the accelerator temperature constant with regard to time whether the accelerator is energized or not. The second heating application provided is designed to add to either the first application or energization heat in a manner to create the same uniform temperature throughout all portions of the accelerator.

Quantitative urine confirmatory testing for synthetic cannabinoids in randomly collected urine specimens.

PubMed

Castaneto, Marisol S; Scheidweiler, Karl B; Gandhi, Adarsh; Wohlfarth, Ariane; Klette, Kevin L; Martin, Thomas M; Huestis, Marilyn A

2015-06-01

Synthetic cannabinoid intake is an ongoing health issue worldwide, with new compounds continually emerging, making drug testing complex. Parent synthetic cannabinoids are rarely detected in urine, the most common matrix employed in workplace drug testing. Optimal identification of synthetic cannabinoid markers in authentic urine specimens and correlation of metabolite concentrations and toxicities would improve synthetic cannabinoid result interpretation. We screened 20 017 randomly collected US military urine specimens between July 2011 and June 2012 with a synthetic cannabinoid immunoassay yielding 1432 presumptive positive specimens. We analyzed all presumptive positive and 1069 negative specimens with our qualitative synthetic cannabinoid liquid chromatography-tandem mass spectrometry (LC-MS/MS) method, which confirmed 290 positive specimens. All 290 positive and 487 randomly selected negative specimens were quantified with the most comprehensive urine quantitative LC-MS/MS method published to date; 290 specimens confirmed positive for 22 metabolites from 11 parent synthetic cannabinoids. The five most predominant metabolites were JWH-018 pentanoic acid (93%), JWH-N-hydroxypentyl (84%), AM2201 N-hydroxypentyl (69%), JWH-073 butanoic acid (69%), and JWH-122 N-hydroxypentyl (45%) with 11.1 (0.1-2,434), 5.1 (0.1-1,239), 2.0 (0.1-321), 1.1 (0.1-48.6), and 1.1 (0.1-250) µg/L median (range) concentrations, respectively. Alkyl hydroxy and carboxy metabolites provided suitable biomarkers for 11 parent synthetic cannabinoids; although hydroxyindoles were also observed. This is by far the largest data set of synthetic cannabinoid metabolites urine concentrations from randomly collected workplace drug testing specimens rather than acute intoxications or driving under the influence of drugs. These data improve the interpretation of synthetic cannabinoid urine test results and suggest suitable urine markers of synthetic cannabinoid intake. This article is a U.S. Government work and is in the public domain in the USA.

Effect of bone sialoprotein coating of ceramic and synthetic polymer materials on in vitro osteogenic cell differentiation and in vivo bone formation.

PubMed

Schaeren, Stefan; Jaquiéry, Claude; Wolf, Francine; Papadimitropoulos, Adam; Barbero, Andrea; Schultz-Thater, Elke; Heberer, Michael; Martin, Ivan

2010-03-15

In this study, we addressed whether Bone Sialoprotein (BSP) coating of various substrates could enhance the in vitro osteogenic differentiation and in vivo bone formation capacity of human Bone Marrow Stromal Cells (BMSC). Moreover, we tested whether synthetic polymer-based porous scaffolds, despite the absence of a mineral component, could support ectopic bone formation by human BMSC if coated with BSP. Adsorption of recombinant human BSP on tissue culture-treated polystyrene (TCTP), beta-tricalcium phosphate (Osteologic) or synthetic polymer (Polyactive) substrates was dose dependent, but did not consistently accelerate or enhance in vitro BMSC osteogenic differentiation, as assessed by the mRNA expression of osteoblast-related genes. Similarly, BSP coating of porous beta-tricalcium phosphate scaffolds (Skelite) did not improve the efficiency of bone tissue formation following loading with BMSC and ectopic implantation in nude mice. Finally, Polyactive foams seeded with BMSC did not form bone tissue in the same ectopic assay, even if coated with BSP. We conclude that BSP coating of a variety of substrates is not directly associated with an enhancement of osteoprogenitor cell differentiation in vitro or in vivo, and that presentation of BSP on polymeric materials is not sufficient to prime BMSC functional osteoblastic differentiation in vivo. (c) 2009 Wiley Periodicals, Inc.

Comparison of skating kinetics and kinematics on ice and on a synthetic surface.

PubMed

Stidwill, T J; Pearsall, David; Turcotte, Rene

2010-03-01

The recent popularization and technological improvements of synthetic or artificial ice surfaces provide an attractive alternative to real ice in venues where the latter is impractical to install. Potentially, synthetic ice (SI) may be installed in controlled laboratory settings to permit detailed biomechanical analysis of skating manoeuvres. Unknown, however, is the extent to which skating on SI replicates skating on traditional ice (ICE). Hence, the purpose of this study was to compare kinetic and kinematic forward skating parameters between SI and ICE surfaces. With 11 male hockey players, a portable strain gauge system adhered to the outside of the skate blade holder was used to measure skate propulsive force synchronized with electrogoniometers for tracking dynamic knee and ankle movements during forward skating acceleration. In general, the kinetic and kinematic variables investigated in this study showed minimal differences between the two surfaces (P > 0.06), and no individual variable differences were identified between the two surfaces (P > or = 0.1) with the exception of greater knee extension on SI than ICE (15.2 degrees to 11.0 degrees; P < or = 0.05). Overall, SI surfaces permit comparable mechanics for on-ice forward skating, and thus offer the potential for valid analogous conditions for in-lab testing and training.

Small molecules, big players: the National Cancer Institute's Initiative for Chemical Genetics.

PubMed

Tolliday, Nicola; Clemons, Paul A; Ferraiolo, Paul; Koehler, Angela N; Lewis, Timothy A; Li, Xiaohua; Schreiber, Stuart L; Gerhard, Daniela S; Eliasof, Scott

2006-09-15

In 2002, the National Cancer Institute created the Initiative for Chemical Genetics (ICG), to enable public research using small molecules to accelerate the discovery of cancer-relevant small-molecule probes. The ICG is a public-access research facility consisting of a tightly integrated team of synthetic and analytical chemists, assay developers, high-throughput screening and automation engineers, computational scientists, and software developers. The ICG seeks to facilitate the cross-fertilization of synthetic chemistry and cancer biology by creating a research environment in which new scientific collaborations are possible. To date, the ICG has interacted with 76 biology laboratories from 39 institutions and more than a dozen organic synthetic chemistry laboratories around the country and in Canada. All chemistry and screening data are deposited into the ChemBank web site (http://chembank.broad.harvard.edu/) and are available to the entire research community within a year of generation. ChemBank is both a data repository and a data analysis environment, facilitating the exploration of chemical and biological information across many different assays and small molecules. This report outlines how the ICG functions, how researchers can take advantage of its screening, chemistry and informatic capabilities, and provides a brief summary of some of the many important research findings.

Air National Guard Remotely Piloted Aircraft and Domestic Missions: Opportunities and Challenges

DTIC Science & Technology

2015-01-01

a sense of urgency in requiring that the FAA produce a plan to accelerate the integration of commercial and government RPAs into the NAS and publish...J. Stence, and M. Woodring, “Lynx: A High-Resolution Synthetic Aperture Radar,” SPIE Aero- sense , Vol. 3704, 1999, pp. 2–4. 5 Tsunoda et al., 1999...accompany H.R. 658, FAA Modernization and Reform Act of 2012, 2012, pp. 195–197. 14 These sites were in addition to DoD’s Sense and Avoid test sites

Nonlinear dimensionality reduction methods for synthetic biology biobricks' visualization.

PubMed

Yang, Jiaoyun; Wang, Haipeng; Ding, Huitong; An, Ning; Alterovitz, Gil

2017-01-19

Visualizing data by dimensionality reduction is an important strategy in Bioinformatics, which could help to discover hidden data properties and detect data quality issues, e.g. data noise, inappropriately labeled data, etc. As crowdsourcing-based synthetic biology databases face similar data quality issues, we propose to visualize biobricks to tackle them. However, existing dimensionality reduction methods could not be directly applied on biobricks datasets. Hereby, we use normalized edit distance to enhance dimensionality reduction methods, including Isomap and Laplacian Eigenmaps. By extracting biobricks from synthetic biology database Registry of Standard Biological Parts, six combinations of various types of biobricks are tested. The visualization graphs illustrate discriminated biobricks and inappropriately labeled biobricks. Clustering algorithm K-means is adopted to quantify the reduction results. The average clustering accuracy for Isomap and Laplacian Eigenmaps are 0.857 and 0.844, respectively. Besides, Laplacian Eigenmaps is 5 times faster than Isomap, and its visualization graph is more concentrated to discriminate biobricks. By combining normalized edit distance with Isomap and Laplacian Eigenmaps, synthetic biology biobircks are successfully visualized in two dimensional space. Various types of biobricks could be discriminated and inappropriately labeled biobricks could be determined, which could help to assess crowdsourcing-based synthetic biology databases' quality, and make biobricks selection.

Systems Biology as an Integrated Platform for Bioinformatics, Systems Synthetic Biology, and Systems Metabolic Engineering

PubMed Central

Chen, Bor-Sen; Wu, Chia-Chou

2013-01-01

Systems biology aims at achieving a system-level understanding of living organisms and applying this knowledge to various fields such as synthetic biology, metabolic engineering, and medicine. System-level understanding of living organisms can be derived from insight into: (i) system structure and the mechanism of biological networks such as gene regulation, protein interactions, signaling, and metabolic pathways; (ii) system dynamics of biological networks, which provides an understanding of stability, robustness, and transduction ability through system identification, and through system analysis methods; (iii) system control methods at different levels of biological networks, which provide an understanding of systematic mechanisms to robustly control system states, minimize malfunctions, and provide potential therapeutic targets in disease treatment; (iv) systematic design methods for the modification and construction of biological networks with desired behaviors, which provide system design principles and system simulations for synthetic biology designs and systems metabolic engineering. This review describes current developments in systems biology, systems synthetic biology, and systems metabolic engineering for engineering and biology researchers. We also discuss challenges and future prospects for systems biology and the concept of systems biology as an integrated platform for bioinformatics, systems synthetic biology, and systems metabolic engineering. PMID:24709875

Systems biology as an integrated platform for bioinformatics, systems synthetic biology, and systems metabolic engineering.

PubMed

Chen, Bor-Sen; Wu, Chia-Chou

2013-10-11

Systems biology aims at achieving a system-level understanding of living organisms and applying this knowledge to various fields such as synthetic biology, metabolic engineering, and medicine. System-level understanding of living organisms can be derived from insight into: (i) system structure and the mechanism of biological networks such as gene regulation, protein interactions, signaling, and metabolic pathways; (ii) system dynamics of biological networks, which provides an understanding of stability, robustness, and transduction ability through system identification, and through system analysis methods; (iii) system control methods at different levels of biological networks, which provide an understanding of systematic mechanisms to robustly control system states, minimize malfunctions, and provide potential therapeutic targets in disease treatment; (iv) systematic design methods for the modification and construction of biological networks with desired behaviors, which provide system design principles and system simulations for synthetic biology designs and systems metabolic engineering. This review describes current developments in systems biology, systems synthetic biology, and systems metabolic engineering for engineering and biology researchers. We also discuss challenges and future prospects for systems biology and the concept of systems biology as an integrated platform for bioinformatics, systems synthetic biology, and systems metabolic engineering.

The effects of weighted skates on ice-skating kinematics, kinetics and muscular activity.

PubMed

Mavor, Matthew P; Hay, Dean C; Graham, Ryan B

2018-07-01

Sport-specific resistance training, through limb loading, can be a complimentary training method to traditional resistance training by loading the working muscles during all phases of a specific movement. The purpose of this study was to examine the acute effects of skating with an additional load on the skate, using a skate weight prototype, on kinematics, kinetics, and muscle activation during the acceleration phase while skating on a synthetic ice surface. 10 male hockey skaters accelerated from rest (standing erect with knees slightly bent) under four non-randomized load conditions: baseline 1 (no weight), light (0.9 kg per skate), heavy (1.8 kg per skate), and baseline 2 (no weight). Skating with additional weight caused athletes to skate slower (p < 0.001; η 2  = 0.551), and led to few changes in kinematics: hip sagittal range of motion (ROM) decreased (2.2°; p = 0.032; η 2  = 0.274), hip transverse ROM decreased (3.4°; p < 0.001; η 2  = 0.494), ankle sagittal ROM decreased (2.3°; p = 0.022; η 2  = 0.295), and knee sagittal ROM increased (7.8°; p < 0.001, η 2  = 0.761). Overall, weighted skates decreased skating velocity, but athletes maintained similar muscle activation profiles (magnitude and trends) with minor changes to their skating kinematics.

Accelerated weathering of fire-retardant-treated wood for fire testing

Treesearch

Robert H. White

2009-01-01

Fire-retardant-treated products for exterior applications must be subjected to actual or accelerated weathering prior to fire testing. For fire-retardant-treated wood, the two accelerated weathering methods have been Method A and B of ASTM D 2898. The rain test is Method A of ASTM D 2898. Method B includes exposures to ultraviolet (UV) sunlamps in addition to water...

New seismic sources parameterization in El Salvador. Implications to seismic hazard.

NASA Astrophysics Data System (ADS)

Alonso-Henar, Jorge; Staller, Alejandra; Jesús Martínez-Díaz, José; Benito, Belén; Álvarez-Gómez, José Antonio; Canora, Carolina

2014-05-01

El Salvador is located at the pacific active margin of Central America, here, the subduction of the Cocos Plate under the Caribbean Plate at a rate of ~80 mm/yr is the main seismic source. Although the seismic sources located in the Central American Volcanic Arc have been responsible for some of the most damaging earthquakes in El Salvador. The El Salvador Fault Zone is the main geological structure in El Salvador and accommodates 14 mm/yr of horizontal displacement between the Caribbean Plate and the forearc sliver. The ESFZ is a right lateral strike-slip fault zone c. 150 km long and 20 km wide .This shear band distributes the deformation among strike-slip faults trending N90º-100ºE and secondary normal faults trending N120º- N170º. The ESFZ is relieved westward by the Jalpatagua Fault and becomes less clear eastward disappearing at Golfo de Fonseca. Five sections have been proposed for the whole fault zone. These fault sections are (from west to east): ESFZ Western Section, San Vicente Section, Lempa Section, Berlin Section and San Miguel Section. Paleoseismic studies carried out in the Berlin and San Vicente Segments reveal an important amount of quaternary deformation and paleoearthquakes up to Mw 7.6. In this study we present 45 capable seismic sources in El Salvador and their preliminary slip-rate from geological and GPS data. The GPS data detailled results are presented by Staller et al., 2014 in a complimentary communication. The calculated preliminary slip-rates range from 0.5 to 8 mm/yr for individualized faults within the ESFZ. We calculated maximum magnitudes from the mapped lengths and paleoseismic observations.We propose different earthquakes scenario including the potential combined rupture of different fault sections of the ESFZ, resulting in maximum earthquake magnitudes of Mw 7.6. We used deterministic models to calculate acceleration distribution related with maximum earthquakes of the different proposed scenario. The spatial distribution of seismic accelerations are compared and calibrated using the February 13, 2001 earthquake, as control earthquake. To explore the sources of historical earthquakes we compare synthetic acceleration maps with the historical earthquakes of March 6, 1719 and June 8, 1917. control earthquake. To explore the sources of historical earthquakes we compare synthetic acceleration maps with the historical earthquakes of March 6, 1719 and June 8, 1917.

Synthetic CO.sub.2 acceptor

DOEpatents

Lancet, Michael S.; Curran, George P.

1981-08-18

A synthetic CO.sub.2 acceptor consisting essentially of at least one compound selected from the group consisting of calcium oxide and calcium carbonate supported in a refractory carrier matrix, the carrier having the general formula Ca.sub.5 (SiO.sub.4).sub.2 CO.sub.3. A method for producing the synthetic CO.sub.2 acceptor is also disclosed.

On the upscaling of process-based models in deltaic applications

NASA Astrophysics Data System (ADS)

Li, L.; Storms, J. E. A.; Walstra, D. J. R.

2018-03-01

Process-based numerical models are increasingly used to study the evolution of marine and terrestrial depositional environments. Whilst a detailed description of small-scale processes provides an accurate representation of reality, application on geological timescales is restrained by the associated increase in computational time. In order to reduce the computational time, a number of acceleration methods are combined and evaluated for a schematic supply-driven delta (static base level) and an accommodation-driven delta (variable base level). The performance of the combined acceleration methods is evaluated by comparing the morphological indicators such as distributary channel networking and delta volumes derived from the model predictions for various levels of acceleration. The results of the accelerated models are compared to the outcomes from a series of simulations to capture autogenic variability. Autogenic variability is quantified by re-running identical models on an initial bathymetry with 1 cm added noise. The overall results show that the variability of the accelerated models fall within the autogenic variability range, suggesting that the application of acceleration methods does not significantly affect the simulated delta evolution. The Time-scale compression method (the acceleration method introduced in this paper) results in an increased computational efficiency of 75% without adversely affecting the simulated delta evolution compared to a base case. The combination of the Time-scale compression method with the existing acceleration methods has the potential to extend the application range of process-based models towards geologic timescales.

Optimization of T2-weighted imaging for shoulder magnetic resonance arthrography by synthetic magnetic resonance imaging.

PubMed

Lee, Seung Hyun; Lee, Young Han; Hahn, Seok; Yang, Jaemoon; Song, Ho-Taek; Suh, Jin-Suck

2017-01-01

Background Synthetic magnetic resonance imaging (MRI) allows reformatting of various synthetic images by adjustment of scanning parameters such as repetition time (TR) and echo time (TE). Optimized MR images can be reformatted from T1, T2, and proton density (PD) values to achieve maximum tissue contrast between joint fluid and adjacent soft tissue. Purpose To demonstrate the method for optimization of TR and TE by synthetic MRI and to validate the optimized images by comparison with conventional shoulder MR arthrography (MRA) images. Material and Methods Thirty-seven shoulder MRA images acquired by synthetic MRI were retrospectively evaluated for PD, T1, and T2 values at the joint fluid and glenoid labrum. Differences in signal intensity between the fluid and labrum were observed between TR of 500-6000 ms and TE of 80-300 ms in T2-weighted (T2W) images. Conventional T2W and synthetic images were analyzed for diagnostic agreement of supraspinatus tendon abnormalities (kappa statistics) and image quality scores (one-way analysis of variance with post-hoc analysis). Results Optimized mean values of TR and TE were 2724.7 ± 1634.7 and 80.1 ± 0.4, respectively. Diagnostic agreement for supraspinatus tendon abnormalities between conventional and synthetic MR images was excellent (κ = 0.882). The mean image quality score of the joint space in optimized synthetic images was significantly higher compared with those in conventional and synthetic images (2.861 ± 0.351 vs. 2.556 ± 0.607 vs. 2.750 ± 0.439; P < 0.05). Conclusion Synthetic MRI with optimized TR and TE for shoulder MRA enables optimization of soft-tissue contrast.

FDM simulation of earthquakes off western Kyushu, Japan, using a land-ocean unified 3D structure model

NASA Astrophysics Data System (ADS)

Okamoto, Taro; Takenaka, Hiroshi; Nakamura, Takeshi; Hara, Tatsuhiko

2017-07-01

Seismic activity occurred off western Kyushu, Japan, at the northern end of the Okinawa Trough on May 6, 2016 (14:11 JST), 22 days after the onset of the 2016 Kumamoto earthquake sequence. The area is adjacent to the Beppu-Shimabara graben where the 2016 Kumamoto earthquake sequence occurred. In the area off western Kyushu, a M7.1 earthquake also occurred on November 14, 2015 (5:51 JST), and a tsunami with a height of 0.3 m was observed. In order to better understand these seismic activity and tsunamis, it is necessary to study the sources of, and strong motions due to, earthquakes in the area off western Kyushu. For such studies, validation of synthetic waveforms is important because of the presence of the oceanic water layer and thick sediments in the source area. We show the validation results for synthetic waveforms through nonlinear inversion analyses of small earthquakes ( M5). We use a land-ocean unified 3D structure model, 3D HOT finite-difference method ("HOT" stands for Heterogeneity, Ocean layer and Topography) and a multi-graphic processing unit (GPU) acceleration to simulate the wave propagations. We estimate the first-motion augmented moment tensor (FAMT) solution based on both the long-period surface waves and short-period body waves. The FAMT solutions systematically shift landward by about 13 km, on average, from the epicenters determined by the Japan Meteorological Agency. The synthetics provide good reproductions of the observed full waveforms with periods of 10 s or longer. On the other hand, for waveforms with shorter periods (down to 4 s), the later surface waves are not reproduced well, while the first parts of the waveforms (comprising P- and S-waves) are reproduced to some extent. These results indicate that the current 3D structure model around Kyushu is effective for generating full waveforms, including surface waves with periods of about 10 s or longer. Based on these findings, we analyze the 2015 M7.1 event using the cross-correlations between the observed and synthetic waveforms. The result suggests a rupture propagation toward the NNE, with a major radiation about 25 km north of the onset point.[Figure not available: see fulltext.

The Synthetic Peroxisome Proliferator-Activated Receptor-γ Agonist Ciglitazone Attenuates Neuroinflammation and Accelerates Encapsulation in Bacterial Brain Abscesses1

PubMed Central

Kielian, Tammy; Md. Syed, Mohsin; Liu, Shuliang; Phulwani, Nirmal K.; Phillips, Napoleon; Wagoner, Gail; Drew, Paul D.; Esen, Nilufer

2008-01-01

Brain abscesses result from a pyogenic parenchymal infection commonly initiated by Gram-positive bacteria such as Staphylococcus aureus. Although the host immune response elicited following infection is essential for effective bacterial containment, this response also contributes to the significant loss of brain parenchyma by necrosis that may be reduced by modulating the inflammatory response. Ciglitazone, a PPAR-γ agonist with anti-inflammatory properties, was evaluated for its ability to influence the course of brain abscess development when treatment was initiated 3 days following infection. Interestingly, abscess-associated bacterial burdens were significantly lower following ciglitazone administration, which could be explained, in part, by the finding that ciglitazone enhanced S. aureus phagocytosis by microglia. In addition, ciglitazone attenuated the expression of select inflammatory mediators during brain abscess development including inducible NO synthase, TNF-α, IL-1β, CXCL2, and CCL3. Unexpectedly, ciglitazone also accelerated brain abscess encapsulation, which was typified by the heightened expression of fibronectin and α-smooth muscle actin-positive myofibroblasts. Collectively, through its ability to attenuate excessive inflammation and accelerate abscess encapsulation, ciglitazone may effectively sequester brain abscesses and limit bacterial dissemination. PMID:18354226

The Q continuum simulation: Harnessing the power of GPU accelerated supercomputers

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

Heitmann, Katrin; Frontiere, Nicholas; Sewell, Chris

2015-08-01

Modeling large-scale sky survey observations is a key driver for the continuing development of high-resolution, large-volume, cosmological simulations. We report the first results from the "Q Continuum" cosmological N-body simulation run carried out on the GPU-accelerated supercomputer Titan. The simulation encompasses a volume of (1300 Mpc)(3) and evolves more than half a trillion particles, leading to a particle mass resolution of m(p) similar or equal to 1.5 . 10(8) M-circle dot. At thismass resolution, the Q Continuum run is currently the largest cosmology simulation available. It enables the construction of detailed synthetic sky catalogs, encompassing different modeling methodologies, including semi-analyticmore » modeling and sub-halo abundance matching in a large, cosmological volume. Here we describe the simulation and outputs in detail and present first results for a range of cosmological statistics, such as mass power spectra, halo mass functions, and halo mass-concentration relations for different epochs. We also provide details on challenges connected to running a simulation on almost 90% of Titan, one of the fastest supercomputers in the world, including our usage of Titan's GPU accelerators.« less

Research for the Fluid Field of the Centrifugal Compressor Impeller in Accelerating Startup

NASA Astrophysics Data System (ADS)

Li, Xiaozhu; Chen, Gang; Zhu, Changyun; Qin, Guoliang

2013-03-01

In order to study the flow field in the impeller in the accelerating start-up process of centrifugal compressor, the 3-D and 1-D transient accelerated flow governing equations along streamline in the impeller of the centrifugal compressor are derived in detail, the assumption of pressure gradient distribution is presented, and the solving method for 1-D transient accelerating flow field is given based on the assumption. The solving method is achieved by programming and the computing result is obtained. It is obtained by comparison that the computing method is met with the test result. So the feasibility and effectiveness for solving accelerating start-up problem of centrifugal compressor by the solving method in this paper is proven.

Rapid Identification of Synthetic Cannabinoids in Herbal Incenses with DART-MS and NMR.

PubMed

Marino, Michael A; Voyer, Brandy; Cody, Robert B; Dane, A John; Veltri, Mercurio; Huang, Ling

2016-01-01

The usage of herbal incenses containing synthetic cannabinoids has caused an increase in medical incidents and triggered legislations to ban these products throughout the world. Law enforcement agencies are experiencing sample backlogs due to the variety of the products and the addition of new and still-legal compounds. In our study, proton nuclear magnetic resonance (NMR) spectroscopy was employed to promptly screen the synthetic cannabinoids after their rapid, direct detection on the herbs and in the powders by direct analysis in real time mass spectrometry (DART-MS). A simple sample preparation protocol was employed on 50 mg of herbal sample matrices for quick NMR detection. Ten synthetic cannabinoids were discovered in fifteen herbal incenses. The combined DART-MS and NMR methods can be used to quickly screen synthetic cannabinoids in powder and herbal samples, serving as a complementary approach to conventional GC-MS or LC-MS methods. © 2015 American Academy of Forensic Sciences.

Double temporal sparsity based accelerated reconstruction of compressively sensed resting-state fMRI.

PubMed

Aggarwal, Priya; Gupta, Anubha

2017-12-01

A number of reconstruction methods have been proposed recently for accelerated functional Magnetic Resonance Imaging (fMRI) data collection. However, existing methods suffer with the challenge of greater artifacts at high acceleration factors. This paper addresses the issue of accelerating fMRI collection via undersampled k-space measurements combined with the proposed method based on l 1 -l 1 norm constraints, wherein we impose first l 1 -norm sparsity on the voxel time series (temporal data) in the transformed domain and the second l 1 -norm sparsity on the successive difference of the same temporal data. Hence, we name the proposed method as Double Temporal Sparsity based Reconstruction (DTSR) method. The robustness of the proposed DTSR method has been thoroughly evaluated both at the subject level and at the group level on real fMRI data. Results are presented at various acceleration factors. Quantitative analysis in terms of Peak Signal-to-Noise Ratio (PSNR) and other metrics, and qualitative analysis in terms of reproducibility of brain Resting State Networks (RSNs) demonstrate that the proposed method is accurate and robust. In addition, the proposed DTSR method preserves brain networks that are important for studying fMRI data. Compared to the existing methods, the DTSR method shows promising potential with an improvement of 10-12 dB in PSNR with acceleration factors upto 3.5 on resting state fMRI data. Simulation results on real data demonstrate that DTSR method can be used to acquire accelerated fMRI with accurate detection of RSNs. Copyright © 2017 Elsevier Ltd. All rights reserved.

In Silico Synthesis of Synthetic Receptors: A Polymerization Algorithm.

PubMed

Cowen, Todd; Busato, Mirko; Karim, Kal; Piletsky, Sergey A

2016-12-01

Molecularly imprinted polymer (MIP) synthetic receptors have proposed and applied applications in chemical extraction, sensors, assays, catalysis, targeted drug delivery, and direct inhibition of harmful chemicals and pathogens. However, they rely heavily on effective design for success. An algorithm has been written which mimics radical polymerization atomistically, accounting for chemical and spatial discrimination, hybridization, and geometric optimization. Synthetic ephedrine receptors were synthesized in silico to demonstrate the accuracy of the algorithm in reproducing polymers structures at the atomic level. Comparative analysis in the design of a synthetic ephedrine receptor demonstrates that the new method can effectively identify affinity trends and binding site selectivities where commonly used alternative methods cannot. This new method is believed to generate the most realistic models of MIPs thus produced. This suggests that the algorithm could be a powerful new tool in the design and analysis of various polymers, including MIPs, with significant implications in areas of biotechnology, biomimetics, and the materials sciences more generally. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

A comparison of acceleration methods for solving the neutron transport k-eigenvalue problem

NASA Astrophysics Data System (ADS)

Willert, Jeffrey; Park, H.; Knoll, D. A.

2014-10-01

Over the past several years a number of papers have been written describing modern techniques for numerically computing the dominant eigenvalue of the neutron transport criticality problem. These methods fall into two distinct categories. The first category of methods rewrite the multi-group k-eigenvalue problem as a nonlinear system of equations and solve the resulting system using either a Jacobian-Free Newton-Krylov (JFNK) method or Nonlinear Krylov Acceleration (NKA), a variant of Anderson Acceleration. These methods are generally successful in significantly reducing the number of transport sweeps required to compute the dominant eigenvalue. The second category of methods utilize Moment-Based Acceleration (or High-Order/Low-Order (HOLO) Acceleration). These methods solve a sequence of modified diffusion eigenvalue problems whose solutions converge to the solution of the original transport eigenvalue problem. This second class of methods is, in our experience, always superior to the first, as most of the computational work is eliminated by the acceleration from the LO diffusion system. In this paper, we review each of these methods. Our computational results support our claim that the choice of which nonlinear solver to use, JFNK or NKA, should be secondary. The primary computational savings result from the implementation of a HOLO algorithm. We display computational results for a series of challenging multi-dimensional test problems.

Synthetic Hounsfield units from spectral CT data

NASA Astrophysics Data System (ADS)

Bornefalk, Hans

2012-04-01

Beam-hardening-free synthetic images with absolute CT numbers that radiologists are used to can be constructed from spectral CT data by forming ‘dichromatic’ images after basis decomposition. The CT numbers are accurate for all tissues and the method does not require additional reconstruction. This method prevents radiologists from having to relearn new rules-of-thumb regarding absolute CT numbers for various organs and conditions as conventional CT is replaced by spectral CT. Displaying the synthetic Hounsfield unit images side-by-side with images reconstructed for optimal detectability for a certain task can ease the transition from conventional to spectral CT.

A Spectroscopic Study of the Energy Deposition in the Low Corona: Connecting Global Modeling to Observations

NASA Astrophysics Data System (ADS)

Szente, J.; Landi, E.; Toth, G.; Manchester, W.; van der Holst, B.; Gombosi, T. I.

2017-12-01

We are looking for signatures of coronal heating process using a physically consistent 3D MHD model of the global corona. Our approach is based on the Alfvén Wave Solar atmosphere Model (AWSoM), with a domain ranging from the upper chromosphere (50,000K) to the outer corona, and the solar wind is self-consistently heated and accelerated by the dissipation of low-frequency Alfvén waves. Taking into account separate electron and anisotropic proton heating, we model the coronal plasma at the same time and location as observed by Hinode/EIS, and calculate the synthetic spectra that we compare with the observations. With the obtained synthetic spectra, we are able to directly calculate line intensities, line width, thermal and nonthermal motions, line centroids, Doppler shift distributions and compare our predictions to real measurements. Our results directly test the extent to which Alfvénic heating is present in the low corona.

Small-scale loess landslide monitoring with small baseline subsets interferometric synthetic aperture radar technique-case study of Xingyuan landslide, Shaanxi, China

NASA Astrophysics Data System (ADS)

Zhao, Chaoying; Zhang, Qin; He, Yang; Peng, Jianbing; Yang, Chengsheng; Kang, Ya

2016-04-01

Small baseline subsets interferometric synthetic aperture radar technique is analyzed to detect and monitor the loess landslide in the southern bank of the Jinghe River, Shaanxi province, China. Aiming to achieve the accurate preslide time-series deformation results over small spatial scale and abrupt temporal deformation loess landslide, digital elevation model error, coherence threshold for phase unwrapping, and quality of unwrapping interferograms must be carefully checked in advance. In this experience, land subsidence accompanying a landslide with the distance <1 km is obtained, which gives a sound precursor for small-scale loess landslide detection. Moreover, the longer and continuous land subsidence has been monitored while deformation starting point for the landslide is successfully inverted, which is key to monitoring the similar loess landslide. In addition, the accelerated landslide deformation from one to two months before the landslide can provide a critical clue to early warning of this kind of landslide.

Experimental Measurements and Comparison of Cable Performance for Mine Hunting Applications

NASA Astrophysics Data System (ADS)

Mangum, Katherine

2005-11-01

The Naval Surface Warfare Center (NSWCCD) conducted testing of multiple faired synthetic cables in the High Speed Basin in April, 2005. The objective of the test was to determine the hydrodynamic characteristics of bare cables, ribbon faired cables, and cables with extruded plastic ``strakes.'' Faired cables are used to gain on-station time and improve performance of the MH-60 Helicopter when towing mine hunting vehicles. Drag and strum were compared for all cases. Strum was quantified by computing standard deviations of lateral cable acceleration amplitudes. Drag coefficients were calculated using cable tension and angle readings. While the straked cables strummed less than the bare synthetic cable, they did not reduce strum levels as well as ribbon fairing at steep cable angles for speeds of 10, 15, 20 and 25 knots. The drag coefficient of the straked cables was calculated to be higher than that of a bare cable, although further testing is needed to determine an exact number.

Sensitization to Rubber Accelerators in Northeastern Italy: The Triveneto Patch Test Database.

PubMed

Buttazzo, Silvia; Prodi, Andrea; Fortina, Anna Belloni; Corradin, Maria Teresa; Larese Filon, Francesca

2016-01-01

Natural and synthetic rubbers containing rubber accelerators are well-known causes of occupational skin disease. Allergic contact dermatitis caused by rubber gloves is frequent and has almost exclusively been attributed to contact sensitization to accelerators. This study aimed to evaluate the frequency of rubber accelerators sensitization in the population living in northeastern Italy, to find time trend and a correlation with occupations, and to investigate co-sensitization between rubber accelerators. A population of 23,774 subjects was patch tested in 6 cities in northeastern Italy in the years 1996 to 2012 using carba mix 3%, thiuram mix 1%, benzothiazole (MBT) mix 1%, and isopropyl phenyl paraphenylamine diamine (IPPD) mix 0.6%. The overall frequency of carbamates, MBT, thiurams, and IPPD mix sensitization was 3.4%, 0.65%, 1.75%, and 0.83%, respectively. On a logistic regression analysis (control group: white-collar workers), we found a statistically significant association to carbamates (odds ratio [OR], 1.3; 95% confidence interval [CI], 1.03-1.7) and thiurams (OR, 1.6; 95% CI, 1.1-2.3) for health care workers. Thiuram sensitivity was also significantly associated with dermatitis in maids and restaurant workers (OR, 2.2; 95% CI, 1.4-3.6), hairdressers (OR, 3.6; 95% CI, 1.8-7.1), shop assistants (OR, 2.9; 95% CI, 1.2-6.8), construction workers (OR, 2.7; 95% CI, 1.7-4.1), mechanics (OR, 2.1; 95% CI, 1.3-3.4), and professional drivers (OR, 2.6; 95% CI, 1.2-5.9). In conclusion, our results demonstrated that rubber accelerators have an important role in allergic contact dermatitis in the northeast of Italy and their sensitization is associated significantly with occupations that wear gloves or use chemical substances. Between rubber accelerators tested, carbamates sensitization is prevalent and increasing during considered years.

Synthetic Generation of Myocardial Blood-Oxygen-Level-Dependent MRI Time Series via Structural Sparse Decomposition Modeling

PubMed Central

Rusu, Cristian; Morisi, Rita; Boschetto, Davide; Dharmakumar, Rohan; Tsaftaris, Sotirios A.

2014-01-01

This paper aims to identify approaches that generate appropriate synthetic data (computer generated) for Cardiac Phase-resolved Blood-Oxygen-Level-Dependent (CP–BOLD) MRI. CP–BOLD MRI is a new contrast agent- and stress-free approach for examining changes in myocardial oxygenation in response to coronary artery disease. However, since signal intensity changes are subtle, rapid visualization is not possible with the naked eye. Quantifying and visualizing the extent of disease relies on myocardial segmentation and registration to isolate the myocardium and establish temporal correspondences and ischemia detection algorithms to identify temporal differences in BOLD signal intensity patterns. If transmurality of the defect is of interest pixel-level analysis is necessary and thus a higher precision in registration is required. Such precision is currently not available affecting the design and performance of the ischemia detection algorithms. In this work, to enable algorithmic developments of ischemia detection irrespective to registration accuracy, we propose an approach that generates synthetic pixel-level myocardial time series. We do this by (a) modeling the temporal changes in BOLD signal intensity based on sparse multi-component dictionary learning, whereby segmentally derived myocardial time series are extracted from canine experimental data to learn the model; and (b) demonstrating the resemblance between real and synthetic time series for validation purposes. We envision that the proposed approach has the capacity to accelerate development of tools for ischemia detection while markedly reducing experimental costs so that cardiac BOLD MRI can be rapidly translated into the clinical arena for the noninvasive assessment of ischemic heart disease. PMID:24691119

Synthetic generation of myocardial blood-oxygen-level-dependent MRI time series via structural sparse decomposition modeling.

PubMed

Rusu, Cristian; Morisi, Rita; Boschetto, Davide; Dharmakumar, Rohan; Tsaftaris, Sotirios A

2014-07-01

This paper aims to identify approaches that generate appropriate synthetic data (computer generated) for cardiac phase-resolved blood-oxygen-level-dependent (CP-BOLD) MRI. CP-BOLD MRI is a new contrast agent- and stress-free approach for examining changes in myocardial oxygenation in response to coronary artery disease. However, since signal intensity changes are subtle, rapid visualization is not possible with the naked eye. Quantifying and visualizing the extent of disease relies on myocardial segmentation and registration to isolate the myocardium and establish temporal correspondences and ischemia detection algorithms to identify temporal differences in BOLD signal intensity patterns. If transmurality of the defect is of interest pixel-level analysis is necessary and thus a higher precision in registration is required. Such precision is currently not available affecting the design and performance of the ischemia detection algorithms. In this work, to enable algorithmic developments of ischemia detection irrespective to registration accuracy, we propose an approach that generates synthetic pixel-level myocardial time series. We do this by 1) modeling the temporal changes in BOLD signal intensity based on sparse multi-component dictionary learning, whereby segmentally derived myocardial time series are extracted from canine experimental data to learn the model; and 2) demonstrating the resemblance between real and synthetic time series for validation purposes. We envision that the proposed approach has the capacity to accelerate development of tools for ischemia detection while markedly reducing experimental costs so that cardiac BOLD MRI can be rapidly translated into the clinical arena for the noninvasive assessment of ischemic heart disease.

PAT: predictor for structured units and its application for the optimization of target molecules for the generation of synthetic antibodies.

PubMed

Jeon, Jouhyun; Arnold, Roland; Singh, Fateh; Teyra, Joan; Braun, Tatjana; Kim, Philip M

2016-04-01

The identification of structured units in a protein sequence is an important first step for most biochemical studies. Importantly for this study, the identification of stable structured region is a crucial first step to generate novel synthetic antibodies. While many approaches to find domains or predict structured regions exist, important limitations remain, such as the optimization of domain boundaries and the lack of identification of non-domain structured units. Moreover, no integrated tool exists to find and optimize structural domains within protein sequences. Here, we describe a new tool, PAT ( http://www.kimlab.org/software/pat ) that can efficiently identify both domains (with optimized boundaries) and non-domain putative structured units. PAT automatically analyzes various structural properties, evaluates the folding stability, and reports possible structural domains in a given protein sequence. For reliability evaluation of PAT, we applied PAT to identify antibody target molecules based on the notion that soluble and well-defined protein secondary and tertiary structures are appropriate target molecules for synthetic antibodies. PAT is an efficient and sensitive tool to identify structured units. A performance analysis shows that PAT can characterize structurally well-defined regions in a given sequence and outperforms other efforts to define reliable boundaries of domains. Specially, PAT successfully identifies experimentally confirmed target molecules for antibody generation. PAT also offers the pre-calculated results of 20,210 human proteins to accelerate common queries. PAT can therefore help to investigate large-scale structured domains and improve the success rate for synthetic antibody generation.

Coupling and decoupling of the accelerating units for pulsed synchronous linear accelerator

NASA Astrophysics Data System (ADS)

Shen, Yi; Liu, Yi; Ye, Mao; Zhang, Huang; Wang, Wei; Xia, Liansheng; Wang, Zhiwen; Yang, Chao; Shi, Jinshui; Zhang, Linwen; Deng, Jianjun

2017-12-01

A pulsed synchronous linear accelerator (PSLA), based on the solid-state pulse forming line, photoconductive semiconductor switch, and high gradient insulator technologies, is a novel linear accelerator. During the prototype PSLA commissioning, the energy gain of proton beams was found to be much lower than expected. In this paper, the degradation of the energy gain is explained by the circuit and cavity coupling effect of the accelerating units. The coupling effects of accelerating units are studied, and the circuit topologies of these two kinds of coupling effects are presented. Two methods utilizing inductance and membrane isolations, respectively, are proposed to reduce the circuit coupling effects. The effectiveness of the membrane isolation method is also supported by simulations. The decoupling efficiency of the metal drift tube is also researched. We carried out the experiments on circuit decoupling of the multiple accelerating cavity. The result shows that both circuit decoupling methods could increase the normalized voltage.

A Global Perspective on the History, Use, and Identification of Synthetic Food Dyes

ERIC Educational Resources Information Center

Sharma, Vinita; McKone, Harold T.; Markow, Peter G.

2011-01-01

This article presents a brief history of the artificial coloration of foods, a discussion of the worldwide use of synthetic food dyes, and methods for separating and identifying 14 dyes in common use globally. The United States Food and Drug Administration presently has certified seven synthetic dyes for use in foods. An additional seven synthetic…

Standard Biological Parts Knowledgebase

PubMed Central

Galdzicki, Michal; Rodriguez, Cesar; Chandran, Deepak; Sauro, Herbert M.; Gennari, John H.

2011-01-01

We have created the Knowledgebase of Standard Biological Parts (SBPkb) as a publically accessible Semantic Web resource for synthetic biology (sbolstandard.org). The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology. Its initial version includes all of the information about parts stored in the Registry of Standard Biological Parts (partsregistry.org). SBPkb transforms this information so that it is computable, using our semantic framework for synthetic biology parts. This framework, known as SBOL-semantic, was built as part of the Synthetic Biology Open Language (SBOL), a project of the Synthetic Biology Data Exchange Group. SBOL-semantic represents commonly used synthetic biology entities, and its purpose is to improve the distribution and exchange of descriptions of biological parts. In this paper, we describe the data, our methods for transformation to SBPkb, and finally, we demonstrate the value of our knowledgebase with a set of sample queries. We use RDF technology and SPARQL queries to retrieve candidate “promoter” parts that are known to be both negatively and positively regulated. This method provides new web based data access to perform searches for parts that are not currently possible. PMID:21390321

Disclosure Control using Partially Synthetic Data for Large-Scale Health Surveys, with Applications to CanCORS

PubMed Central

Loong, Bronwyn; Zaslavsky, Alan M.; He, Yulei; Harrington, David P.

2013-01-01

Statistical agencies have begun to partially synthesize public-use data for major surveys to protect the confidentiality of respondents’ identities and sensitive attributes, by replacing high disclosure risk and sensitive variables with multiple imputations. To date, there are few applications of synthetic data techniques to large-scale healthcare survey data. Here, we describe partial synthesis of survey data collected by CanCORS, a comprehensive observational study of the experiences, treatments, and outcomes of patients with lung or colorectal cancer in the United States. We review inferential methods for partially synthetic data, and discuss selection of high disclosure risk variables for synthesis, specification of imputation models, and identification disclosure risk assessment. We evaluate data utility by replicating published analyses and comparing results using original and synthetic data, and discuss practical issues in preserving inferential conclusions. We found that important subgroup relationships must be included in the synthetic data imputation model, to preserve the data utility of the observed data for a given analysis procedure. We conclude that synthetic CanCORS data are suited best for preliminary data analyses purposes. These methods address the requirement to share data in clinical research without compromising confidentiality. PMID:23670983

Monoclonal antibodies to synthetic pyrethroids and method for detecting the same

DOEpatents

Stanker, Larry H.; Vanderlaan, Martin; Watkins, Bruce E.; Van Emon, Jeanette M.; Bigbee, Carolyn L.

1992-01-01

Methods are described for making specific monoclonal antibodies which may be used in a sensitive immunoassay for detection of synthetic pyrethroids in foods and environmental samples. Appropriate sample preparation and enzyme amplification of the immunoassay for this widely-used class of pesticides permits detection at low levels in laboratory and field tested samples.

Monoclonal antibodies to synthetic pyrethroids and method for detecting the same

DOEpatents

Stanker, L.H.; Vanderlaan, M.; Watkins, B.E.; Van Emon, J.M.; Bigbee, C.L.

1992-04-28

Methods are described for making specific monoclonal antibodies which may be used in a sensitive immunoassay for detection of synthetic pyrethroids in foods and environmental samples. Appropriate sample preparation and enzyme amplification of the immunoassay for this widely-used class of pesticides permits detection at low levels in laboratory and field tested samples. 6 figs.

Accelerated aggregation of donor nitrogen in diamond containing NV centers

NASA Astrophysics Data System (ADS)

Lobanov, Sergey; Vins, Victor; Yelisseev, Alexander; Afonin, Dmitry; Blinkov, Alexander; Maximov, Yuriy

2010-05-01

The aggregation of donor nitrogen (C centers) into nitrogen pairs (A centers) is considered to be a second-order chemical reaction and the kinetics of this reaction can be written as follows: Kt = 1-- -1- Ct C0 where K is the aggregation rate constant that depends exponentially on temperature and activation energy K = Aexp (- Ea-kT ) and C0 and CT are C center concentrations before and after the aggregation. The activation energy Ea in natural diamonds is equal to 5±0.3 eV. However, it was shown by Vins (2004) that Ea varied in synthetic diamonds depending on Ni concentration from 3 to 6 eV; and in synthetic diamonds containing cobalt the activation energy exceeded 4 eV. The aggregation rate of C centers also increased dramatically in diamonds irradiated with high-energy electrons (Collins, 1980). An HPHT diamond single crystal grown in the Fe-Co-C system using the TGG method was studied. The initial C center concentration determined from the intensity of the 1130 cm-1 IR absorption band was equal to 118 ppm. In order to determine the influence of NV centers on the activation energy of aggregation, the crystal was at first irradiated with high-energy electrons (3MeV, 2×1018cm-2) and annealed in a quartz ampoule in vacuum (8000C, 2 hrs). This led to the formation of over 5 ppm of NV centers. After that the sample was annealed at high temperatures in the argon flow (15300C, 30 minutes). The IR absorption spectra revealed an

Method of Calibrating a Force Balance

NASA Technical Reports Server (NTRS)

Parker, Peter A. (Inventor); Rhew, Ray D. (Inventor); Johnson, Thomas H. (Inventor); Landman, Drew (Inventor)

2015-01-01

A calibration system and method utilizes acceleration of a mass to generate a force on the mass. An expected value of the force is calculated based on the magnitude and acceleration of the mass. A fixture is utilized to mount the mass to a force balance, and the force balance is calibrated to provide a reading consistent with the expected force determined for a given acceleration. The acceleration can be varied to provide different expected forces, and the force balance can be calibrated for different applied forces. The acceleration may result from linear acceleration of the mass or rotational movement of the mass.

Probing electron acceleration and x-ray emission in laser-plasma accelerators

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

Thaury, C.; Ta Phuoc, K.; Corde, S.

2013-06-15

While laser-plasma accelerators have demonstrated a strong potential in the acceleration of electrons up to giga-electronvolt energies, few experimental tools for studying the acceleration physics have been developed. In this paper, we demonstrate a method for probing the acceleration process. A second laser beam, propagating perpendicular to the main beam, is focused on the gas jet few nanosecond before the main beam creates the accelerating plasma wave. This second beam is intense enough to ionize the gas and form a density depletion, which will locally inhibit the acceleration. The position of the density depletion is scanned along the interaction lengthmore » to probe the electron injection and acceleration, and the betatron X-ray emission. To illustrate the potential of the method, the variation of the injection position with the plasma density is studied.« less

Quantification of synthetic cannabinoids in herbal smoking blends using NMR.

PubMed

Dunne, Simon J; Rosengren-Holmberg, Jenny P

2017-05-01

Herbal smoking blends containing synthetic cannabinoids have become popular alternatives to marijuana. These products were previously sold in pre-packaged foil bags, but nowadays seizures usually contain synthetic cannabinoid powders together with unprepared plant materials. A question often raised by the Swedish police is how much smoking blend can be prepared from certain amounts of banned substance, in order to establish the severity of the crime. To address this question, information about the synthetic cannabinoid content in both the powder and the prepared herbal blends is necessary. In this work, an extraction procedure compatible with direct NMR quantification of synthetic cannabinoids in herbal smoking blends was developed. Extraction media, time and efficiency were tested for different carrier materials containing representative synthetic cannabinoids. The developed protocol utilizes a 30 min extraction step in d 4 -methanol in presence of internal standard allowing direct quantitation of the extract using NMR. The accuracy of the developed method was tested using in-house prepared herbal smoking blends. The results showed deviations less than 0.2% from the actual content, proving that the method is sufficiently accurate for these quantifications. Using this method, ten synthetic cannabinoids present in sixty-three different herbal blends seized by the Swedish police between October 2012 and April 2015 were quantified. Obtained results showed a variation in cannabinoid contents from 1.5% (w/w) for mixtures containing MDMB-CHMICA to over 5% (w/w) for mixtures containing 5F-AKB-48. This is important information for forensic experts when making theoretical calculations of production quantities in legal cases regarding "home-made" herbal smoking blends. Copyright © 2016 John Wiley & Sons, Ltd. Copyright © 2016 John Wiley & Sons, Ltd.

Validation of an ELISA Synthetic Cannabinoids Urine Assay.

PubMed

Barnes, Allan J; Spinelli, Eliani; Young, Sheena; Martin, Thomas M; Kleete, Kevin L; Huestis, Marilyn A

2015-10-01

Synthetic cannabinoids are touted as legal alternatives to cannabis, at least when first released, and routine urine cannabinoid screening methods do not detect these novel psychoactive substances. Synthetic cannabinoids are widely available, are a major public health and safety problem, and a difficult challenge for drug-testing laboratories. We evaluated performance of the National Medical Services (NMS) JWH-018 direct enzyme-linked immunosorbent assay (ELISA) kit to sensitively, selectively, and rapidly screen urinary synthetic cannabinoids. The NMS ELISA kit targeting the JWH-018 N-(5-hydroxypentyl) metabolite was used to screen 2492 urine samples with 5 and 10 mcg/L cutoffs. A fully validated liquid chromatography-tandem mass spectrometry method for 29 synthetic cannabinoids markers confirmed all presumptive positive and negative results. Performance challenges at ±25% and ±50% of cutoffs determined intraplate and interplate imprecision around proposed cutoffs. The immunoassay was linear from 1 to 500 mcg/L with intraplate and interplate imprecision of ≤8.2% and <14.0%, respectively. No interferences were present from 93 common drugs of abuse, metabolites, coadministered drugs, over-the-counter medications, or structurally similar compounds, and 19 of 73 individual synthetic cannabinoids (26%) exhibited moderate to high cross-reactivity to JWH-018 N-(5-hydroxypentyl) metabolite. Sensitivity, specificity, and efficiency results were 83.7%, 99.4%, and 97.6%, as well as 71.6%, 99.7%, and 96.4% with the 5 and 10 mcg/L urine cutoffs, respectively. This high throughput immunoassay exhibited good diagnostic efficiency and documented that the NMS JWH-018 direct ELISA is a viable method for screening synthetic cannabinoids in urine targeting the JWH-018 N-(5-hydroxypentyl) and related analytes. Optimal performance was achieved with a matrix-matched 5 mcg/L urine cutoff.

End-to-end automated microfluidic platform for synthetic biology: from design to functional analysis

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

Linshiz, Gregory; Jensen, Erik; Stawski, Nina

Synthetic biology aims to engineer biological systems for desired behaviors. The construction of these systems can be complex, often requiring genetic reprogramming, extensive de novo DNA synthesis, and functional screening. Here, we present a programmable, multipurpose microfluidic platform and associated software and apply the platform to major steps of the synthetic biology research cycle: design, construction, testing, and analysis. We show the platform’s capabilities for multiple automated DNA assembly methods, including a new method for Isothermal Hierarchical DNA Construction, and for Escherichia coli and Saccharomyces cerevisiae transformation. The platform enables the automated control of cellular growth, gene expression induction, andmore » proteogenic and metabolic output analysis. Finally, taken together, we demonstrate the microfluidic platform’s potential to provide end-to-end solutions for synthetic biology research, from design to functional analysis.« less

Method for determining formation quality factor from well log data and its application to seismic reservoir characterization

DOEpatents

Walls, Joel; Taner, M. Turhan; Dvorkin, Jack

2006-08-08

A method for seismic characterization of subsurface Earth formations includes determining at least one of compressional velocity and shear velocity, and determining reservoir parameters of subsurface Earth formations, at least including density, from data obtained from a wellbore penetrating the formations. A quality factor for the subsurface formations is calculated from the velocity, the density and the water saturation. A synthetic seismogram is calculated from the calculated quality factor and from the velocity and density. The synthetic seismogram is compared to a seismic survey made in the vicinity of the wellbore. At least one parameter is adjusted. The synthetic seismogram is recalculated using the adjusted parameter, and the adjusting, recalculating and comparing are repeated until a difference between the synthetic seismogram and the seismic survey falls below a selected threshold.

[Application of entropy-weight TOPSIS model in synthetical quality evaluation of Angelica sinensis growing in Gansu Province].

PubMed

Gu, Zhi-rong; Wang, Ya-li; Sun, Yu-jing; Dind, Jun-xia

2014-09-01

To investigate the establishment and application methods of entropy-weight TOPSIS model in synthetical quality evaluation of traditional Chinese medicine with Angelica sinensis growing in Gansu Province as an example. The contents of ferulic acid, 3-butylphthalide, Z-butylidenephthalide, Z-ligustilide, linolic acid, volatile oil, and ethanol soluble extractive were used as an evaluation index set. The weights of each evaluation index were determined by information entropy method. The entropyweight TOPSIS model was established to synthetically evaluate the quality of Angelica sinensis growing in Gansu Province by Euclid closeness degree. The results based on established model were in line with the daodi meaning and the knowledge of clinical experience. The established model was simple in calculation, objective, reliable, and can be applied to synthetical quality evaluation of traditional Chinese medicine.

End-to-end automated microfluidic platform for synthetic biology: from design to functional analysis

DOE PAGES

Linshiz, Gregory; Jensen, Erik; Stawski, Nina; ...

2016-02-02

Synthetic biology aims to engineer biological systems for desired behaviors. The construction of these systems can be complex, often requiring genetic reprogramming, extensive de novo DNA synthesis, and functional screening. Here, we present a programmable, multipurpose microfluidic platform and associated software and apply the platform to major steps of the synthetic biology research cycle: design, construction, testing, and analysis. We show the platform’s capabilities for multiple automated DNA assembly methods, including a new method for Isothermal Hierarchical DNA Construction, and for Escherichia coli and Saccharomyces cerevisiae transformation. The platform enables the automated control of cellular growth, gene expression induction, andmore » proteogenic and metabolic output analysis. Finally, taken together, we demonstrate the microfluidic platform’s potential to provide end-to-end solutions for synthetic biology research, from design to functional analysis.« less

3rd congress on applied synthetic biology in Europe (Costa da Caparica, Portugal, February 2016).

PubMed

Cueva, Miguel

2017-03-25

The third meeting organised by the European Federation of Biotechnology (EFB) on advances in Applied Synthetic Biotechnology in Europe (ASBE) was held in Costa da Caparica, Portugal, in February 2016. Abundant novel applications in synthetic biology were described in the six sessions of the meeting, which was divided into technology and tools for synthetic biology (I, II and III), bionanoscience, biosynthetic pathways and enzyme synthetic biology, and metabolic engineering and chemical manufacturing. The meeting presented numerous methods for the development of novel synthetic strains, synthetic biological tools and synthetic biology applications. With the aid of synthetic biology, production costs of chemicals, metabolites and food products are expected to decrease, by generating sustainable biochemical production of such resources. Also, such synthetic biological advances could be applied for medical purposes, as in pharmaceuticals and for biosensors. Recurrent, linked themes throughout the meeting were the shortage of resources, the world's transition into a bioeconomy, and how synthetic biology is helping tackle these issues through cutting-edge technologies. While there are still limitations in synthetic biology research, innovation is propelling the development of technology, the standardisation of synthetic biological tools and the use of suitable host organisms. These developments are laying a foundation to providing a future where cutting-edge research could generate potential solutions to society's pressing issues, thus incentivising a transition into a bioeconomy. Copyright © 2016 Elsevier B.V. All rights reserved.

[Smart therapeutics based on synthetic gene circuits].

PubMed

Peng, Shuguang; Xie, Zhen

2017-03-25

Synthetic biology has an important impact on biology research since its birth. Applying the thought and methods that reference from electrical engineering, synthetic biology uncovers many regulatory mechanisms of life systems, transforms and expands a series of biological components. Therefore, it brings a wide range of biomedical applications, including providing new ideas for disease diagnosis and treatment. This review describes the latest advances in the field of disease diagnosis and therapy based on mammalian cell or bacterial synthetic gene circuits, and provides new ideas for future smart therapy design.

TU-F-CAMPUS-T-04: Variations in Nominally Identical Small Fields From Photon Jaw Reproducibility and Associated Effects On Small Field Dosimetric Parameters

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

Muir, B R; McEwen, M R

2015-06-15

Purpose: To investigate uncertainties in small field output factors and detector specific correction factors from variations in field size for nominally identical fields using measurements and Monte Carlo simulations. Methods: Repeated measurements of small field output factors are made with the Exradin W1 (plastic scintillation detector) and the PTW microDiamond (synthetic diamond detector) in beams from the Elekta Precise linear accelerator. We investigate corrections for a 0.6x0.6 cm{sup 2} nominal field size shaped with secondary photon jaws at 100 cm source to surface distance (SSD). Measurements of small field profiles are made in a water phantom at 10 cm depthmore » using both detectors and are subsequently used for accurate detector positioning. Supplementary Monte Carlo simulations with EGSnrc are used to calculate the absorbed dose to the detector and absorbed dose to water under the same conditions when varying field size. The jaws in the BEAMnrc model of the accelerator are varied by a reasonable amount to investigate the same situation without the influence of measurements uncertainties (such as detector positioning or variation in beam output). Results: For both detectors, small field output factor measurements differ by up to 11 % when repeated measurements are made in nominally identical 0.6x0.6 cm{sup 2} fields. Variations in the FWHM of measured profiles are consistent with field size variations reported by the accelerator. Monte Carlo simulations of the dose to detector vary by up to 16 % under worst case variations in field size. These variations are also present in calculations of absorbed dose to water. However, calculated detector specific correction factors are within 1 % when varying field size because of cancellation of effects. Conclusion: Clinical physicists should be aware of potentially significant uncertainties in measured output factors required for dosimetry of small fields due to field size variations for nominally identical fields.« less

A survey of enabling technologies in synthetic biology

PubMed Central

2013-01-01

Background Realizing constructive applications of synthetic biology requires continued development of enabling technologies as well as policies and practices to ensure these technologies remain accessible for research. Broadly defined, enabling technologies for synthetic biology include any reagent or method that, alone or in combination with associated technologies, provides the means to generate any new research tool or application. Because applications of synthetic biology likely will embody multiple patented inventions, it will be important to create structures for managing intellectual property rights that best promote continued innovation. Monitoring the enabling technologies of synthetic biology will facilitate the systematic investigation of property rights coupled to these technologies and help shape policies and practices that impact the use, regulation, patenting, and licensing of these technologies. Results We conducted a survey among a self-identifying community of practitioners engaged in synthetic biology research to obtain their opinions and experiences with technologies that support the engineering of biological systems. Technologies widely used and considered enabling by survey participants included public and private registries of biological parts, standard methods for physical assembly of DNA constructs, genomic databases, software tools for search, alignment, analysis, and editing of DNA sequences, and commercial services for DNA synthesis and sequencing. Standards and methods supporting measurement, functional composition, and data exchange were less widely used though still considered enabling by a subset of survey participants. Conclusions The set of enabling technologies compiled from this survey provide insight into the many and varied technologies that support innovation in synthetic biology. Many of these technologies are widely accessible for use, either by virtue of being in the public domain or through legal tools such as non-exclusive licensing. Access to some patent protected technologies is less clear and use of these technologies may be subject to restrictions imposed by material transfer agreements or other contract terms. We expect the technologies considered enabling for synthetic biology to change as the field advances. By monitoring the enabling technologies of synthetic biology and addressing the policies and practices that impact their development and use, our hope is that the field will be better able to realize its full potential. PMID:23663447

Synthetic Estimation of the Distribution of Mentally Disabled Adults for Allocations to Ohio's Mental Health Board Areas.

ERIC Educational Resources Information Center

Jarjoura, David; And Others

1993-01-01

A synthetic method of estimating relative annual prevalence of severely mentally disabled (SMD) adults across Ohio's mental health board areas was evaluated. Indirect evidence of accuracy for the method, which relies on local catchment area data and local census data, is provided by comparison with actual SMD adult counts in federal programs. (SLD)

A method for extending stage-discharge relationships using a hydrodynamic model and quantifying the associated uncertainty

NASA Astrophysics Data System (ADS)

Shao, Quanxi; Dutta, Dushmanta; Karim, Fazlul; Petheram, Cuan

2018-01-01

Streamflow discharge is a fundamental dataset required to effectively manage water and land resources. However, developing robust stage - discharge relationships called rating curves, from which streamflow discharge is derived, is time consuming and costly, particularly in remote areas and especially at high stage levels. As a result stage - discharge relationships are often heavily extrapolated. Hydrodynamic (HD) models are physically based models used to simulate the flow of water along river channels and over adjacent floodplains. In this paper we demonstrate a method by which a HD model can be used to generate a 'synthetic' stage - discharge relationship at high stages. The method uses a both-side Box-Cox transformation to calibrate the synthetic rating curve such that the regression residuals are as close to the normal distribution as possible. By doing this both-side transformation, the statistical uncertainty in the synthetically derived stage - discharge relationship can be calculated. This enables people trying to make decisions to determine whether the uncertainty in the synthetically generated rating curve at high stage levels is acceptable for their decision. The proposed method is demonstrated in two streamflow gauging stations in north Queensland, Australia.

Identification of Eight Synthetic Cannabinoids, Including 5F-AKB48 in Seized Herbal Products Using DART-TOF-MS and LC-QTOF-MS as Nontargeted Screening Methods.

PubMed

Moore, Katherine N; Garvin, Demetra; Thomas, Brian F; Grabenauer, Megan

2017-09-01

Synthetic cannabinoids are sprayed onto plant material and smoked for their marijuana-like effects. Clandestine manufacturers modify synthetic cannabinoid structures by creating closely related analogs. Forensic laboratories are tasked with detection of these analog compounds, but targeted analytical methods are often thwarted by the structural modifications. Here, direct analysis in real time coupled to accurate mass time-of-flight mass spectrometry (DART-TOF-MS) in combination with liquid chromatography quadruple time-of-flight mass spectrometry (LC-QTOF-MS) are presented as a screening and nontargeted confirmation method, respectively. Methanol extracts of herbal material were run using both methods. Spectral data from four different herbal products were evaluated by comparing fragmentation pattern, accurate mass and retention time to available reference standards. JWH-018, JWH-019, AM2201, JWH-122, 5F-AKB48, AKB48-N-(4-pentenyl) analog, UR144, and XLR11 were identified in the products. Results demonstrate that DART-TOF-MS affords a useful approach for rapid screening of herbal products for the presence and identification of synthetic cannabinoids. © 2017 American Academy of Forensic Sciences.

Preliminary evaluation of synthetic speech

DOT National Transportation Integrated Search

1972-08-01

The report briefly discusses the methods for storing and generating synthetic speech and a preliminary evaluation of the intelligibility of a speech synthesizer having a 75-word vocabulary selected for air traffic control messages. A program is sugge...

Wireless acceleration sensor of moving elements for condition monitoring of mechanisms

NASA Astrophysics Data System (ADS)

Sinitsin, Vladimir V.; Shestakov, Aleksandr L.

2017-09-01

Comprehensive analysis of the angular and linear accelerations of moving elements (shafts, gears) allows an increase in the quality of the condition monitoring of mechanisms. However, existing tools and methods measure either linear or angular acceleration with postprocessing. This paper suggests a new construction design of an angular acceleration sensor for moving elements. The sensor is mounted on a moving element and, among other things, the data transfer and electric power supply are carried out wirelessly. In addition, the authors introduce a method for processing the received information which makes it possible to divide the measured acceleration into the angular and linear components. The design has been validated by the results of laboratory tests of an experimental model of the sensor. The study has shown that this method provides a definite separation of the measured acceleration into linear and angular components, even in noise. This research contributes an advance in the range of methods and tools for condition monitoring of mechanisms.

Testing 3D landform quantification methods with synthetic drumlins in a real digital elevation model

NASA Astrophysics Data System (ADS)

Hillier, John K.; Smith, Mike J.

2012-06-01

Metrics such as height and volume quantifying the 3D morphology of landforms are important observations that reflect and constrain Earth surface processes. Errors in such measurements are, however, poorly understood. A novel approach, using statistically valid ‘synthetic' landscapes to quantify the errors is presented. The utility of the approach is illustrated using a case study of 184 drumlins observed in Scotland as quantified from a Digital Elevation Model (DEM) by the ‘cookie cutter' extraction method. To create the synthetic DEMs, observed drumlins were removed from the measured DEM and replaced by elongate 3D Gaussian ones of equivalent dimensions positioned randomly with respect to the ‘noise' (e.g. trees) and regional trends (e.g. hills) that cause the errors. Then, errors in the cookie cutter extraction method were investigated by using it to quantify these ‘synthetic' drumlins, whose location and size is known. Thus, the approach determines which key metrics are recovered accurately. For example, mean height of 6.8 m is recovered poorly at 12.5 ± 0.6 (2σ) m, but mean volume is recovered correctly. Additionally, quantification methods can be compared: A variant on the cookie cutter using an un-tensioned spline induced about twice (× 1.79) as much error. Finally, a previously reportedly statistically significant (p = 0.007) difference in mean volume between sub-populations of different ages, which may reflect formational processes, is demonstrated to be only 30-50% likely to exist in reality. Critically, the synthetic DEMs are demonstrated to realistically model parameter recovery, primarily because they are still almost entirely the original landscape. Results are insensitive to the exact method used to create the synthetic DEMs, and the approach could be readily adapted to assess a variety of landforms (e.g. craters, dunes and volcanoes).

Uncertainty Analyses for Back Projection Methods

NASA Astrophysics Data System (ADS)

Zeng, H.; Wei, S.; Wu, W.

2017-12-01

So far few comprehensive error analyses for back projection methods have been conducted, although it is evident that high frequency seismic waves can be easily affected by earthquake depth, focal mechanisms and the Earth's 3D structures. Here we perform 1D and 3D synthetic tests for two back projection methods, MUltiple SIgnal Classification (MUSIC) (Meng et al., 2011) and Compressive Sensing (CS) (Yao et al., 2011). We generate synthetics for both point sources and finite rupture sources with different depths, focal mechanisms, as well as 1D and 3D structures in the source region. The 3D synthetics are generated through a hybrid scheme of Direct Solution Method and Spectral Element Method. Then we back project the synthetic data using MUSIC and CS. The synthetic tests show that the depth phases can be back projected as artificial sources both in space and time. For instance, for a source depth of 10km, back projection gives a strong signal 8km away from the true source. Such bias increases with depth, e.g., the error of horizontal location could be larger than 20km for a depth of 40km. If the array is located around the nodal direction of direct P-waves the teleseismic P-waves are dominated by the depth phases. Therefore, back projections are actually imaging the reflection points of depth phases more than the rupture front. Besides depth phases, the strong and long lasted coda waves due to 3D effects near trench can lead to additional complexities tested here. The strength contrast of different frequency contents in the rupture models also produces some variations to the back projection results. In the synthetic tests, MUSIC and CS derive consistent results. While MUSIC is more computationally efficient, CS works better for sparse arrays. In summary, our analyses indicate that the impact of various factors mentioned above should be taken into consideration when interpreting back projection images, before we can use them to infer the earthquake rupture physics.

Suitability of Synthetic Driving Profiles from Traffic Micro-Simulation for Real-World Energy Analysis: Preprint

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

Hou, Yunfei; Wood, Eric; Burton, Evan

A shift towards increased levels of driving automation is generally expected to result in improved safety and traffic congestion outcomes. However, little empirical data exists to estimate the impact that automated driving could have on energy consumption and greenhouse gas emissions. In the absence of empirical data on differences between drive cycles from present day vehicles (primarily operated by humans) and future vehicles (partially or fully operated by computers) one approach is to model both situations over identical traffic conditions. Such an exercise requires traffic micro-simulation to not only accurately model vehicle operation under high levels of automation, but alsomore » (and potentially more challenging) vehicle operation under present day human drivers. This work seeks to quantify the ability of a commercial traffic micro-simulation program to accurately model real-world drive cycles in vehicles operated primarily by humans in terms of driving speed, acceleration, and simulated fuel economy. Synthetic profiles from models of freeway and arterial facilities near Atlanta, Georgia, are compared to empirical data collected from real-world drivers on the same facilities. Empirical and synthetic drive cycles are then simulated in a powertrain efficiency model to enable comparison on the basis of fuel economy. Synthetic profiles from traffic micro-simulation were found to exhibit low levels of transient behavior relative to the empirical data. Even with these differences, the synthetic and empirical data in this study agree well in terms of driving speed and simulated fuel economy. The differences in transient behavior between simulated and empirical data suggest that larger stochastic contributions in traffic micro-simulation (relative to those present in the traffic micro-simulation tool used in this study) are required to fully capture the arbitrary elements of human driving. Interestingly, the lack of stochastic contributions from models of human drivers in this study did not result in a significant discrepancy between fuel economy simulations based on synthetic and empirical data; a finding with implications on the potential energy efficiency gains of automated vehicle technology.« less

Method for in-vivo synthetic aperture B-flow imaging

NASA Astrophysics Data System (ADS)

Jensen, Jorgen A.

2004-04-01

B-flow techniques introduced in commercial scanners have been useful is visualizing places of flow. The method is relatively independent of flow angle and can give a good perception of vessel location and turbulence. This paper introduces a technique for making a synthetic aperture B-flow system. Data is acquired over a number of pulse emissions, where a set of elements synthesizes a spherical wave and the received signal on all elements are acquired. The sequence is repeated and a full new image can always be formed from the last set of emissions, thus making the frame rate very high. The data is continuously available at all places in the image and any kind of echo canceling filter can therefore be used without the usual initialization problems. The B-flow images are then formed by displaying the gray level image after echo canceling. A fast moving scatterer will give a bright echo and slower moving scatterers will yield a dark echo. The approach is demonstrated through in-vivo images. A 128 elements 7 MHz probe with lambda pitch is used together with the RASMUS experimental scanner. Eleven elements are used per emission and the eight emissions are spread evenly over the 128 elements of the array. The signal received by the 64 elements closets to the emission are sampled at 40 MHz and 12 bits at a pulse repetition frequency of 3 kHz. A full second of data is acquired from a healthy 29 years old male volunteer from the carotid artery. The data is beamformed, combined, and echo canceled off-line. High-pass filters designed by the Remez exchange algorithm, have been used for the B-flow processing. The image is displayed after each set of emissions yielding 375 frames per second. Both the flow in the carotid artery and the jugular vein can be seen along with an indication of the acceleration and spatial variation of the velocity.

A nonparametric method to generate synthetic populations to adjust for complex sampling design features.

PubMed

Dong, Qi; Elliott, Michael R; Raghunathan, Trivellore E

2014-06-01

Outside of the survey sampling literature, samples are often assumed to be generated by a simple random sampling process that produces independent and identically distributed (IID) samples. Many statistical methods are developed largely in this IID world. Application of these methods to data from complex sample surveys without making allowance for the survey design features can lead to erroneous inferences. Hence, much time and effort have been devoted to develop the statistical methods to analyze complex survey data and account for the sample design. This issue is particularly important when generating synthetic populations using finite population Bayesian inference, as is often done in missing data or disclosure risk settings, or when combining data from multiple surveys. By extending previous work in finite population Bayesian bootstrap literature, we propose a method to generate synthetic populations from a posterior predictive distribution in a fashion inverts the complex sampling design features and generates simple random samples from a superpopulation point of view, making adjustment on the complex data so that they can be analyzed as simple random samples. We consider a simulation study with a stratified, clustered unequal-probability of selection sample design, and use the proposed nonparametric method to generate synthetic populations for the 2006 National Health Interview Survey (NHIS), and the Medical Expenditure Panel Survey (MEPS), which are stratified, clustered unequal-probability of selection sample designs.

A nonparametric method to generate synthetic populations to adjust for complex sampling design features

PubMed Central

Dong, Qi; Elliott, Michael R.; Raghunathan, Trivellore E.

2017-01-01

Outside of the survey sampling literature, samples are often assumed to be generated by a simple random sampling process that produces independent and identically distributed (IID) samples. Many statistical methods are developed largely in this IID world. Application of these methods to data from complex sample surveys without making allowance for the survey design features can lead to erroneous inferences. Hence, much time and effort have been devoted to develop the statistical methods to analyze complex survey data and account for the sample design. This issue is particularly important when generating synthetic populations using finite population Bayesian inference, as is often done in missing data or disclosure risk settings, or when combining data from multiple surveys. By extending previous work in finite population Bayesian bootstrap literature, we propose a method to generate synthetic populations from a posterior predictive distribution in a fashion inverts the complex sampling design features and generates simple random samples from a superpopulation point of view, making adjustment on the complex data so that they can be analyzed as simple random samples. We consider a simulation study with a stratified, clustered unequal-probability of selection sample design, and use the proposed nonparametric method to generate synthetic populations for the 2006 National Health Interview Survey (NHIS), and the Medical Expenditure Panel Survey (MEPS), which are stratified, clustered unequal-probability of selection sample designs. PMID:29200608

Electrochemical Deposition of Conformal and Functional Layers on High Aspect Ratio Silicon Micro/Nanowires.

PubMed

Ozel, Tuncay; Zhang, Benjamin A; Gao, Ruixuan; Day, Robert W; Lieber, Charles M; Nocera, Daniel G

2017-07-12

Development of new synthetic methods for the modification of nanostructures has accelerated materials design advances to furnish complex architectures. Structures based on one-dimensional (1D) silicon (Si) structures synthesized using top-down and bottom-up methods are especially prominent for diverse applications in chemistry, physics, and medicine. Yet further elaboration of these structures with distinct metal-based and polymeric materials, which could open up new opportunities, has been difficult. We present a general electrochemical method for the deposition of conformal layers of various materials onto high aspect ratio Si micro- and nanowire arrays. The electrochemical deposition of a library of coaxial layers comprising metals, metal oxides, and organic/inorganic semiconductors demonstrate the materials generality of the synthesis technique. Depositions may be performed on wire arrays with varying diameter (70 nm to 4 μm), pitch (5 μ to 15 μ), aspect ratio (4:1 to 75:1), shape (cylindrical, conical, hourglass), resistivity (0.001-0.01 to 1-10 ohm/cm 2 ), and substrate orientation. Anisotropic physical etching of wires with one or more coaxial shells yields 1D structures with exposed tips that can be further site-specifically modified by an electrochemical deposition approach. The electrochemical deposition methodology described herein features a wafer-scale synthesis platform for the preparation of multifunctional nanoscale devices based on a 1D Si substrate.

[3D visualization and analysis of vocal fold dynamics].

PubMed

Bohr, C; Döllinger, M; Kniesburges, S; Traxdorf, M

2016-04-01

Visual investigation methods of the larynx mainly allow for the two-dimensional presentation of the three-dimensional structures of the vocal fold dynamics. The vertical component of the vocal fold dynamics is often neglected, yielding a loss of information. The latest studies show that the vertical dynamic components are in the range of the medio-lateral dynamics and play a significant role within the phonation process. This work presents a method for future 3D reconstruction and visualization of endoscopically recorded vocal fold dynamics. The setup contains a high-speed camera (HSC) and a laser projection system (LPS). The LPS projects a regular grid on the vocal fold surfaces and in combination with the HSC allows a three-dimensional reconstruction of the vocal fold surface. Hence, quantitative information on displacements and velocities can be provided. The applicability of the method is presented for one ex-vivo human larynx, one ex-vivo porcine larynx and one synthetic silicone larynx. The setup introduced allows the reconstruction of the entire visible vocal fold surfaces for each oscillation status. This enables a detailed analysis of the three dimensional dynamics (i. e. displacements, velocities, accelerations) of the vocal folds. The next goal is the miniaturization of the LPS to allow clinical in-vivo analysis in humans. We anticipate new insight on dependencies between 3D dynamic behavior and the quality of the acoustic outcome for healthy and disordered phonation.

Microwave-assisted intramolecular dehydrogenative Diels-Alder reactions for the synthesis of functionalized naphthalenes/solvatochromic dyes.

PubMed

Kocsis, Laura S; Benedetti, Erica; Brummond, Kay M

2013-04-01

Functionalized naphthalenes have applications in a variety of research fields ranging from the synthesis of natural or biologically active molecules to the preparation of new organic dyes. Although numerous strategies have been reported to access naphthalene scaffolds, many procedures still present limitations in terms of incorporating functionality, which in turn narrows the range of available substrates. The development of versatile methods for direct access to substituted naphthalenes is therefore highly desirable. The Diels-Alder (DA) cycloaddition reaction is a powerful and attractive method for the formation of saturated and unsaturated ring systems from readily available starting materials. A new microwave-assisted intramolecular dehydrogenative DA reaction of styrenyl derivatives described herein generates a variety of functionalized cyclopenta[b]naphthalenes that could not be prepared using existing synthetic methods. When compared to conventional heating, microwave irradiation accelerates reaction rates, enhances yields, and limits the formation of undesired byproducts. The utility of this protocol is further demonstrated by the conversion of a DA cycloadduct into a novel solvatochromic fluorescent dye via a Buchwald-Hartwig palladium-catalyzed cross-coupling reaction. Fluorescence spectroscopy, as an informative and sensitive analytical technique, plays a key role in research fields including environmental science, medicine, pharmacology, and cellular biology. Access to a variety of new organic fluorophores provided by the microwave-assisted dehydrogenative DA reaction allows for further advancement in these fields.

Microwave-assisted Intramolecular Dehydrogenative Diels-Alder Reactions for the Synthesis of Functionalized Naphthalenes/Solvatochromic Dyes

PubMed Central

Kocsis, Laura S.; Benedetti, Erica; Brummond, Kay M.

2013-01-01

Functionalized naphthalenes have applications in a variety of research fields ranging from the synthesis of natural or biologically active molecules to the preparation of new organic dyes. Although numerous strategies have been reported to access naphthalene scaffolds, many procedures still present limitations in terms of incorporating functionality, which in turn narrows the range of available substrates. The development of versatile methods for direct access to substituted naphthalenes is therefore highly desirable. The Diels-Alder (DA) cycloaddition reaction is a powerful and attractive method for the formation of saturated and unsaturated ring systems from readily available starting materials. A new microwave-assisted intramolecular dehydrogenative DA reaction of styrenyl derivatives described herein generates a variety of functionalized cyclopenta[b]naphthalenes that could not be prepared using existing synthetic methods. When compared to conventional heating, microwave irradiation accelerates reaction rates, enhances yields, and limits the formation of undesired byproducts. The utility of this protocol is further demonstrated by the conversion of a DA cycloadduct into a novel solvatochromic fluorescent dye via a Buchwald-Hartwig palladium-catalyzed cross-coupling reaction. Fluorescence spectroscopy, as an informative and sensitive analytical technique, plays a key role in research fields including environmental science, medicine, pharmacology, and cellular biology. Access to a variety of new organic fluorophores provided by the microwave-assisted dehydrogenative DA reaction allows for further advancement in these fields. PMID:23609566

Phase walk analysis of leptokurtic time series.

PubMed

Schreiber, Korbinian; Modest, Heike I; Räth, Christoph

2018-06-01

The Fourier phase information play a key role for the quantified description of nonlinear data. We present a novel tool for time series analysis that identifies nonlinearities by sensitively detecting correlations among the Fourier phases. The method, being called phase walk analysis, is based on well established measures from random walk analysis, which are now applied to the unwrapped Fourier phases of time series. We provide an analytical description of its functionality and demonstrate its capabilities on systematically controlled leptokurtic noise. Hereby, we investigate the properties of leptokurtic time series and their influence on the Fourier phases of time series. The phase walk analysis is applied to measured and simulated intermittent time series, whose probability density distribution is approximated by power laws. We use the day-to-day returns of the Dow-Jones industrial average, a synthetic time series with tailored nonlinearities mimicing the power law behavior of the Dow-Jones and the acceleration of the wind at an Atlantic offshore site. Testing for nonlinearities by means of surrogates shows that the new method yields strong significances for nonlinear behavior. Due to the drastically decreased computing time as compared to embedding space methods, the number of surrogate realizations can be increased by orders of magnitude. Thereby, the probability distribution of the test statistics can very accurately be derived and parameterized, which allows for much more precise tests on nonlinearities.

Promoter and Terminator Discovery and Engineering.

PubMed

Deaner, Matthew; Alper, Hal S

Control of gene expression is crucial to optimize metabolic pathways and synthetic gene networks. Promoters and terminators are stretches of DNA upstream and downstream (respectively) of genes that control both the rate at which the gene is transcribed and the rate at which mRNA is degraded. As a result, both of these elements control net protein expression from a synthetic construct. Thus, it is highly important to discover and engineer promoters and terminators with desired characteristics. This chapter highlights various approaches taken to catalogue these important synthetic elements. Specifically, early strategies have focused largely on semi-rational techniques such as saturation mutagenesis to diversify native promoters and terminators. Next, in an effort to reduce the length of the synthetic biology design cycle, efforts in the field have turned towards the rational design of synthetic promoters and terminators. In this vein, we cover recently developed methods such as hybrid engineering, high throughput characterization, and thermodynamic modeling which allow finer control in the rational design of novel promoters and terminators. Emphasis is placed on the methodologies used and this chapter showcases the utility of these methods across multiple host organisms.

Simultaneous non-contiguous deletions using large synthetic DNA and site-specific recombinases

PubMed Central

Krishnakumar, Radha; Grose, Carissa; Haft, Daniel H.; Zaveri, Jayshree; Alperovich, Nina; Gibson, Daniel G.; Merryman, Chuck; Glass, John I.

2014-01-01

Toward achieving rapid and large scale genome modification directly in a target organism, we have developed a new genome engineering strategy that uses a combination of bioinformatics aided design, large synthetic DNA and site-specific recombinases. Using Cre recombinase we swapped a target 126-kb segment of the Escherichia coli genome with a 72-kb synthetic DNA cassette, thereby effectively eliminating over 54 kb of genomic DNA from three non-contiguous regions in a single recombination event. We observed complete replacement of the native sequence with the modified synthetic sequence through the action of the Cre recombinase and no competition from homologous recombination. Because of the versatility and high-efficiency of the Cre-lox system, this method can be used in any organism where this system is functional as well as adapted to use with other highly precise genome engineering systems. Compared to present-day iterative approaches in genome engineering, we anticipate this method will greatly speed up the creation of reduced, modularized and optimized genomes through the integration of deletion analyses data, transcriptomics, synthetic biology and site-specific recombination. PMID:24914053

Stability of Permanent Magnets,

DTIC Science & Technology

1984-03-06

temperature. The effect of impacts, vibrations and external magnetic fields in less detail is illuminated. The new, accelerated methods of the study of...accelerated methods, developed by the author of the study of the stability of magnets and systems, which do not require prolonged time intervais...the accelerated methods proposed to them of the study of the stability of magnets will contribute to the accumulation of experimental results and to

Data volume reduction for imaging radar polarimetry

NASA Technical Reports Server (NTRS)

Zebker, Howard A. (Inventor); Held, Daniel N. (Inventor); Vanzyl, Jakob J. (Inventor); Dubois, Pascale C. (Inventor); Norikane, Lynne (Inventor)

1988-01-01

Two alternative methods are presented for digital reduction of synthetic aperture multipolarized radar data using scattering matrices, or using Stokes matrices, of four consecutive along-track pixels to produce averaged data for generating a synthetic polarization image.

Data volume reduction for imaging radar polarimetry

NASA Technical Reports Server (NTRS)

Zebker, Howard A. (Inventor); Held, Daniel N. (Inventor); van Zul, Jakob J. (Inventor); Dubois, Pascale C. (Inventor); Norikane, Lynne (Inventor)

1989-01-01

Two alternative methods are disclosed for digital reduction of synthetic aperture multipolarized radar data using scattering matrices, or using Stokes matrices, of four consecutive along-track pixels to produce averaged data for generating a synthetic polarization image.

Accelerated aging: prediction of chemical stability of pharmaceuticals.

PubMed

Waterman, Kenneth C; Adami, Roger C

2005-04-11

Methods of rapidly and accurately assessing the chemical stability of pharmaceutical dosage forms are reviewed with respect to the major degradation mechanisms generally observed in pharmaceutical development. Methods are discussed, with the appropriate caveats, for accelerated aging of liquid and solid dosage forms, including small and large molecule active pharmaceutical ingredients. In particular, this review covers general thermal methods, as well as accelerated aging methods appropriate to oxidation, hydrolysis, reaction with reactive excipient impurities, photolysis and protein denaturation.

[Simultaneous determination of six synthetic sweeteners in food by high performance liquid chromatography-tandem mass spectrometry].

PubMed

Liu, Xiaoxi; Ding, Li; Liu, Jinxia; Zhang, Ying; Huang, Zhiqiang; Wang, Libing; Chen, Bo

2010-11-01

A simple and sensitive method for the determination of six synthetic sweeteners (sodium cyclamate, saccharin sodium, acesulfame-K, aspartame, alitame and neotame) in food was developed. The synthetic sweeteners were extracted by methanol-water (1 : 1, v/v). The extract was separated on a C18 column using 0.1% (v/v) formic acid-5 mmol/L ammonium formate/acetonitrile as mobile phase, and then detected by high performance liquid chromatography-tandem mass spectrometry (HPLC-MS/MS) using multiple reaction monitoring (MRM) mode. The good linearities (r > 0.998) were achieved for all the analytes over the range of 20-500 microg/L. The recoveries obtained ranged from 81.3% to 106.0% at three spiked concentrations, with the relative standard deviations lower than 11%. The established method has been successfully applied to the determination of synthetic sweeteners in food.

Light Activated Cell Migration in Synthetic Extracellular Matrices

PubMed Central

Guo, Qiongyu; Wang, Xiaobo; Tibbitt, Mark W.; Anseth, Kristi S.; Montell, Denise J.; Elisseeff, Jennifer H.

2012-01-01

Synthetic extracellular matrices provide a framework in which cells can be exposed to defined physical and biological cues. However no method exists to manipulate single cells within these matrices. It is desirable to develop such methods in order to understand fundamental principles of cell migration and define conditions that support or inhibit cell movement within these matrices. Here, we present a strategy for manipulating individual mammalian stem cells in defined synthetic hydrogels through selective optical activation of Rac, which is an intracellular signaling protein that plays a key role in cell migration. Photoactivated cell migration in synthetic hydrogels depended on mechanical and biological cues in the biomaterial. Real-time hydrogel photodegradation was employed to create geometrically defined channels and spaces in which cells could be photoactivated to migrate. Cell migration speed was significantly higher in the photo-etched channels and cells could easily change direction of movement compared to the bulk hydrogels. PMID:22889487

Data Analysis Methods for Synthetic Polymer Mass Spectrometry: Autocorrelation

PubMed Central

Wallace, William E.; Guttman, Charles M.

2002-01-01

Autocorrelation is shown to be useful in describing the periodic patterns found in high- resolution mass spectra of synthetic polymers. Examples of this usefulness are described for a simple linear homopolymer to demonstrate the method fundamentals, a condensation polymer to demonstrate its utility in understanding complex spectra with multiple repeating patterns on different mass scales, and a condensation copolymer to demonstrate how it can elegantly and efficiently reveal unexpected phenomena. It is shown that using autocorrelation to determine where the signal devolves into noise can be useful in determining molecular mass distributions of synthetic polymers, a primary focus of the NIST synthetic polymer mass spectrometry effort. The appendices describe some of the effects of transformation from time to mass space when time-of-flight mass separation is used, as well as the effects of non-trivial baselines on the autocorrelation function. PMID:27446716

ACCELERATION AND THE GIFTED.

ERIC Educational Resources Information Center

GIBSON, ARTHUR R.; STEPHANS, THOMAS M.

ACCELERATION OF PUPILS AND SUBJECTS IS CONSIDERED A MEANS OF EDUCATING THE ACADEMICALLY GIFTED STUDENT. FIVE INTRODUCTORY ARTICLES PROVIDE A FRAMEWORK FOR THINKING ABOUT ACCELERATION. FIVE PROJECT REPORTS OF ACCELERATED PROGRAMS IN OHIO ARE INCLUDED. ACCELERATION IS NOW BEING REGARDED MORE FAVORABLY THAN FORMERLY, BECAUSE METHODS HAVE BEEN…

Estimation of seismic quality factor: Artificial neural networks and current approaches

NASA Astrophysics Data System (ADS)

Yıldırım, Eray; Saatçılar, Ruhi; Ergintav, Semih

2017-01-01

The aims of this study are to estimate soil attenuation using alternatives to traditional methods, to compare results of using these methods, and to examine soil properties using the estimated results. The performances of all methods, amplitude decay, spectral ratio, Wiener filter, and artificial neural network (ANN) methods, are examined on field and synthetic data with noise and without noise. High-resolution seismic reflection field data from Yeniköy (Arnavutköy, İstanbul) was used as field data, and 424 estimations of Q values were made for each method (1,696 total). While statistical tests on synthetic and field data are quite close to the Q value estimation results of ANN, Wiener filter, and spectral ratio methods, the amplitude decay methods showed a higher estimation error. According to previous geological and geophysical studies in this area, the soil is water-saturated, quite weak, consisting of clay and sandy units, and, because of current and past landslides in the study area and its vicinity, researchers reported heterogeneity in the soil. Under the same physical conditions, Q value calculated on field data can be expected to be 7.9 and 13.6. ANN models with various structures, training algorithm, input, and number of neurons are investigated. A total of 480 ANN models were generated consisting of 60 models for noise-free synthetic data, 360 models for different noise content synthetic data and 60 models to apply to the data collected in the field. The models were tested to determine the most appropriate structure and training algorithm. In the final ANN, the input vectors consisted of the difference of the width, energy, and distance of seismic traces, and the output was Q value. Success rate of both ANN methods with noise-free and noisy synthetic data were higher than the other three methods. Also according to the statistical tests on estimated Q value from field data, the method showed results that are more suitable. The Q value can be estimated practically and quickly by processing the traces with the recommended ANN model. Consequently, the ANN method could be used for estimating Q value from seismic data.

Numerically correcting the joint misplacement of the sub-holograms in spatial synthetic aperture digital Fresnel holography.

PubMed

Jiang, Hongzhen; Zhao, Jianlin; Di, Jianglei; Qin, Chuan

2009-10-12

We propose an effective reconstruction method for correcting the joint misplacement of the sub-holograms caused by the displacement error of CCD in spatial synthetic aperture digital Fresnel holography. For every two adjacent sub-holograms along the motion path of CCD, we reconstruct the corresponding holographic images under different joint distances between the sub-holograms and then find out the accurate joint distance by evaluating the quality of the corresponding synthetic reconstructed images. Then the accurate relative position relationships of the sub-holograms can be confirmed according to all of the identified joint distances, with which the accurate synthetic reconstructed image can be obtained by superposing the reconstruction results of the sub-holograms. The numerical reconstruction results are in agreement with the theoretical analysis. Compared with the traditional reconstruction method, this method could be used to not only correct the joint misplacement of the sub-holograms without the limitation of the actually overlapping circumstances of the adjacent sub-holograms, but also make the joint precision of the sub-holograms reach sub-pixel accuracy.

A THERMODYNAMIC ANALYSIS OF HIGH ENERGY SYNTHETIC FOODS.

DTIC Science & Technology

An analysis is presented of the possibilities of incorporating synthetic foods into the diets of personnel engaged in long duration, manned space...appropriate substitutes for the lower energy carbohydrates that normally make up approximately 50 percent of the diet . Various classes or organic...synthetic alpha-amino acids and their peptides of chain lengths in excess of that found in leucine. Methods of reducing possible ketogenic effects are discussed. (Author)

Process for gasification using a synthetic CO.sub.2 acceptor

DOEpatents

Lancet, Michael S.; Curran, George P.

1980-01-01

A gasification process is disclosed using a synthetic CO.sub.2 acceptor consisting essentially of at least one compound selected from the group consisting of calcium oxide and calcium carbonate supported in a refractory carrier matrix, the carrier having the general formula Ca.sub.5 (SiO.sub.4).sub.2 CO.sub.3. A method for producing the synthetic CO.sub.2 acceptor is also disclosed.

Using Method of Instruction to Predict the Skills Supporting Initial Reading Development: Insight from a Synthetic Phonics Approach

ERIC Educational Resources Information Center

McGeown, Sarah P.; Medford, Emma

2014-01-01

This study examined the skills predicting early reading development when children were taught by a synthetic phonics approach. Eighty five children taught to read by systematic synthetic phonics were assessed on reading and cognitive assessments prior to reading instruction (average age 4 years, 7 months), 6 months later (5 years, 1 month), and 73…

Disclosure control using partially synthetic data for large-scale health surveys, with applications to CanCORS.

PubMed

Loong, Bronwyn; Zaslavsky, Alan M; He, Yulei; Harrington, David P

2013-10-30

Statistical agencies have begun to partially synthesize public-use data for major surveys to protect the confidentiality of respondents' identities and sensitive attributes by replacing high disclosure risk and sensitive variables with multiple imputations. To date, there are few applications of synthetic data techniques to large-scale healthcare survey data. Here, we describe partial synthesis of survey data collected by the Cancer Care Outcomes Research and Surveillance (CanCORS) project, a comprehensive observational study of the experiences, treatments, and outcomes of patients with lung or colorectal cancer in the USA. We review inferential methods for partially synthetic data and discuss selection of high disclosure risk variables for synthesis, specification of imputation models, and identification disclosure risk assessment. We evaluate data utility by replicating published analyses and comparing results using original and synthetic data and discuss practical issues in preserving inferential conclusions. We found that important subgroup relationships must be included in the synthetic data imputation model, to preserve the data utility of the observed data for a given analysis procedure. We conclude that synthetic CanCORS data are suited best for preliminary data analyses purposes. These methods address the requirement to share data in clinical research without compromising confidentiality. Copyright © 2013 John Wiley & Sons, Ltd.

Study of strength kinetics of sand concrete system of accelerated hardening

NASA Astrophysics Data System (ADS)

Sharanova, A. V.; Lenkova, D. A.; Panfilova, A. D.

2018-04-01

Methods of calorimetric analysis are used to study the dynamics of the hydration processes of concretes with different accelerator contents. The efficiency of the isothermal calorimetry method is shown for study of strength kinetics of concrete mixtures of accelerated hardening, promising for additive technologies in civil engineering.

The properties of an ion selective enzymatic asymmetric synthetic membrane.

NASA Technical Reports Server (NTRS)

Mitz, M. A.

1971-01-01

With the aid of a simple model membrane system, the properties of cellulose enzymes and of membrane selectivity and pump-like action are considered. The model is based on materials possibly present on a primitive earth, as well as on a membrane able to sort or concentrate these materials. An overview of the model membrane system is presented in terms of how it is constructed, what its properties are, and what to expect in performance characteristics. The model system is shown to be useful for studying the selective and in some cases accelerated transfer of nutrients and metabolites.

Fluorescence background removal method for biological Raman spectroscopy based on empirical mode decomposition.

PubMed

Leon-Bejarano, Maritza; Dorantes-Mendez, Guadalupe; Ramirez-Elias, Miguel; Mendez, Martin O; Alba, Alfonso; Rodriguez-Leyva, Ildefonso; Jimenez, M

2016-08-01

Raman spectroscopy of biological tissue presents fluorescence background, an undesirable effect that generates false Raman intensities. This paper proposes the application of the Empirical Mode Decomposition (EMD) method to baseline correction. EMD is a suitable approach since it is an adaptive signal processing method for nonlinear and non-stationary signal analysis that does not require parameters selection such as polynomial methods. EMD performance was assessed through synthetic Raman spectra with different signal to noise ratio (SNR). The correlation coefficient between synthetic Raman spectra and the recovered one after EMD denoising was higher than 0.92. Additionally, twenty Raman spectra from skin were used to evaluate EMD performance and the results were compared with Vancouver Raman algorithm (VRA). The comparison resulted in a mean square error (MSE) of 0.001554. High correlation coefficient using synthetic spectra and low MSE in the comparison between EMD and VRA suggest that EMD could be an effective method to remove fluorescence background in biological Raman spectra.

Correlated histogram representation of Monte Carlo derived medical accelerator photon-output phase space

DOEpatents

Schach Von Wittenau, Alexis E.

2003-01-01

A method is provided to represent the calculated phase space of photons emanating from medical accelerators used in photon teletherapy. The method reproduces the energy distributions and trajectories of the photons originating in the bremsstrahlung target and of photons scattered by components within the accelerator head. The method reproduces the energy and directional information from sources up to several centimeters in radial extent, so it is expected to generalize well to accelerators made by different manufacturers. The method is computationally both fast and efficient overall sampling efficiency of 80% or higher for most field sizes. The computational cost is independent of the number of beams used in the treatment plan.

Detecting sea-level hazards: Simple regression-based methods for calculating the acceleration of sea level

USGS Publications Warehouse

Doran, Kara S.; Howd, Peter A.; Sallenger,, Asbury H.

2016-01-04

Recent studies, and most of their predecessors, use tide gage data to quantify SL acceleration, ASL(t). In the current study, three techniques were used to calculate acceleration from tide gage data, and of those examined, it was determined that the two techniques based on sliding a regression window through the time series are more robust compared to the technique that fits a single quadratic form to the entire time series, particularly if there is temporal variation in the magnitude of the acceleration. The single-fit quadratic regression method has been the most commonly used technique in determining acceleration in tide gage data. The inability of the single-fit method to account for time-varying acceleration may explain some of the inconsistent findings between investigators. Properly quantifying ASL(t) from field measurements is of particular importance in evaluating numerical models of past, present, and future SLR resulting from anticipated climate change.

Development of synthetic nuclear melt glass for forensic analysis.

PubMed

Molgaard, Joshua J; Auxier, John D; Giminaro, Andrew V; Oldham, C J; Cook, Matthew T; Young, Stephen A; Hall, Howard L

A method for producing synthetic debris similar to the melt glass produced by nuclear surface testing is demonstrated. Melt glass from the first nuclear weapon test (commonly referred to as trinitite) is used as the benchmark for this study. These surrogates can be used to simulate a variety of scenarios and will serve as a tool for developing and validating forensic analysis methods.

A comprehensive library-based, automated screening procedure for 46 synthetic cannabinoids in serum employing liquid chromatography-quadrupole ion trap mass spectrometry with high-temperature electrospray ionization.

PubMed

Huppertz, Laura M; Kneisel, Stefan; Auwärter, Volker; Kempf, Jürgen

2014-02-01

Considering the vast variety of synthetic cannabinoids and herbal mixtures - commonly known as 'Spice' or 'K2' - on the market and the resulting increase of severe intoxications related to their consumption, there is a need in clinical and forensic toxicology for comprehensive up-to-date screening methods. The focus of this project aimed at developing and implementing an automated screening procedure for the detection of synthetic cannabinoids in serum using a liquid chromatography-ion trap-MS (LC-MS(n)) system and a spectra library-based approach, currently including 46 synthetic cannabinoids and 8 isotope labelled analogues. In the process of method development, a high-temperature ESI source (IonBooster(TM), Bruker Daltonik) and its effects on the ionization efficiency of the investigated synthetic cannabinoids were evaluated and compared to a conventional ESI source. Despite their structural diversity, all investigated synthetic cannabinoids benefitted from high-temperature ionization by showing remarkably higher MS intensities compared to conventional ESI. The employed search algorithm matches retention time, MS and MS(2)/MS(3) spectra. With the utilization of the ionBooster source, limits for the automated detection comparable to cut-off values of routine MRM methods were achieved for the majority of analytes. Even compounds not identified when using a conventional ESI source were detected using the ionBooster-source. LODs in serum range from 0.1 ng/ml to 0.5 ng/ml. The use of parent compounds as analytical targets offers the possibility of instantly adding new emerging compounds to the library and immediately applying the updated method to serum samples, allowing the rapid adaptation of the screening method to ongoing forensic or clinical requirements. The presented approach can also be applied to other specimens, such as oral fluid or hair, and herbal mixtures and was successfully applied to authentic serum samples. Quantitative MRM results of samples with analyte concentrations above the determined LOD were confirmed as positive findings by the presented method. Copyright © 2014 John Wiley & Sons, Ltd.

Capillary electrophoretic analysis of synthetic short-chain oligoribonucleotides.

PubMed

Cellai, L; Onori, A M; Desiderio, C; Fanali, S

1998-12-01

Thirty synthetic oligoribonucleotides, 3 to 18 nucleotides (nt) long, were analyzed by capillary electrophoresis, under nondenaturing conditions, using a commercial kit. The migration time t(m) was dependent on nt length and composition, capillary length, operating temperature, and type of sieving polymer. Under fixed experimental conditions, the t(m) proved predictable by the equation: t(m) = [0.22(n-1) + 6.14A/n + 6.86G/n + 3.61 (C+U)/n] min, for n>3, where A/n, G/n, C/n, U/n is the frequency of each type of nt within the oligonucleotide (ONT). The equation accounts for the influence of charge-to-mass ratio on t(m), but not for structural effects, if present. This approximation is acceptable for short ONTs. The possibility of detecting n+1, n-1, n-2 impurities, having predicted the t(m), is of crucial importance in assessing the purity of synthetic ONTs dedicated to structural studies. This appears to be feasible. High resolution was shown among homologous series of ONTs of increasing length, and in some cases, even within groups of ONTs of the same length but different composition. The addition of 7 M urea to the buffer, as denaturing agent, accelerates the t(m) and significantly lowers the resolution for the shortest ONTs. It was also possible to monitor the state of association of mixtures of RNA and DNA sequence-complementary strands.

In vivo analysis of biocompatibility and vascularization of the synthetic bone grafting substitute NanoBone.

PubMed

Abshagen, K; Schrodi, I; Gerber, T; Vollmar, B

2009-11-01

One of the major challenges in the application of bone substitutes is adequate vascularization and biocompatibility of the implant. Thus, the temporal course of neovascularization and the microvascular inflammatory response of implants of NanoBone (fully synthetic nanocrystalline bone grafting material) were studied in vivo by using the mouse dorsal skinfold chamber model. Angiogenesis, microhemodynamics, and leukocyte-endothelial cell interaction were analyzed repetitively after implantation in the center and in the border zone of the implant up to 15 days. Both NanoBone granules and plates exhibited high biocompatibility comparable to that of cancellous bone, as indicated by a lack of venular leukocyte activation after implantation. In both synthetic NanoBone groups, signs of angiogenesis could be observed even at day 5 after implantation, whereas granules showed higher functional vessel density compared with NanoBone plates. The angiogenic response of the cancellous bone was markedly accelerated in the center of the implant tissue. Histologically, implant tissue showed an ingrowth of vascularized fibrous tissue into the material combined with an increased number of foreign-body giant cells. In conclusion, NanoBone, particularly in granular form, showed high biocompatibility and high angiogenic response, thus improving the healing of bone defects. Our results underline that, beside the composition and nanostructure, the macrostructure is also of importance for the incorporation of the biomaterial by the host tissue. (c) 2008 Wiley Periodicals, Inc.

Type IIP supernova light curves affected by the acceleration of red supergiant winds

NASA Astrophysics Data System (ADS)

Moriya, Takashi J.; Förster, Francisco; Yoon, Sung-Chul; Gräfener, Götz; Blinnikov, Sergei I.

2018-05-01

We introduce the first synthetic light-curve model set of Type IIP supernovae exploded within circumstellar media in which the acceleration of the red supergiant winds is taken into account. Because wind acceleration makes the wind velocities near the progenitors low, the density of the immediate vicinity of the red supergiant supernova progenitors can be higher than that extrapolated by using a constant terminal wind velocity. Therefore, even if the mass-loss rate of the progenitor is relatively low, it can have a dense circumstellar medium at the immediate stellar vicinity and the early light curves of Type IIP supernovae are significantly affected by it. We adopt a simple β velocity law to formulate the wind acceleration. We provide bolometric and multicolour light curves of Type IIP supernovae exploding within such accelerated winds from the combinations of three progenitors, 12-16 M⊙; five β, 1-5; seven mass-loss rates, 10-5-10-2 M⊙ yr-1; and four explosion energies, (0.5-2) × 1051 erg. All the light-curve models are available at https://goo.gl/o5phYb. When the circumstellar density is sufficiently high, our models do not show a classical shock breakout as a consequence of the interaction with the dense and optically thick circumstellar media. Instead, they show a delayed `wind breakout', substantially affecting early light curves of Type IIP supernovae. We find that the mass-loss rates of the progenitors need to be 10-3-10-2 M⊙ yr-1 to explain typical rise times of 5-10 d in Type IIP supernovae assuming a dense circumstellar radius of 1015 cm.

In Vitro Studies on a Microfluidic Sensor with Embedded Obstacles Using New Antibacterial Synthetic Compounds (1-TDPPO) Mixed Prop-2-en-1-one with Difluoro Phenyl.

PubMed

Roh, Changhyun; Lee, Jaewoong; Kinger, Mayank; Kang, Chankyu

2017-04-08

This paper describes the use of an analytical microfluidic sensor for accelerating chemo-repellent response and strong anti-bacterial 1-(Thien-2-yl)-3-(2, 6-difluoro phenyl) prop-2-en-1-one (1-TDPPO). The chemically-synthesized antimicrobial agent, which included prop-2-en-1-one and difluoro phenyl groups, was moving through an optically transparent polydimethylsiloxane (PDMS) microfluidic sensor with circular obstacles arranged evenly. The response, growth and distribution of fluorescent labeling Pseudomonas aeruginosa PAO1 against the antimicrobial agent were monitored by confocal laser scanning microscope (CLSM). The microfluidic sensor along with 1-TDPPOin this study exhibits the following advantages: (i) Real-time chemo-repellent responses of cell dynamics; (ii) Rapid eradication of biofilm by embedded obstacles and powerful antibacterial agents, which significantly reduce the response time compared to classical methods; (iii) Minimal consumption of cells and antimicrobial agents; and (iv) Simplifying the process of the normalization of the fluorescence intensity and monitoring of biofilm by captured images and datasets.

Synseed technology-a complete synthesis.

PubMed

Sharma, Shiwali; Shahzad, Anwar; Teixeira da Silva, Jaime A

2013-01-01

Progress in biotechnological research over the last two decades has provided greater scope for the improvement of crops, forest trees and other important plant species. Plant propagation using synthetic seeds has opened new vistas in the field of agriculture. Synseed technology is a highly promising tool for the management of transgenic and seedless plant species, polyploid plants with elite traits and plant lines that are difficult to propagate through conventional propagation methods. Delivery of synseeds also alleviates issues like undertaking several passages for scaling up in vitro cultures as well as acclimatization to ex vitro conditions. Optimization of synchronized propagule development followed by automation of the whole process (sorting, harvesting, encapsulation and conversion) can enhance the pace of synseed production. Cryopreservation of encapsulated germplasm has now been increasingly used as an ex vitro conservation tool with the possible minimization of adverse effects of cryoprotectants and post-preservation damages. Through synseed technology, germplasm exchange between countries could be accelerated as a result of reduced plant quarantine requirements because of the aseptic condition of the plant material. Copyright © 2012 Elsevier Inc. All rights reserved.

Fast grasping of unknown objects using cylinder searching on a single point cloud

NASA Astrophysics Data System (ADS)

Lei, Qujiang; Wisse, Martijn

2017-03-01

Grasping of unknown objects with neither appearance data nor object models given in advance is very important for robots that work in an unfamiliar environment. The goal of this paper is to quickly synthesize an executable grasp for one unknown object by using cylinder searching on a single point cloud. Specifically, a 3D camera is first used to obtain a partial point cloud of the target unknown object. An original method is then employed to do post treatment on the partial point cloud to minimize the uncertainty which may lead to grasp failure. In order to accelerate the grasp searching, surface normal of the target object is then used to constrain the synthetization of the cylinder grasp candidates. Operability analysis is then used to select out all executable grasp candidates followed by force balance optimization to choose the most reliable grasp as the final grasp execution. In order to verify the effectiveness of our algorithm, Simulations on a Universal Robot arm UR5 and an under-actuated Lacquey Fetch gripper are used to examine the performance of this algorithm, and successful results are obtained.

High-speed technique based on a parallel projection correlation procedure for digital image correlation

NASA Astrophysics Data System (ADS)

Zaripov, D. I.; Renfu, Li

2018-05-01

The implementation of high-efficiency digital image correlation methods based on a zero-normalized cross-correlation (ZNCC) procedure for high-speed, time-resolved measurements using a high-resolution digital camera is associated with big data processing and is often time consuming. In order to speed-up ZNCC computation, a high-speed technique based on a parallel projection correlation procedure is proposed. The proposed technique involves the use of interrogation window projections instead of its two-dimensional field of luminous intensity. This simplification allows acceleration of ZNCC computation up to 28.8 times compared to ZNCC calculated directly, depending on the size of interrogation window and region of interest. The results of three synthetic test cases, such as a one-dimensional uniform flow, a linear shear flow and a turbulent boundary-layer flow, are discussed in terms of accuracy. In the latter case, the proposed technique is implemented together with an iterative window-deformation technique. On the basis of the results of the present work, the proposed technique is recommended to be used for initial velocity field calculation, with further correction using more accurate techniques.

Automatic Assignment of Methyl-NMR Spectra of Supramolecular Machines Using Graph Theory.

PubMed

Pritišanac, Iva; Degiacomi, Matteo T; Alderson, T Reid; Carneiro, Marta G; Ab, Eiso; Siegal, Gregg; Baldwin, Andrew J

2017-07-19

Methyl groups are powerful probes for the analysis of structure, dynamics and function of supramolecular assemblies, using both solution- and solid-state NMR. Widespread application of the methodology has been limited due to the challenges associated with assigning spectral resonances to specific locations within a biomolecule. Here, we present Methyl Assignment by Graph Matching (MAGMA), for the automatic assignment of methyl resonances. A graph matching protocol examines all possibilities for each resonance in order to determine an exact assignment that includes a complete description of any ambiguity. MAGMA gives 100% accuracy in confident assignments when tested against both synthetic data, and 9 cross-validated examples using both solution- and solid-state NMR data. We show that this remarkable accuracy enables a user to distinguish between alternative protein structures. In a drug discovery application on HSP90, we show the method can rapidly and efficiently distinguish between possible ligand binding modes. By providing an exact and robust solution to methyl resonance assignment, MAGMA can facilitate significantly accelerated studies of supramolecular machines using methyl-based NMR spectroscopy.

Automated Software Acceleration in Programmable Logic for an Efficient NFFT Algorithm Implementation: A Case Study.

PubMed

Rodríguez, Manuel; Magdaleno, Eduardo; Pérez, Fernando; García, Cristhian

2017-03-28

Non-equispaced Fast Fourier transform (NFFT) is a very important algorithm in several technological and scientific areas such as synthetic aperture radar, computational photography, medical imaging, telecommunications, seismic analysis and so on. However, its computation complexity is high. In this paper, we describe an efficient NFFT implementation with a hardware coprocessor using an All-Programmable System-on-Chip (APSoC). This is a hybrid device that employs an Advanced RISC Machine (ARM) as Processing System with Programmable Logic for high-performance digital signal processing through parallelism and pipeline techniques. The algorithm has been coded in C language with pragma directives to optimize the architecture of the system. We have used the very novel Software Develop System-on-Chip (SDSoC) evelopment tool that simplifies the interface and partitioning between hardware and software. This provides shorter development cycles and iterative improvements by exploring several architectures of the global system. The computational results shows that hardware acceleration significantly outperformed the software based implementation.

Automated Software Acceleration in Programmable Logic for an Efficient NFFT Algorithm Implementation: A Case Study

PubMed Central

Rodríguez, Manuel; Magdaleno, Eduardo; Pérez, Fernando; García, Cristhian

2017-01-01

Non-equispaced Fast Fourier transform (NFFT) is a very important algorithm in several technological and scientific areas such as synthetic aperture radar, computational photography, medical imaging, telecommunications, seismic analysis and so on. However, its computation complexity is high. In this paper, we describe an efficient NFFT implementation with a hardware coprocessor using an All-Programmable System-on-Chip (APSoC). This is a hybrid device that employs an Advanced RISC Machine (ARM) as Processing System with Programmable Logic for high-performance digital signal processing through parallelism and pipeline techniques. The algorithm has been coded in C language with pragma directives to optimize the architecture of the system. We have used the very novel Software Develop System-on-Chip (SDSoC) evelopment tool that simplifies the interface and partitioning between hardware and software. This provides shorter development cycles and iterative improvements by exploring several architectures of the global system. The computational results shows that hardware acceleration significantly outperformed the software based implementation. PMID:28350358

Proceedings of Synthetic Biology: Engineering, Evolution and Design (SEED) Conference 2015

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

Silver, Pamela; Flach, Evan

Synthetic Biology is an emerging discipline that seeks to accelerate the process of engineering biology. As such, the tools are broadly applicable to application areas, including chemicals and biofuels, materials, medicine and agriculture. A characteristic of the field is to look holistically at cellular design, from sensing and genetic circuitry to the manipulation of cellular processes and actuators, to controlling metabolism, to programming multicellular behaviors. Further, the types of cells that are manipulated are broad, from in vitro systems to microbes and fungi to mammalian and plant cells and living animals. Many of the projects in synthetic biology seek tomore » move biochemical functions across organisms. The field is highly interdisciplinary with faculty and students spread across departments that focus on engineering (biological, chemical, electrical, mechanical, civil, computer science) and basic science (biology and systems biology, chemistry, physics). While there have been many one-off workshops and meeting on synthetic biology, the 2014 Synthetic Biology: Engineering, Evolution and Design (SEED) was the first of an annual conference series that serves as a reliable place to pull together the involved disciplines in order to organize and exchange advances in the science and technology in the field. Further, the SEED conferences have a strong focus on industry, with many companies represented and actively participating. A number of these companies have started major efforts in synthetic biology including large companies (e.g., Pfizer, Novartis, Dow, Dupont, BP, Total), smaller companies have recently gone public (e.g., Amyris, Gevo, Intrexon), and many start-ups (e.g., Teslagen, Refactored Materials, Pivot, Genomatica). There are a number of loosely affiliated Synthetic Biology Centers, including ones at MIT, Boston University, UCSD, UCSF, UC-Berkeley, Imperial College, Oxford, and ETH. SEED 2015 will serve as the primary meeting at which international synthetic biology centers and related infrastructure (synthesis/software/foundries) meet to discuss technology, standards, and education. SEED2015 will be the second in an annual series of meeting held to bring researchers from industry and academia in the area of Synthetic Biology. The first SEED conference was highly successful, attracting 285 attendees with varying backgrounds from academia, industry and government. The SEED series provides leadership in the development of the field of synthetic biology and serves to broaden the participants in the field by appealing to broad sectors in industry and providing a means for young investigators and those outside of the field to participate. Further, the series closely integrates with groups such as the SBCC to provide a means by which the synthetic biology community can communicate with policy makers. Further, we will pursue making the meeting the center for the exchange of educational materials as centers for synthetic biology emerge globally. Proceedings will be published each year in the journal ACS Synthetic Biology. After each SEED meeting, surveys are distributed to assess the success of the conference and to help guide changes year-to-year. The diverse application areas further extend the expertise needed from people in areas such as plant biology, agriculture and soil science, environmental science, medicine, and the chemical industry. These areas could have a widespread impact on society in a number of ways. For example, the CRISPR/Cas9 system that serves to immunize bacteria from phage has provided the fundamental chemistry that is used to edit the genomes of diverse organisms, including human stem cells, crop plants, and livestock animals.« less

Method for determining formation quality factor from seismic data

DOEpatents

Taner, M. Turhan; Treitel, Sven

2005-08-16

A method is disclosed for calculating the quality factor Q from a seismic data trace. The method includes calculating a first and a second minimum phase inverse wavelet at a first and a second time interval along the seismic data trace, synthetically dividing the first wavelet by the second wavelet, Fourier transforming the result of the synthetic division, calculating the logarithm of this quotient of Fourier transforms and determining the slope of a best fit line to the logarithm of the quotient.

Synthetic Biology and Personalized Medicine

PubMed Central

Jain, K.K.

2013-01-01

Synthetic biology, application of synthetic chemistry to biology, is a broad term that covers the engineering of biological systems with structures and functions not found in nature to process information, manipulate chemicals, produce energy, maintain cell environment and enhance human health. Synthetic biology devices contribute not only to improve our understanding of disease mechanisms, but also provide novel diagnostic tools. Methods based on synthetic biology enable the design of novel strategies for the treatment of cancer, immune diseases metabolic disorders and infectious diseases as well as the production of cheap drugs. The potential of synthetic genome, using an expanded genetic code that is designed for specific drug synthesis as well as delivery and activation of the drug in vivo by a pathological signal, was already pointed out during a lecture delivered at Kuwait University in 2005. Of two approaches to synthetic biology, top-down and bottom-up, the latter is more relevant to the development of personalized medicines as it provides more flexibility in constructing a partially synthetic cell from basic building blocks for a desired task. PMID:22907209

Pressure-accelerated azide-alkyne cycloaddition: micro capillary versus autoclave reactor performance.

PubMed

Borukhova, Svetlana; Seeger, Andreas D; Noël, Timothy; Wang, Qi; Busch, Markus; Hessel, Volker

2015-02-01

Pressure effects on regioselectivity and yield of cycloaddition reactions have been shown to exist. Nevertheless, high pressure synthetic applications with subsequent benefits in the production of natural products are limited by the general availability of the equipment. In addition, the virtues and limitations of microflow equipment under standard conditions are well established. Herein, we apply novel-process-window (NPWs) principles, such as intensification of intrinsic kinetics of a reaction using high temperature, pressure, and concentration, on azide-alkyne cycloaddition towards synthesis of Rufinamide precursor. We applied three main activation methods (i.e., uncatalyzed batch, uncatalyzed flow, and catalyzed flow) on uncatalyzed and catalyzed azide-alkyne cycloaddition. We compare the performance of two reactors, a specialized autoclave batch reactor for high-pressure operation up to 1800 bar and a capillary flow reactor (up to 400 bar). A differentiated and comprehensive picture is given for the two reactors and the three methods of activation. Reaction speedup and consequent increases in space-time yields is achieved, while the process window for favorable operation to selectively produce Rufinamide precursor in good yields is widened. The best conditions thus determined are applied to several azide-alkyne cycloadditions to widen the scope of the presented methodology. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Quasi real-time analysis of mixed-phase clouds using interferometric out-of-focus imaging: development of an algorithm to assess liquid and ice water content

NASA Astrophysics Data System (ADS)

Lemaitre, P.; Brunel, M.; Rondeau, A.; Porcheron, E.; Gréhan, G.

2015-12-01

According to changes in aircraft certifications rules, instrumentation has to be developed to alert the flight crews of potential icing conditions. The technique developed needs to measure in real time the amount of ice and liquid water encountered by the plane. Interferometric imaging offers an interesting solution: It is currently used to measure the size of regular droplets, and it can further measure the size of irregular particles from the analysis of their speckle-like out-of-focus images. However, conventional image processing needs to be speeded up to be compatible with the real-time detection of icing conditions. This article presents the development of an optimised algorithm to accelerate image processing. The algorithm proposed is based on the detection of each interferogram with the use of the gradient pair vector method. This method is shown to be 13 times faster than the conventional Hough transform. The algorithm is validated on synthetic images of mixed phase clouds, and finally tested and validated in laboratory conditions. This algorithm should have important applications in the size measurement of droplets and ice particles for aircraft safety, cloud microphysics investigation, and more generally in the real-time analysis of triphasic flows using interferometric particle imaging.

Active control of continuous air jet with bifurcated synthetic jets

NASA Astrophysics Data System (ADS)

Dančová, Petra; Vít, Tomáš; Jašíková, Darina; Novosád, Jan

The synthetic jets (SJs) have many significant applications and the number of applications is increasing all the time. In this research the main focus is on the primary flow control which can be used effectively for the heat transfer increasing. This paper deals with the experimental research of the effect of two SJs worked in the bifurcated mode used for control of an axisymmetric air jet. First, the control synthetic jets were measured alone. After an adjustment, the primary axisymmetric jet was added in to the system. For comparison, the primary flow without synthetic jets control was also measured. All experiments were performed using PIV method whereby the synchronization between synthetic jets and PIV system was necessary to do.

Laser driven ion accelerator

DOEpatents

Tajima, Toshiki

2006-04-18

A system and method of accelerating ions in an accelerator to optimize the energy produced by a light source. Several parameters may be controlled in constructing a target used in the accelerator system to adjust performance of the accelerator system. These parameters include the material, thickness, geometry and surface of the target.

Collisional disruptions of rotating targets

NASA Astrophysics Data System (ADS)

Ševeček, Pavel; Broz, Miroslav

2017-10-01

Collisions are key processes in the evolution of the Main Asteroid Belt and impact events - i.e. target fragmentation and gravitational reaccumulation - are commonly studied by numerical simulations, namely by SPH and N-body methods. In our work, we extend the previous studies by assuming rotating targets and we study the dependence of resulting size-distributions on the pre-impact rotation of the target. To obtain stable initial conditions, it is also necessary to include the self-gravity already in the fragmentation phase which was previously neglected.To tackle this problem, we developed an SPH code, accelerated by SSE/AVX instruction sets and parallelized. The code solves the standard set of hydrodynamic equations, using the Tillotson equation of state, von Mises criterion for plastic yielding and scalar Grady-Kipp model for fragmentation. We further modified the velocity gradient by a correction tensor (Schäfer et al. 2007) to ensure a first-order conservation of the total angular momentum. As the intact target is a spherical body, its gravity can be approximated by a potential of a homogeneous sphere, making it easy to set up initial conditions. This is however infeasible for later stages of the disruption; to this point, we included the Barnes-Hut algorithm to compute the gravitational accelerations, using a multipole expansion of distant particles up to hexadecapole order.We tested the code carefully, comparing the results to our previous computations obtained with the SPH5 code (Benz and Asphaug 1994). Finally, we ran a set of simulations and we discuss the difference between the synthetic families created by rotating and static targets.

ELECTROSTATIC ACCELERATORS (in French)

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

Gerbier, R.

1962-04-01

The various methods presently in use for producing the continuous high voltage necessary for the operation of electrostatic accelerators are reviewed. The methods considered are voltage multiplier units (Greinacher and Morganstern types) and electrostatic instruments (Van de Graaff and Trump machines and Felici rotnting cylinder instruments). The electrostatic accelerators used at Grenoble which give currents of several milliamperes at voltages up to 1.2 Mv are described. In this energy region electron accelerators and neutron generators offer very interesting possibilities. (auth)

Micro-Raman spectroscopy of natural and synthetic indigo samples.

PubMed

Vandenabeele, Peter; Moens, Luc

2003-02-01

In this work indigo samples from three different sources are studied by using Raman spectroscopy: the synthetic pigment and pigments from the woad (Isatis tinctoria) and the indigo plant (Indigofera tinctoria). 21 samples were obtained from 8 suppliers; for each sample 5 Raman spectra were recorded and used for further chemometrical analysis. Principal components analysis (PCA) was performed as data reduction method before applying hierarchical cluster analysis. Linear discriminant analysis (LDA) was implemented as a non-hierarchical supervised pattern recognition method to build a classification model. In order to avoid broad-shaped interferences from the fluorescence background, the influence of 1st and 2nd derivatives on the classification was studied by using cross-validation. Although chemically identical, it is shown that Raman spectroscopy in combination with suitable chemometric methods has the potential to discriminate between synthetic and natural indigo samples.

Quality control in urinalysis.

PubMed

Takubo, T; Tatsumi, N

1999-01-01

Quality control (QC) has been introduced in laboratories, and QC surveys in urinalysis have been performed by College of American Pathologist, by Japanese Association of Medical Technologists, by Osaka Medical Association and by manufacturers. QC survey in urinalysis for synthetic urine by the reagent strip and instrument made in same manufacturer, and by an automated urine cell analyser provided satisfactory results among laboratories. QC survey in urinalysis for synthetic urine by the reagent strips and instruments made by various manufacturers indicated differences in the determination values among manufacturers, and between manual and automated methods because the reagent strips and instruments have different characteristics, respectively. QC photo survey in urinalysis on the microscopic photos of urine sediment constituents indicated differences in the identification of cells among laboratories. From the results, it is necessary to standardize a reagent strip method, manual and automated methods, and synthetic urine.

Mathematical modeling of synthetic unit hydrograph case study: Citarum watershed

NASA Astrophysics Data System (ADS)

Islahuddin, Muhammad; Sukrainingtyas, Adiska L. A.; Kusuma, M. Syahril B.; Soewono, Edy

2015-09-01

Deriving unit hydrograph is very important in analyzing watershed's hydrologic response of a rainfall event. In most cases, hourly measures of stream flow data needed in deriving unit hydrograph are not always available. Hence, one needs to develop methods for deriving unit hydrograph for ungagged watershed. Methods that have evolved are based on theoretical or empirical formulas relating hydrograph peak discharge and timing to watershed characteristics. These are usually referred to Synthetic Unit Hydrograph. In this paper, a gamma probability density function and its variant are used as mathematical approximations of a unit hydrograph for Citarum Watershed. The model is adjusted with real field condition by translation and scaling. Optimal parameters are determined by using Particle Swarm Optimization method with weighted objective function. With these models, a synthetic unit hydrograph can be developed and hydrologic parameters can be well predicted.

The viability of ADVANTG deterministic method for synthetic radiography generation

NASA Astrophysics Data System (ADS)

Bingham, Andrew; Lee, Hyoung K.

2018-07-01

Fast simulation techniques to generate synthetic radiographic images of high resolution are helpful when new radiation imaging systems are designed. However, the standard stochastic approach requires lengthy run time with poorer statistics at higher resolution. The investigation of the viability of a deterministic approach to synthetic radiography image generation was explored. The aim was to analyze a computational time decrease over the stochastic method. ADVANTG was compared to MCNP in multiple scenarios including a small radiography system prototype, to simulate high resolution radiography images. By using ADVANTG deterministic code to simulate radiography images the computational time was found to decrease 10 to 13 times compared to the MCNP stochastic approach while retaining image quality.

Moving at the Speed of Potential: A Mixed-Methods Study of Accelerating Developmental Students in a California Community College

ERIC Educational Resources Information Center

Parks, Paula L.

2014-01-01

Most developmental community college students are not completing the composition sequence successfully. This mixed-methods study examined acceleration as a way to help developmental community college students complete the composition sequence more quickly and more successfully. Acceleration is a curricular redesign that includes challenging…

26 CFR 1.168(i)-4 - Changes in use.

Code of Federal Regulations, 2013 CFR

2013-04-01

... change. (3) Change in the use results in a shorter recovery period and/or a more accelerated depreciation... longer recovery period and/or a depreciation method for the MACRS property that is less accelerated than... recovery period and/or a more accelerated depreciation method (as described in paragraph (d)(3)(i) of this...

26 CFR 1.168(i)-4 - Changes in use.

Code of Federal Regulations, 2011 CFR

2011-04-01

... change. (3) Change in the use results in a shorter recovery period and/or a more accelerated depreciation... longer recovery period and/or a depreciation method for the MACRS property that is less accelerated than... recovery period and/or a more accelerated depreciation method (as described in paragraph (d)(3)(i) of this...

26 CFR 1.168(i)-4 - Changes in use.

Code of Federal Regulations, 2014 CFR

2014-04-01

... change. (3) Change in the use results in a shorter recovery period and/or a more accelerated depreciation... longer recovery period and/or a depreciation method for the MACRS property that is less accelerated than... recovery period and/or a more accelerated depreciation method (as described in paragraph (d)(3)(i) of this...

26 CFR 1.168(i)-4 - Changes in use.

Code of Federal Regulations, 2012 CFR

2012-04-01

... change. (3) Change in the use results in a shorter recovery period and/or a more accelerated depreciation... longer recovery period and/or a depreciation method for the MACRS property that is less accelerated than... recovery period and/or a more accelerated depreciation method (as described in paragraph (d)(3)(i) of this...

Metabolic modelling in the development of cell factories by synthetic biology

PubMed Central

Jouhten, Paula

2012-01-01

Cell factories are commonly microbial organisms utilized for bioconversion of renewable resources to bulk or high value chemicals. Introduction of novel production pathways in chassis strains is the core of the development of cell factories by synthetic biology. Synthetic biology aims to create novel biological functions and systems not found in nature by combining biology with engineering. The workflow of the development of novel cell factories with synthetic biology is ideally linear which will be attainable with the quantitative engineering approach, high-quality predictive models, and libraries of well-characterized parts. Different types of metabolic models, mathematical representations of metabolism and its components, enzymes and metabolites, are useful in particular phases of the synthetic biology workflow. In this minireview, the role of metabolic modelling in synthetic biology will be discussed with a review of current status of compatible methods and models for the in silico design and quantitative evaluation of a cell factory. PMID:24688669

Novel strategies to construct complex synthetic vectors to produce DNA molecular weight standards.

PubMed

Chen, Zhe; Wu, Jianbing; Li, Xiaojuan; Ye, Chunjiang; Wenxing, He

2009-05-01

DNA molecular weight standards (DNA markers, nucleic acid ladders) are commonly used in molecular biology laboratories as references to estimate the size of various DNA samples in electrophoresis process. One method of DNA marker production is digestion of synthetic vectors harboring multiple DNA fragments of known sizes by restriction enzymes. In this article, we described three novel strategies-sequential DNA fragment ligation, screening of ligation products by polymerase chain reaction (PCR) with end primers, and "small fragment accumulation"-for constructing complex synthetic vectors and minimizing the mass differences between DNA fragments produced from restrictive digestion of synthetic vectors. The strategy could be applied to construct various complex synthetic vectors to produce any type of low-range DNA markers, usually available commercially. In addition, the strategy is useful for single-step ligation of multiple DNA fragments for construction of complex synthetic vectors and other applications in molecular biology field.

Method of modeling transmissions for real-time simulation

DOEpatents

Hebbale, Kumaraswamy V.

2012-09-25

A transmission modeling system includes an in-gear module that determines an in-gear acceleration when a vehicle is in gear. A shift module determines a shift acceleration based on a clutch torque when the vehicle is shifting between gears. A shaft acceleration determination module determines a shaft acceleration based on at least one of the in-gear acceleration and the shift acceleration.

Methods of analysis by the U.S. Geological Survey National Water Quality Laboratory; comparison of a nitric acid in-bottle digestion procedure to other whole-water digestion procedures

USGS Publications Warehouse

Garbarino, John R.; Hoffman, Gerald L.

1999-01-01

A hydrochloric acid in-bottle digestion procedure is used to partially digest wholewater samples prior to determining recoverable elements by various analytical methods. The use of hydrochloric acid is problematic for some methods of analysis because of spectral interference. The inbottle digestion procedure has been modified to eliminate such interference by using nitric acid instead of hydrochloric acid in the digestion. Implications of this modification are evaluated by comparing results for a series of synthetic whole-water samples. Results are also compared with those obtained by using U.S. Environmental Protection Agency (1994) (USEPA) Method 200.2 total-recoverable digestion procedure. Percentage yields that use the nitric acid inbottle digestion procedure are within 10 percent of the hydrochloric acid in-bottle yields for 25 of the 26 elements determined in two of the three synthetic whole-water samples tested. Differences in percentage yields for the third synthetic whole-water sample were greater than 10 percent for 16 of the 26 elements determined. The USEPA method was the most rigorous for solubilizing elements from particulate matter in all three synthetic whole-water samples. Nevertheless, the variability in the percentage yield by using the USEPA digestion procedure was generally greater than the in-bottle digestion procedure, presumably because of the difficulty in controlling the digestion conditions accurately.

Verification Modal Summation Technique for Synthetic and Observation Seismogram for Pidie Jaya Earthquake M6.5

NASA Astrophysics Data System (ADS)

Irwandi, Irwandi; Fashbir; Daryono

2018-04-01

Neo-Deterministic Seismic Hazard Assessment (NDSHA) method is a seismic hazard assessment method that has an advantage on realistic physical simulation of the source, propagation, and geological-geophysical structure. This simulation is capable on generating the synthetics seismograms at the sites that being observed. At the regional NDSHA scale, calculation of the strong ground motion is based on 1D modal summation technique because it is more efficient in computation. In this article, we verify the result of synthetic seismogram calculations with the result of field observations when Pidie Jaya earthquake on 7 December 2016 occurred with the moment magnitude of M6.5. Those data were recorded by broadband seismometers installed by BMKG (Indonesian Agency for Meteorology, Climatology and Geophysics). The result of the synthetic seismogram calculations verifies that some stations well show the suitability with observation while some other stations show the discrepancies with observation results. Based on the results of the observation of some stations, evidently 1D modal summation technique method has been well verified for thin sediment region (near the pre-tertiary basement), but less suitable for thick sediment region. The reason is that the 1D modal summation technique excludes the amplification effect of seismic wave occurring within thick sediment region. So, another approach is needed, e.g., 2D finite difference hybrid method, which is a part of local scale NDSHA method.

Quantitative measurement of XLR11 and UR-144 in oral fluid by LC-MS-MS.

PubMed

Amaratunga, Piyadarsha; Thomas, Christopher; Lemberg, Bridget Lorenz; Lemberg, Dave

2014-01-01

Availability and consumption of synthetic cannabinoids have risen recently in the USA and Europe. These drugs have adverse effects, including acute psychosis and bizarre behavior. In 2012, the United States Drug Enforcement Agency permanently banned five of the synthetic cannabinoids and in 2013, temporarily added XLR11, UR-144 and AKB48 to Schedule I of the Controlled Substances Act. As synthetic cannabinoid strains are added to the Schedule I list, new strains are being introduced into the market. XLR11 and UR-144 are two of the most recent additions to the synthetic cannabinoid drug class. To test collected oral fluid samples for XLR11 and UR-144, we developed a bioanalytical method that initially purifies the sample with solid-phase extraction and then quantitatively identifies the drugs with ultra-high-performance liquid chromatography-tandem mass spectrometry. The method was validated according to United States Food and Drug Administration guidelines and Scientific Working Group for Forensic Toxicology guidelines and the validation data showed that the method is an accurate, precise, robust and efficient method suited for high-throughput toxicological screening applications. We tested human subject samples with the developed method and found the presence of parent drugs (XLR11 and UR-144), their metabolites and their pyrolysis products in oral fluid. © The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

One-pot DNA construction for synthetic biology: the Modular Overlap-Directed Assembly with Linkers (MODAL) strategy

PubMed Central

Casini, Arturo; MacDonald, James T.; Jonghe, Joachim De; Christodoulou, Georgia; Freemont, Paul S.; Baldwin, Geoff S.; Ellis, Tom

2014-01-01

Overlap-directed DNA assembly methods allow multiple DNA parts to be assembled together in one reaction. These methods, which rely on sequence homology between the ends of DNA parts, have become widely adopted in synthetic biology, despite being incompatible with a key principle of engineering: modularity. To answer this, we present MODAL: a Modular Overlap-Directed Assembly with Linkers strategy that brings modularity to overlap-directed methods, allowing assembly of an initial set of DNA parts into a variety of arrangements in one-pot reactions. MODAL is accompanied by a custom software tool that designs overlap linkers to guide assembly, allowing parts to be assembled in any specified order and orientation. The in silico design of synthetic orthogonal overlapping junctions allows for much greater efficiency in DNA assembly for a variety of different methods compared with using non-designed sequence. In tests with three different assembly technologies, the MODAL strategy gives assembly of both yeast and bacterial plasmids, composed of up to five DNA parts in the kilobase range with efficiencies of between 75 and 100%. It also seamlessly allows mutagenesis to be performed on any specified DNA parts during the process, allowing the one-step creation of construct libraries valuable for synthetic biology applications. PMID:24153110

Accelerated Test Method for Corrosion Protective Coatings Project

NASA Technical Reports Server (NTRS)

Falker, John; Zeitlin, Nancy; Calle, Luz

2015-01-01

This project seeks to develop a new accelerated corrosion test method that predicts the long-term corrosion protection performance of spaceport structure coatings as accurately and reliably as current long-term atmospheric exposure tests. This new accelerated test method will shorten the time needed to evaluate the corrosion protection performance of coatings for NASA's critical ground support structures. Lifetime prediction for spaceport structure coatings has a 5-year qualification cycle using atmospheric exposure. Current accelerated corrosion tests often provide false positives and negatives for coating performance, do not correlate to atmospheric corrosion exposure results, and do not correlate with atmospheric exposure timescales for lifetime prediction.

A new method of measuring gravitational acceleration in an undergraduate laboratory program

NASA Astrophysics Data System (ADS)

Wang, Qiaochu; Wang, Chang; Xiao, Yunhuan; Schulte, Jurgen; Shi, Qingfan

2018-01-01

This paper presents a high accuracy method to measure gravitational acceleration in an undergraduate laboratory program. The experiment is based on water in a cylindrical vessel rotating about its vertical axis at a constant speed. The water surface forms a paraboloid whose focal length is related to rotational period and gravitational acceleration. This experimental setup avoids classical source errors in determining the local value of gravitational acceleration, so prevalent in the common simple pendulum and inclined plane experiments. The presented method combines multiple physics concepts such as kinematics, classical mechanics and geometric optics, offering the opportunity for lateral as well as project-based learning.

Chaotic dynamical aperture

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

Lee, S.Y.; Tepikian, S.

1985-01-01

Nonlinear magnetic forces become more important for particles in the modern large accelerators. These nonlinear elements are introduced either intentionally to control beam dynamics or by uncontrollable random errors. Equations of motion in the nonlinear Hamiltonian are usually non-integrable. Because of the nonlinear part of the Hamiltonian, the tune diagram of accelerators is a jungle. Nonlinear magnet multipoles are important in keeping the accelerator operation point in the safe quarter of the hostile jungle of resonant tunes. Indeed, all the modern accelerator designs have taken advantages of nonlinear mechanics. On the other hand, the effect of the uncontrollable random multipolesmore » should be evaluated carefully. A powerful method of studying the effect of these nonlinear multipoles is using a particle tracking calculation, where a group of test particles are tracing through these magnetic multipoles in the accelerator hundreds to millions of turns in order to test the dynamical aperture of the machine. These methods are extremely useful in the design of a large accelerator such as SSC, LEP, HERA and RHIC. These calculations unfortunately take a tremendous amount of computing time. In this review the method of determining chaotic orbit and applying the method to nonlinear problems in accelerator physics is discussed. We then discuss the scaling properties and effect of random sextupoles.« less

Earthquake and failure forecasting in real-time: A Forecasting Model Testing Centre

NASA Astrophysics Data System (ADS)

Filgueira, Rosa; Atkinson, Malcolm; Bell, Andrew; Main, Ian; Boon, Steven; Meredith, Philip

2013-04-01

Across Europe there are a large number of rock deformation laboratories, each of which runs many experiments. Similarly there are a large number of theoretical rock physicists who develop constitutive and computational models both for rock deformation and changes in geophysical properties. Here we consider how to open up opportunities for sharing experimental data in a way that is integrated with multiple hypothesis testing. We present a prototype for a new forecasting model testing centre based on e-infrastructures for capturing and sharing data and models to accelerate the Rock Physicist (RP) research. This proposal is triggered by our work on data assimilation in the NERC EFFORT (Earthquake and Failure Forecasting in Real Time) project, using data provided by the NERC CREEP 2 experimental project as a test case. EFFORT is a multi-disciplinary collaboration between Geoscientists, Rock Physicists and Computer Scientist. Brittle failure of the crust is likely to play a key role in controlling the timing of a range of geophysical hazards, such as volcanic eruptions, yet the predictability of brittle failure is unknown. Our aim is to provide a facility for developing and testing models to forecast brittle failure in experimental and natural data. Model testing is performed in real-time, verifiably prospective mode, in order to avoid selection biases that are possible in retrospective analyses. The project will ultimately quantify the predictability of brittle failure, and how this predictability scales from simple, controlled laboratory conditions to the complex, uncontrolled real world. Experimental data are collected from controlled laboratory experiments which includes data from the UCL Laboratory and from Creep2 project which will undertake experiments in a deep-sea laboratory. We illustrate the properties of the prototype testing centre by streaming and analysing realistically noisy synthetic data, as an aid to generating and improving testing methodologies in imperfect conditions. The forecasting model testing centre uses a repository to hold all the data and models and a catalogue to hold all the corresponding metadata. It allows to: Data transfer: Upload experimental data: We have developed FAST (Flexible Automated Streaming Transfer) tool to upload data from RP laboratories to the repository. FAST sets up data transfer requirements and selects automatically the transfer protocol. Metadata are automatically created and stored. Web data access: Create synthetic data: Users can choose a generator and supply parameters. Synthetic data are automatically stored with corresponding metadata. Select data and models: Search the metadata using criteria design for RP. The metadata of each data (synthetic or from laboratory) and models are well-described through their respective catalogues accessible by the web portal. Upload models: Upload and store a model with associated metadata. This provide an opportunity to share models. The web portal solicits and creates metadata describing each model. Run model and visualise results: Selected data and a model to be submitted to a High Performance Computational resource hiding technical details. Results are displayed in accelerated time and stored allowing retrieval, inspection and aggregation. The forecasting model testing centre proposed could be integrated into EPOS. Its expected benefits are: Improved the understanding of brittle failure prediction and its scalability to natural phenomena. Accelerated and extensive testing and rapid sharing of insights. Increased impact and visibility of RP and GeoScience research. Resources for education and training. A key challenge is to agree the framework for sharing RP data and models. Our work is provocative first step.

A Spaceborne Synthetic Aperture Radar Partial Fixed-Point Imaging System Using a Field- Programmable Gate Array—Application-Specific Integrated Circuit Hybrid Heterogeneous Parallel Acceleration Technique

PubMed Central

Li, Bingyi; Chen, Liang; Wei, Chunpeng; Xie, Yizhuang; Chen, He; Yu, Wenyue

2017-01-01

With the development of satellite load technology and very large scale integrated (VLSI) circuit technology, onboard real-time synthetic aperture radar (SAR) imaging systems have become a solution for allowing rapid response to disasters. A key goal of the onboard SAR imaging system design is to achieve high real-time processing performance with severe size, weight, and power consumption constraints. In this paper, we analyse the computational burden of the commonly used chirp scaling (CS) SAR imaging algorithm. To reduce the system hardware cost, we propose a partial fixed-point processing scheme. The fast Fourier transform (FFT), which is the most computation-sensitive operation in the CS algorithm, is processed with fixed-point, while other operations are processed with single precision floating-point. With the proposed fixed-point processing error propagation model, the fixed-point processing word length is determined. The fidelity and accuracy relative to conventional ground-based software processors is verified by evaluating both the point target imaging quality and the actual scene imaging quality. As a proof of concept, a field- programmable gate array—application-specific integrated circuit (FPGA-ASIC) hybrid heterogeneous parallel accelerating architecture is designed and realized. The customized fixed-point FFT is implemented using the 130 nm complementary metal oxide semiconductor (CMOS) technology as a co-processor of the Xilinx xc6vlx760t FPGA. A single processing board requires 12 s and consumes 21 W to focus a 50-km swath width, 5-m resolution stripmap SAR raw data with a granularity of 16,384 × 16,384. PMID:28672813

3D unstructured-mesh radiation transport codes

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

Morel, J.

1997-12-31

Three unstructured-mesh radiation transport codes are currently being developed at Los Alamos National Laboratory. The first code is ATTILA, which uses an unstructured tetrahedral mesh in conjunction with standard Sn (discrete-ordinates) angular discretization, standard multigroup energy discretization, and linear-discontinuous spatial differencing. ATTILA solves the standard first-order form of the transport equation using source iteration in conjunction with diffusion-synthetic acceleration of the within-group source iterations. DANTE is designed to run primarily on workstations. The second code is DANTE, which uses a hybrid finite-element mesh consisting of arbitrary combinations of hexahedra, wedges, pyramids, and tetrahedra. DANTE solves several second-order self-adjoint forms of the transport equation including the even-parity equation, the odd-parity equation, and a new equation called the self-adjoint angular flux equation. DANTE also offers three angular discretization options:more » $$S{_}n$$ (discrete-ordinates), $$P{_}n$$ (spherical harmonics), and $$SP{_}n$$ (simplified spherical harmonics). DANTE is designed to run primarily on massively parallel message-passing machines, such as the ASCI-Blue machines at LANL and LLNL. The third code is PERICLES, which uses the same hybrid finite-element mesh as DANTE, but solves the standard first-order form of the transport equation rather than a second-order self-adjoint form. DANTE uses a standard $$S{_}n$$ discretization in angle in conjunction with trilinear-discontinuous spatial differencing, and diffusion-synthetic acceleration of the within-group source iterations. PERICLES was initially designed to run on workstations, but a version for massively parallel message-passing machines will be built. The three codes will be described in detail and computational results will be presented.« less

A Spaceborne Synthetic Aperture Radar Partial Fixed-Point Imaging System Using a Field- Programmable Gate Array-Application-Specific Integrated Circuit Hybrid Heterogeneous Parallel Acceleration Technique.

PubMed

Yang, Chen; Li, Bingyi; Chen, Liang; Wei, Chunpeng; Xie, Yizhuang; Chen, He; Yu, Wenyue

2017-06-24

With the development of satellite load technology and very large scale integrated (VLSI) circuit technology, onboard real-time synthetic aperture radar (SAR) imaging systems have become a solution for allowing rapid response to disasters. A key goal of the onboard SAR imaging system design is to achieve high real-time processing performance with severe size, weight, and power consumption constraints. In this paper, we analyse the computational burden of the commonly used chirp scaling (CS) SAR imaging algorithm. To reduce the system hardware cost, we propose a partial fixed-point processing scheme. The fast Fourier transform (FFT), which is the most computation-sensitive operation in the CS algorithm, is processed with fixed-point, while other operations are processed with single precision floating-point. With the proposed fixed-point processing error propagation model, the fixed-point processing word length is determined. The fidelity and accuracy relative to conventional ground-based software processors is verified by evaluating both the point target imaging quality and the actual scene imaging quality. As a proof of concept, a field- programmable gate array-application-specific integrated circuit (FPGA-ASIC) hybrid heterogeneous parallel accelerating architecture is designed and realized. The customized fixed-point FFT is implemented using the 130 nm complementary metal oxide semiconductor (CMOS) technology as a co-processor of the Xilinx xc6vlx760t FPGA. A single processing board requires 12 s and consumes 21 W to focus a 50-km swath width, 5-m resolution stripmap SAR raw data with a granularity of 16,384 × 16,384.

Compatibility tests between Jarytherm DBT synthetic oil and solid materials from wastes

NASA Astrophysics Data System (ADS)

Fasquelle, Thomas; Falcoz, Quentin; Neveu, Pierre; Flamant, Gilles; Walker, Jérémie

2016-05-01

Direct thermocline thermal energy storage is the cheapest sensible thermal energy storage configuration. Indeed, a thermocline tank consists in one tank instead of two and reduces costs. Thermocline thermal energy storages are often filled with cheap solid materials which could react with the heat transfer fluid in the case of incompatibility. PROMES laboratory is building a pilot-scale parabolic trough solar loop including a direct thermocline thermal energy storage system. The working fluid will be a synthetic oil, the Jarytherm® DBT, and the thermal energy storage tank will be filled with stabilized solid materials elaborated from vitrified wastes. Compatibility tests have been conducted in order to check on one hand if the thermo-mechanical properties and life time of the energy storage medium are not affected by the contact with oil and, on the other hand, if the thermal oil performances are not degraded by the solid filler. These experiments consisted in putting in contact the oil and the solid materials in small tanks. In order to discriminate the solid materials tested in the shortest time, accelerating aging conditions at 330 °C for 500 hours were used. The measurements consisted in X-Ray Diffraction and Scanning Electron Microscopy for the solids, and thermo-physical and chemical properties measurements for the oil. Regarding the solid samples, their crystalline structure did not change during the test, but it is difficult to conclude about their elementary composition and they seem to absorb oil. While thermal properties still makes Jarytherm® DBT a good heat transfer fluid after the accelerated aging tests, this study results in differentiating most compatible materials. Thus according to our study, Jarytherm® DBT can be used in direct thermocline thermal energy storage applications when compatibility of the solid material has been demonstrated.

Antibiotics as selectors and accelerators of diversity in the mechanisms of resistance: from the resistome to genetic plasticity in the β-lactamases world.

PubMed

Galán, Juan-Carlos; González-Candelas, Fernando; Rolain, Jean-Marc; Cantón, Rafael

2013-01-01

Antibiotics and antibiotic resistance determinants, natural molecules closely related to bacterial physiology and consistent with an ancient origin, are not only present in antibiotic-producing bacteria. Throughput sequencing technologies have revealed an unexpected reservoir of antibiotic resistance in the environment. These data suggest that co-evolution between antibiotic and antibiotic resistance genes has occurred since the beginning of time. This evolutionary race has probably been slow because of highly regulated processes and low antibiotic concentrations. Therefore to understand this global problem, a new variable must be introduced, that the antibiotic resistance is a natural event, inherent to life. However, the industrial production of natural and synthetic antibiotics has dramatically accelerated this race, selecting some of the many resistance genes present in nature and contributing to their diversification. One of the best models available to understand the biological impact of selection and diversification are β-lactamases. They constitute the most widespread mechanism of resistance, at least among pathogenic bacteria, with more than 1000 enzymes identified in the literature. In the last years, there has been growing concern about the description, spread, and diversification of β-lactamases with carbapenemase activity and AmpC-type in plasmids. Phylogenies of these enzymes help the understanding of the evolutionary forces driving their selection. Moreover, understanding the adaptive potential of β-lactamases contribute to exploration the evolutionary antagonists trajectories through the design of more efficient synthetic molecules. In this review, we attempt to analyze the antibiotic resistance problem from intrinsic and environmental resistomes to the adaptive potential of resistance genes and the driving forces involved in their diversification, in order to provide a global perspective of the resistance problem.

Antibiotics as selectors and accelerators of diversity in the mechanisms of resistance: from the resistome to genetic plasticity in the β-lactamases world

PubMed Central

Galán, Juan-Carlos; González-Candelas, Fernando; Rolain, Jean-Marc; Cantón, Rafael

2013-01-01

Antibiotics and antibiotic resistance determinants, natural molecules closely related to bacterial physiology and consistent with an ancient origin, are not only present in antibiotic-producing bacteria. Throughput sequencing technologies have revealed an unexpected reservoir of antibiotic resistance in the environment. These data suggest that co-evolution between antibiotic and antibiotic resistance genes has occurred since the beginning of time. This evolutionary race has probably been slow because of highly regulated processes and low antibiotic concentrations. Therefore to understand this global problem, a new variable must be introduced, that the antibiotic resistance is a natural event, inherent to life. However, the industrial production of natural and synthetic antibiotics has dramatically accelerated this race, selecting some of the many resistance genes present in nature and contributing to their diversification. One of the best models available to understand the biological impact of selection and diversification are β-lactamases. They constitute the most widespread mechanism of resistance, at least among pathogenic bacteria, with more than 1000 enzymes identified in the literature. In the last years, there has been growing concern about the description, spread, and diversification of β-lactamases with carbapenemase activity and AmpC-type in plasmids. Phylogenies of these enzymes help the understanding of the evolutionary forces driving their selection. Moreover, understanding the adaptive potential of β-lactamases contribute to exploration the evolutionary antagonists trajectories through the design of more efficient synthetic molecules. In this review, we attempt to analyze the antibiotic resistance problem from intrinsic and environmental resistomes to the adaptive potential of resistance genes and the driving forces involved in their diversification, in order to provide a global perspective of the resistance problem. PMID:23404545

Earthquake Building Damage Mapping Based on Feature Analyzing Method from Synthetic Aperture Radar Data

NASA Astrophysics Data System (ADS)

An, L.; Zhang, J.; Gong, L.

2018-04-01

Playing an important role in gathering information of social infrastructure damage, Synthetic Aperture Radar (SAR) remote sensing is a useful tool for monitoring earthquake disasters. With the wide application of this technique, a standard method, comparing post-seismic to pre-seismic data, become common. However, multi-temporal SAR processes, are not always achievable. To develop a post-seismic data only method for building damage detection, is of great importance. In this paper, the authors are now initiating experimental investigation to establish an object-based feature analysing classification method for building damage recognition.

Direct spectrophotometric method for analysis of food supplements containing synthetic polyhydroquinones

NASA Astrophysics Data System (ADS)

Vasilevsky, A. M.; Konoplev, G. A.; Stepanova, O. S.; Toropov, D. K.; Zagorsky, A. L.

2016-04-01

A novel direct spectrophotometric method for quantitative determination of Oxiphore® drug substance (synthetic polyhydroquinone complex) in food supplements is developed. Absorption spectra of Oxiphore® water solutions in the ultraviolet region are presented. Samples preparation procedures and mathematical methods of spectra post-analytical procession are discussed. Basic characteristics of the automatic CCD-based UV spectrophotometer and special software implementing the developed method are described. The results of the trials of the developed method and software are analyzed: the error of determination for Oxiphore® concentration in water solutions of the isolated substance and singlecomponent food supplements did not exceed 15% (average error was 7…10%).

Development and evaluation of accelerated drug release testing methods for a matrix-type intravaginal ring.

PubMed

Externbrink, Anna; Eggenreich, Karin; Eder, Simone; Mohr, Stefan; Nickisch, Klaus; Klein, Sandra

2017-01-01

Accelerated drug release testing is a valuable quality control tool for long-acting non-oral extended release formulations. Currently, several intravaginal ring candidates designed for the long-term delivery of steroids or anti-infective drugs are being in the developing pipeline. The present article addresses the demand for accelerated drug release methods for these formulations. We describe the development and evaluation of accelerated release methods for a steroid releasing matrix-type intravaginal ring. The drug release properties of the formulation were evaluated under real-time and accelerated test conditions. Under real-time test conditions drug release from the intravaginal ring was strongly affected by the steroid solubility in the release medium. Under sufficient sink conditions that were provided in release media containing surfactants drug release was Fickian diffusion driven. Both temperature and hydro-organic dissolution media were successfully employed to accelerate drug release from the formulation. Drug release could be further increased by combining the temperature effect with the application of a hydro-organic release medium. The formulation continued to exhibit a diffusion controlled release kinetic under the investigated accelerated conditions. Moreover, the accelerated methods were able to differentiate between different prototypes of the intravaginal ring that exhibited different release profiles under real-time test conditions. Overall, the results of the present study indicate that both temperature and hydro-organic release media are valid parameters for accelerating drug release from the intravaginal ring. Variation of either a single or both parameters yielded release profiles that correlated well with real-time release. Copyright © 2016 Elsevier B.V. All rights reserved.

A fuel-cell-assisted iron redox process for simultaneous sulfur recovery and electricity production from synthetic sulfide wastewater.

PubMed

Zhai, Lin-Feng; Song, Wei; Tong, Zhong-Hua; Sun, Min

2012-12-01

Sulfide present in wastewaters and waste gases should be removed due to its toxicity, corrosivity, and malodorous property. Development of effective, stable, and feasible methods for sulfur recovery from sulfide attains a double objective of waste minimization and resource recovery. Here we report a novel fuel-cell-assisted iron redox (FC-IR) process for simultaneously recovering sulfur and electricity from synthetic sulfide wastewater. The FC-IR system consists of an oxidizing reactor where sulfide is oxidized to elemental sulfur by Fe(III), and a fuel cell where Fe(III) is regenerated from Fe(II) concomitantly with electricity producing. The oxidation of sulfide by Fe(III) is significantly dependent on solution pH. Increasing the pH from 0.88 to 1.96 accelerates the oxidation of sulfide, however, lowers the purity of the produced elemental sulfur. The performance of fuel cell is also a strong function of solution pH. Fe(II) is completely oxidized to Fe(III) when the fuel cell is operated at a pH above 6.0, whereas only partially oxidized below pH 6.0. At pH 6.0, the highest columbic efficiency of 75.7% is achieved and electricity production maintains for the longest time of 106 h. Coupling operation of the FC-IR system obtains sulfide removal efficiency of 99.90%, sulfur recovery efficiency of 78.6 ± 8.3%, and columbic efficiency of 58.6 ± 1.6%, respectively. These results suggest that the FC-IR process is a promising tool to recover sulfur and energy from sulfide. Copyright © 2012 Elsevier B.V. All rights reserved.

Rapid Ice Loss at Vatnajokull,Iceland Since Late 1990s Constrained by Synthetic Aperture Radar Interferometry

NASA Astrophysics Data System (ADS)

Zhao, W.; Amelung, F.; Dixon, T. H.; Wdowinski, S.

2012-12-01

Synthetic aperture radar interferometry time series is applied over Vatnajokull, Iceland by using 15 years ERS data. Ice loss at Vatnajokull accelerates since late 1990s especially after 21th century. Clear uplift signal due to ice mass loss is detected. The rebound signal is generally linear and increases a little bit after 2000. The relative annual velocity (GPS station 7485 as reference) is about 12 mm/yr at the ice cap edge, which matches the previous studies using GPS. The standard deviation compared to 11 GPS stations in this area is about 2 mm/yr. A relative-value modeling method ignoring the effect of viscous flow is chosen assuming elastic half space earth. The final ice loss estimation - 83 cm/yr - matches the climatology model with ground observations. Small Baseline Subsets is applied for time series analysis. Orbit error coupling with long wavelength phase trend due to horizontal plate motion is removed based on a second polynomial model. For simplicity, we do not consider atmospheric delay in this area because of no complex topography and small-scale turbulence is eliminated well after long-term average when calculating the annual mean velocity. Some unwrapping error still exits because of low coherence. Other uncertainties can be the basic assumption of ice loss pattern and spatial variation of the elastic parameters. It is the first time we apply InSAR time series for ice mass balance study and provide detailed error and uncertainty analysis. The successful of this application proves InSAR as an option for mass balance study and it is also important for validation of different ice loss estimation techniques.

In vitro antioxidant activities of extract and oil from roselle (Hibiscus sabdariffa L.) seed against sunflower oil autoxidation.

PubMed

Nyam, K L; Teh, Y N; Tan, C P; Kamariah, L

2012-08-01

In order to overcome the stability problems of oils and fats, synthetic antioxidants such as butylated hydroxyanisole (BHA), butylated hydroxytoluene (BHT) and tert-butyl hydroquinone (TBHQ) have widespread use as food additives in many countries. Recent reports reveal that these compounds may be implicated in many health risks, including cancer and carcinogenesis. Hence, there is a move towards the use of natural antioxidants of plant origin to replace these synthetic antioxidants. In this study, roselle seed oil (RSO) and extract (RSE) were mixed with sunflower oil, respectively to monitor degradation rate and investigate antioxidant activity during accelerated storage. The antioxidant activity was found to stabilise sunflower oil of various samples and in the order of RSE>RSO>tocopherol>sunflower oil. The total percentage increased after 5 days of storage period in free fatty acid (FFA), peroxide value (PV) and anisidine value (AV). Total oxidation value (TOx) of sunflower oil supplemented with 1500 ppm RSE was 33.3%, 47.7%, 14.5%, and 45.5%, respectively. While the total percentage increased under different analysis methods, sunflower oil supplemented with 5% RSO was 17.2%, 60.4%, 36.2% and 59.0% in the order of FFA, PV, AV and TOTOX. Both RSO and RSE were found to be more effective in stabilisation of sunflower oil compared to tocopherol. Total phenolic content of RSE was 46.40 +/- 1.51 mg GAE/100g of oil while RSO was 12.51 +/- 0.15 mg GAE/ 100g of oil. The data indicates that roselle seed oil and seed extract are rich in phenolics and antioxidant activities and may be a potential source of natural antioxidants.

Acceleration of low order finite element computation with GPUs (Invited)

NASA Astrophysics Data System (ADS)

Knepley, M. G.

2010-12-01

Considerable effort has been focused on the acceleration using GPUs of high order spectral element methods and discontinuous Galerkin finite element methods. However, these methods are not universally applicable, and much of the existing FEM software base employs low order methods. In this talk, we present a formulation of FEM, using the PETSc framework from ANL, which is amenable to GPU acceleration even at very low order. In addition, using the FEniCS system for FEM, we show that the relevant kernels can be automatically generated and optimized using a symbolic manipulation system.

Synthetic biology of cyanobacteria: unique challenges and opportunities

PubMed Central

Berla, Bertram M.; Saha, Rajib; Immethun, Cheryl M.; Maranas, Costas D.; Moon, Tae Seok; Pakrasi, Himadri B.

2013-01-01

Photosynthetic organisms, and especially cyanobacteria, hold great promise as sources of renewably-produced fuels, bulk and specialty chemicals, and nutritional products. Synthetic biology tools can help unlock cyanobacteria's potential for these functions, but unfortunately tool development for these organisms has lagged behind that for S. cerevisiae and E. coli. While these organisms may in many cases be more difficult to work with as “chassis” strains for synthetic biology than certain heterotrophs, the unique advantages of autotrophs in biotechnology applications as well as the scientific importance of improved understanding of photosynthesis warrant the development of these systems into something akin to a “green E. coli.” In this review, we highlight unique challenges and opportunities for development of synthetic biology approaches in cyanobacteria. We review classical and recently developed methods for constructing targeted mutants in various cyanobacterial strains, and offer perspective on what genetic tools might most greatly expand the ability to engineer new functions in such strains. Similarly, we review what genetic parts are most needed for the development of cyanobacterial synthetic biology. Finally, we highlight recent methods to construct genome-scale models of cyanobacterial metabolism and to use those models to measure properties of autotrophic metabolism. Throughout this paper, we discuss some of the unique challenges of a diurnal, autotrophic lifestyle along with how the development of synthetic biology and biotechnology in cyanobacteria must fit within those constraints. PMID:24009604

Combining HJ CCD, GF-1 WFV and MODIS Data to Generate Daily High Spatial Resolution Synthetic Data for Environmental Process Monitoring.

PubMed

Wu, Mingquan; Huang, Wenjiang; Niu, Zheng; Wang, Changyao

2015-08-20

The limitations of satellite data acquisition mean that there is a lack of satellite data with high spatial and temporal resolutions for environmental process monitoring. In this study, we address this problem by applying the Enhanced Spatial and Temporal Adaptive Reflectance Fusion Model (ESTARFM) and the Spatial and Temporal Data Fusion Approach (STDFA) to combine Huanjing satellite charge coupled device (HJ CCD), Gaofen satellite no. 1 wide field of view camera (GF-1 WFV) and Moderate Resolution Imaging Spectroradiometer (MODIS) data to generate daily high spatial resolution synthetic data for land surface process monitoring. Actual HJ CCD and GF-1 WFV data were used to evaluate the precision of the synthetic images using the correlation analysis method. Our method was tested and validated for two study areas in Xinjiang Province, China. The results show that both the ESTARFM and STDFA can be applied to combine HJ CCD and MODIS reflectance data, and GF-1 WFV and MODIS reflectance data, to generate synthetic HJ CCD data and synthetic GF-1 WFV data that closely match actual data with correlation coefficients (r) greater than 0.8989 and 0.8643, respectively. Synthetic red- and near infrared (NIR)-band data generated by ESTARFM are more suitable for the calculation of Normalized Different Vegetation Index (NDVI) than the data generated by STDFA.

Combining HJ CCD, GF-1 WFV and MODIS Data to Generate Daily High Spatial Resolution Synthetic Data for Environmental Process Monitoring

PubMed Central

Wu, Mingquan; Huang, Wenjiang; Niu, Zheng; Wang, Changyao

2015-01-01

The limitations of satellite data acquisition mean that there is a lack of satellite data with high spatial and temporal resolutions for environmental process monitoring. In this study, we address this problem by applying the Enhanced Spatial and Temporal Adaptive Reflectance Fusion Model (ESTARFM) and the Spatial and Temporal Data Fusion Approach (STDFA) to combine Huanjing satellite charge coupled device (HJ CCD), Gaofen satellite no. 1 wide field of view camera (GF-1 WFV) and Moderate Resolution Imaging Spectroradiometer (MODIS) data to generate daily high spatial resolution synthetic data for land surface process monitoring. Actual HJ CCD and GF-1 WFV data were used to evaluate the precision of the synthetic images using the correlation analysis method. Our method was tested and validated for two study areas in Xinjiang Province, China. The results show that both the ESTARFM and STDFA can be applied to combine HJ CCD and MODIS reflectance data, and GF-1 WFV and MODIS reflectance data, to generate synthetic HJ CCD data and synthetic GF-1 WFV data that closely match actual data with correlation coefficients (r) greater than 0.8989 and 0.8643, respectively. Synthetic red- and near infrared (NIR)-band data generated by ESTARFM are more suitable for the calculation of Normalized Different Vegetation Index (NDVI) than the data generated by STDFA. PMID:26308017

Prediction of novel synthetic pathways for the production of desired chemicals.

PubMed

Cho, Ayoun; Yun, Hongseok; Park, Jin Hwan; Lee, Sang Yup; Park, Sunwon

2010-03-28

There have been several methods developed for the prediction of synthetic metabolic pathways leading to the production of desired chemicals. In these approaches, novel pathways were predicted based on chemical structure changes, enzymatic information, and/or reaction mechanisms, but the approaches generating a huge number of predicted results are difficult to be applied to real experiments. Also, some of these methods focus on specific pathways, and thus are limited to expansion to the whole metabolism. In the present study, we propose a system framework employing a retrosynthesis model with a prioritization scoring algorithm. This new strategy allows deducing the novel promising pathways for the synthesis of a desired chemical together with information on enzymes involved based on structural changes and reaction mechanisms present in the system database. The prioritization scoring algorithm employing Tanimoto coefficient and group contribution method allows examination of structurally qualified pathways to recognize which pathway is more appropriate. In addition, new concepts of binding site covalence, estimation of pathway distance and organism specificity were taken into account to identify the best synthetic pathway. Parameters of these factors can be evolutionarily optimized when a newly proven synthetic pathway is registered. As the proofs of concept, the novel synthetic pathways for the production of isobutanol, 3-hydroxypropionate, and butyryl-CoA were predicted. The prediction shows a high reliability, in which experimentally verified synthetic pathways were listed within the top 0.089% of the identified pathway candidates. It is expected that the system framework developed in this study would be useful for the in silico design of novel metabolic pathways to be employed for the efficient production of chemicals, fuels and materials.

Annotating novel genes by integrating synthetic lethals and genomic information

PubMed Central

Schöner, Daniel; Kalisch, Markus; Leisner, Christian; Meier, Lukas; Sohrmann, Marc; Faty, Mahamadou; Barral, Yves; Peter, Matthias; Gruissem, Wilhelm; Bühlmann, Peter

2008-01-01

Background Large scale screening for synthetic lethality serves as a common tool in yeast genetics to systematically search for genes that play a role in specific biological processes. Often the amounts of data resulting from a single large scale screen far exceed the capacities of experimental characterization of every identified target. Thus, there is need for computational tools that select promising candidate genes in order to reduce the number of follow-up experiments to a manageable size. Results We analyze synthetic lethality data for arp1 and jnm1, two spindle migration genes, in order to identify novel members in this process. To this end, we use an unsupervised statistical method that integrates additional information from biological data sources, such as gene expression, phenotypic profiling, RNA degradation and sequence similarity. Different from existing methods that require large amounts of synthetic lethal data, our method merely relies on synthetic lethality information from two single screens. Using a Multivariate Gaussian Mixture Model, we determine the best subset of features that assign the target genes to two groups. The approach identifies a small group of genes as candidates involved in spindle migration. Experimental testing confirms the majority of our candidates and we present she1 (YBL031W) as a novel gene involved in spindle migration. We applied the statistical methodology also to TOR2 signaling as another example. Conclusion We demonstrate the general use of Multivariate Gaussian Mixture Modeling for selecting candidate genes for experimental characterization from synthetic lethality data sets. For the given example, integration of different data sources contributes to the identification of genetic interaction partners of arp1 and jnm1 that play a role in the same biological process. PMID:18194531

Dark energy in six nearby galaxy flows: Synthetic phase diagrams and self-similarity

NASA Astrophysics Data System (ADS)

Chernin, A. D.; Teerikorpi, P.; Dolgachev, V. P.; Kanter, A. A.; Domozhilova, L. M.; Valtonen, M. J.; Byrd, G. G.

2012-09-01

Outward flows of galaxies are observed around groups of galaxies on spatial scales of about 1 Mpc, and around galaxy clusters on scales of 10 Mpc. Using recent data from the Hubble Space Telescope (HST), we have constructed two synthetic velocity-distance phase diagrams: one for four flows on galaxy-group scales and the other for two flows on cluster scales. It has been shown that, in both cases, the antigravity produced by the cosmic dark-energy background is stronger than the gravity produced by the matter in the outflow volume. The antigravity accelerates the flows and introduces a phase attractor that is common to all scales, corresponding to a linear velocity-distance relation (the local Hubble law). As a result, the bundle of outflow trajectories mostly follow the trajectory of the attractor. A comparison of the two diagrams reveals the universal self-similar nature of the outflows: their gross phase structure in dimensionless variables is essentially independent of their physical spatial scales, which differ by approximately a factor of 10 in the two diagrams.

Binding-Site Compatible Fragment Growing Applied to the Design of β2-Adrenergic Receptor Ligands.

PubMed

Chevillard, Florent; Rimmer, Helena; Betti, Cecilia; Pardon, Els; Ballet, Steven; van Hilten, Niek; Steyaert, Jan; Diederich, Wibke E; Kolb, Peter

2018-02-08

Fragment-based drug discovery is intimately linked to fragment extension approaches that can be accelerated using software for de novo design. Although computers allow for the facile generation of millions of suggestions, synthetic feasibility is however often neglected. In this study we computationally extended, chemically synthesized, and experimentally assayed new ligands for the β 2 -adrenergic receptor (β 2 AR) by growing fragment-sized ligands. In order to address the synthetic tractability issue, our in silico workflow aims at derivatized products based on robust organic reactions. The study started from the predicted binding modes of five fragments. We suggested a total of eight diverse extensions that were easily synthesized, and further assays showed that four products had an improved affinity (up to 40-fold) compared to their respective initial fragment. The described workflow, which we call "growing via merging" and for which the key tools are available online, can improve early fragment-based drug discovery projects, making it a useful creative tool for medicinal chemists during structure-activity relationship (SAR) studies.

Phenolic extracts from Sorbus aucuparia (L.) and Malus baccata (L.) berries: antioxidant activity and performance in rapeseed oil during frying and storage.

PubMed

Aladedunye, Felix; Matthäus, Bertrand

2014-09-15

In the present study, phenolic extracts and fractions from Canadian rowanberry (Sorbus aucuparia) and crabapple (Malus baccata) were screened for antioxidant activity using DPPH radical scavenging activity, and β-carotene bleaching assays. Furthermore, rapeseed oil was supplemented with extracts/fractions and performance was assessed during accelerated storage at 65°C, under Rancimat at 120°C, and during frying at 180°C. A number of phenolic fractions showed significantly higher radical scavenging and antioxidant activity in the oil than the synthetic antioxidant, butylated hydroxytoluene (BHT). At the end of the 7-day storage, the peroxide value was reduced by up to 42% in the presence of extracts. The extent of thermooxidative degradation was significantly lower in oils fortified with the fruit extracts, with fractions from Sorbus species being more effective. Results from the present study suggested that polyphenolic extracts from these fruits can offer effective alternative to synthetic antioxidants during frying and storage of vegetable oils. Copyright © 2014 Elsevier Ltd. All rights reserved.

Particle acceleration at shocks in the inner heliosphere

NASA Astrophysics Data System (ADS)

Parker, Linda Neergaard

This dissertation describes a study of particle acceleration at shocks via the diffusive shock acceleration mechanism. Results for particle acceleration at both quasi-parallel and quasi-perpendicular shocks are presented to address the question of whether there are sufficient particles in the solar wind thermal core, modeled as either a Maxwellian or kappa- distribution, to account for the observed accelerated spectrum. Results of accelerating the theoretical upstream distribution are compared to energetic observations at 1 AU. It is shown that the particle distribution in the solar wind thermal core is sufficient to explain the accelerated particle spectrum downstream of the shock, although the shape of the downstream distribution in some cases does not follow completely the theory of diffusive shock acceleration, indicating possible additional processes at work in the shock for these cases. Results show good to excellent agreement between the theoretical and observed spectral index for one third to one half of both quasi-parallel and quasi-perpendicular shocks studied herein. Coronal mass ejections occurring during periods of high solar activity surrounding solar maximum can produce shocks in excess of 3-8 shocks per day. During solar minimum, diffusive shock acceleration at shocks can generally be understood on the basis of single independent shocks and no other shock necessarily influences the diffusive shock acceleration mechanism. In this sense, diffusive shock acceleration during solar minimum may be regarded as Markovian. By contrast, diffusive shock acceleration of particles at periods of high solar activity (e.g. solar maximum) see frequent, closely spaced shocks that include the effects of particle acceleration at preceding and following shocks. Therefore, diffusive shock acceleration of particles at solar maximum cannot be modeled on the basis of diffusive shock acceleration as a single, independent shock and the process is essentially non-Markovian. A multiple shock model is developed based in part on the box model of (Protheroe and Stanev, 1998; Moraal and Axford, 1983; Ball and Kirk, 1992; Drury et al. 1999) that accelerates particles at multiple shocks and decompresses the particles between shocks via two methods. The first method of decompression is based on the that used by Melrose and Pope (1993), which adiabatically decompresses particles between shocks. The second method solves the cosmic ray transport equation and adiabatically decompresses between shocks and includes the loss of particles through convection and diffusion. The transport method allows for the inclusion of a temporal variability and thus allows for a more representative frequency distribution of shocks. The transport method of decompression and loss is used to accelerate particles at seventy-three shocks in a thirty day time period. Comparisons with observations taken at 1 AU during the same time period are encouraging as the model is able to reproduce the observed amplitude of the accelerated particles and in part the variability. This work provides the basis for developing more sophisticated models that can be applied to a suite of observations

HEAVY ION LINEAR ACCELERATOR

DOEpatents

Van Atta, C.M.; Beringer, R.; Smith, L.

1959-01-01

A linear accelerator of heavy ions is described. The basic contributions of the invention consist of a method and apparatus for obtaining high energy particles of an element with an increased charge-to-mass ratio. The method comprises the steps of ionizing the atoms of an element, accelerating the resultant ions to an energy substantially equal to one Mev per nucleon, stripping orbital electrons from the accelerated ions by passing the ions through a curtain of elemental vapor disposed transversely of the path of the ions to provide a second charge-to-mass ratio, and finally accelerating the resultant stripped ions to a final energy of at least ten Mev per nucleon.

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

Lovelace, III, Henry H.

In accelerator physics, models of a given machine are used to predict the behaviors of the beam, magnets, and radiofrequency cavities. The use of the computational model has become wide spread to ease the development period of the accelerator lattice. There are various programs that are used to create lattices and run simulations of both transverse and longitudinal beam dynamics. The programs include Methodical Accelerator Design(MAD) MAD8, MADX, Zgoubi, Polymorphic Tracking Code (PTC), and many others. In this discussion the BMAD (Baby Methodical Accelerator Design) is presented as an additional tool in creating and simulating accelerator lattices for the studymore » of beam dynamics in the Relativistic Heavy Ion Collider (RHIC).« less

[Shielding design and detection of neutrons from medical and industrial electron accelerators--simple method of design calculation for neutron shielding].

PubMed

Nakamura, T; Uwamino, Y

1986-02-01

The neutron leakage from medical and industrial electron accelerators has become an important problem and its detection and shielding is being performed in their facilities. This study provides a new simple method of design calculation for neutron shielding of those electron accelerator facilities by dividing into the following five categories; neutron dose distribution in the accelerator room, neutron attenuation through the wall and the door in the accelerator room, neutron and secondary photon dose distributions in the maze, neutron and secondary photon attenuation through the door at the end of the maze, neutron leakage outside the facility-skyshine.

Investigation of using shrinking method in construction of Institute for Research in Fundamental Sciences Electron Linear Accelerator TW-tube (IPM TW-Linac tube)

NASA Astrophysics Data System (ADS)

Ghasemi, F.; Abbasi Davani, F.

2015-06-01

Due to Iran's growing need for accelerators in various applications, IPM's electron Linac project has been defined. This accelerator is a 15 MeV energy S-band traveling-wave accelerator which is being designed and constructed based on the klystron that has been built in Iran. Based on the design, operating mode is π /2 and the accelerating chamber consists of two 60cm long tubes with constant impedance and a 30cm long buncher. Amongst all construction methods, shrinking method is selected for construction of IPM's electron Linac tube because it has a simple procedure and there is no need for large vacuum or hydrogen furnaces. In this paper, different aspects of this method are investigated. According to the calculations, linear ratio of frequency alteration to radius change is 787.8 MHz/cm, and the maximum deformation at the tube wall where disks and the tube make contact is 2.7μ m. Applying shrinking method for construction of 8- and 24-cavity tubes results in satisfactory frequency and quality factor. Average deviations of cavities frequency of 8- and 24-cavity tubes to the design values are 0.68 MHz and 1.8 MHz respectively before tune and 0.2 MHz and 0.4 MHz after tune. Accelerating tubes, buncher, and high power couplers of IPM's electron linac are constructed using shrinking method.

Detecting breast microcalcifications using super-resolution ultrasound imaging: a clinical study

NASA Astrophysics Data System (ADS)

Huang, Lianjie; Labyed, Yassin; Hanson, Kenneth; Sandoval, Daniel; Pohl, Jennifer; Williamson, Michael

2013-03-01

Imaging breast microcalcifications is crucial for early detection and diagnosis of breast cancer. It is challenging for current clinical ultrasound to image breast microcalcifications. However, new imaging techniques using data acquired with a synthetic-aperture ultrasound system have the potential to significantly improve ultrasound imaging. We recently developed a super-resolution ultrasound imaging method termed the phase-coherent multiple-signal classification (PC-MUSIC). This signal subspace method accounts for the phase response of transducer elements to improve image resolution. In this paper, we investigate the clinical feasibility of our super-resolution ultrasound imaging method for detecting breast microcalcifications. We use our custom-built, real-time synthetic-aperture ultrasound system to acquire breast ultrasound data for 40 patients whose mammograms show the presence of breast microcalcifications. We apply our super-resolution ultrasound imaging method to the patient data, and produce clear images of breast calcifications. Our super-resolution ultrasound PC-MUSIC imaging with synthetic-aperture ultrasound data can provide a new imaging modality for detecting breast microcalcifications in clinic without using ionizing radiation.

Use of petroleum-based correlations and estimation methods for synthetic fuels

NASA Technical Reports Server (NTRS)

Antoine, A. C.

1980-01-01

Correlations of hydrogen content with aromatics content, heat of combustion, and smoke point are derived for some synthetic fuels prepared from oil and coal syncrudes. Comparing the results of the aromatics content with correlations derived for petroleum fuels shows that the shale-derived fuels fit the petroleum-based correlations, but the coal-derived fuels do not. The correlations derived for heat of combustion and smoke point are comparable to some found for petroleum-based correlations. Calculated values of hydrogen content and of heat of combustion are obtained for the synthetic fuels by use of ASTM estimation methods. Comparisons of the measured and calculated values show biases in the equations that exceed the critical statistics values. Comparison of the measured hydrogen content by the standard ASTM combustion method with that by a nuclear magnetic resonance (NMR) method shows a decided bias. The comparison of the calculated and measured NMR hydrogen contents shows a difference similar to that found with petroleum fuels.

Synthetic biology and occupational risk.

PubMed

Howard, John; Murashov, Vladimir; Schulte, Paul

2017-03-01

Synthetic biology is an emerging interdisciplinary field of biotechnology that involves applying the principles of engineering and chemical design to biological systems. Biosafety professionals have done an excellent job in addressing research laboratory safety as synthetic biology and gene editing have emerged from the larger field of biotechnology. Despite these efforts, risks posed by synthetic biology are of increasing concern as research procedures scale up to industrial processes in the larger bioeconomy. A greater number and variety of workers will be exposed to commercial synthetic biology risks in the future, including risks to a variety of workers from the use of lentiviral vectors as gene transfer devices. There is a need to review and enhance current protection measures in the field of synthetic biology, whether in experimental laboratories where new advances are being researched, in health care settings where treatments using viral vectors as gene delivery systems are increasingly being used, or in the industrial bioeconomy. Enhanced worker protection measures should include increased injury and illness surveillance of the synthetic biology workforce; proactive risk assessment and management of synthetic biology products; research on the relative effectiveness of extrinsic and intrinsic biocontainment methods; specific safety guidance for synthetic biology industrial processes; determination of appropriate medical mitigation measures for lentiviral vector exposure incidents; and greater awareness and involvement in synthetic biology safety by the general occupational safety and health community as well as by government occupational safety and health research and regulatory agencies.

An Accelerated Release Method of Risperidone Loaded PLGA Microspheres with Good IVIVC.

PubMed

Hu, Xiaoqin; Zhang, Jianwei; Tang, Xuemei; Li, Mingyuan; Ma, Siyu; Liu, Cheng; Gao, Yue; Zhang, Yue; Liu, Yan; Yu, Fanglin; Yang, Yang; Guo, Jia; Li, Zhiping; Mei, Xingguo

2018-01-01

A long release period lasting several days or several weeks is always needed and thereby it is tedious and time consuming to screen formulations of such microspheres with so long release period and evaluate their release profiles in vitro with conventional long-term or "real-time" release method. So, an accelerated release testing of such system is necessary for formulation design as well as quality control purpose. The purpose of this study is to obtain an accelerated release method of risperidone loaded poly(lactic-co-glycolic acid) (PLGA) microspheres with good in vitro/in vivo correlation (IVIVC). Two formulations of risperidone loaded PLGA microspheres used for evaluating IVIVC were prepared by O/W method. The accelerated release condition was optimized by investigating the effect of pH, osmotic pressure, temperature and ethanol concentration on the release of risperidone from microspheres and the in vitro accelerated release profiles of risperidone from PLGA microspheres were obtained under this optimized accelerated release condition. The plasma concentration of risperidone were also detected after subcutaneous injection of risperidone loaded microspheres to rats. The in vivo cumulative absorption profiles were then calculated using Wagner-Nelson model, Loo- Riegelman model and numerical convolution model, respectively. The correlation between in vitro accelerated release and in vivo cumulative absorption were finally evaluated with Least Square Method. It was shown that temperature and ethanol concentration significantly affected the release of risperidone from the microspheres while pH and osmotic pressure of release media slightly affected the release behavior of risperidone. The in vitro release of risperidone from microspheres were finally undergone in PBS (pH7.0, 300mosm) with 20% (V/V) ethanol at 45°C. The sustained and complete release of risperidone was observed in both formulations under the accelerated release condition although these two release profiles were dissimilar. The correlation coefficients (R2) of IVIVC were all above 0.95 and the slopes were all between 0.9564 and 1.1868 in spite of fitted model and microsphere formulation. An in vitro accelerated release method of risperidone microspheres with good IVIVC was established in this paper and this accelerated release method was supposed to have great potential in both in vivo performance prediction and quality control for risperidone loaded PLGA microspheres. Copyright© Bentham Science Publishers; For any queries, please email at epub@benthamscience.org.

[An ultrafast liquid chromatography-tandem mass spectrometric method for simultaneous determination of common artificial synthetic pigments in cooked meat products].

PubMed

Chen, Xiaohong; Li, Xiaoping; Zhao, Yonggang; Pan, Shengdong; Jin, Micong

2015-07-01

A method based on ultrafast liquid chromatography-tandem mass spectrometry (UFLC-MS/MS) has been developed for the simultaneous determination of seven synthetic pigments in cooked meat product. After the cooked meat products were extracted by mixed extraction agent, purified by WAX column, the UFLC separation was performed on a Shim-pack XR-ODS II column (75 mm x 2.0 mm, 2.2 µm) with a linear gradient elution program of acetonitrile and ammonium acetate (AmAc, 5 mmol/L) as the mobile phase. Electrospray ionization was applied and operated in the negative ion mode. The limits of quantitation (LOQs) for the seven synthetic pigments were in the range of 0.7-5.0 µg/kg. The calibration curves showed good linearities for the seven analytes in their detection ranges, and the correlative coefficients (r) were more than 0.999. The recoveries were between 88.2%-106.5% with the RSDs in the range of 1.2%-5.0%. The method is sensitive, reproducible, quick and adapts to the simultaneous determination of the seven synthetic pigments in cooked meat product.

Differentially Private Synthesization of Multi-Dimensional Data using Copula Functions

PubMed Central

Li, Haoran; Xiong, Li; Jiang, Xiaoqian

2014-01-01

Differential privacy has recently emerged in private statistical data release as one of the strongest privacy guarantees. Most of the existing techniques that generate differentially private histograms or synthetic data only work well for single dimensional or low-dimensional histograms. They become problematic for high dimensional and large domain data due to increased perturbation error and computation complexity. In this paper, we propose DPCopula, a differentially private data synthesization technique using Copula functions for multi-dimensional data. The core of our method is to compute a differentially private copula function from which we can sample synthetic data. Copula functions are used to describe the dependence between multivariate random vectors and allow us to build the multivariate joint distribution using one-dimensional marginal distributions. We present two methods for estimating the parameters of the copula functions with differential privacy: maximum likelihood estimation and Kendall’s τ estimation. We present formal proofs for the privacy guarantee as well as the convergence property of our methods. Extensive experiments using both real datasets and synthetic datasets demonstrate that DPCopula generates highly accurate synthetic multi-dimensional data with significantly better utility than state-of-the-art techniques. PMID:25405241

Generation of synthetic image sequences for the verification of matching and tracking algorithms for deformation analysis

NASA Astrophysics Data System (ADS)

Bethmann, F.; Jepping, C.; Luhmann, T.

2013-04-01

This paper reports on a method for the generation of synthetic image data for almost arbitrary static or dynamic 3D scenarios. Image data generation is based on pre-defined 3D objects, object textures, camera orientation data and their imaging properties. The procedure does not focus on the creation of photo-realistic images under consideration of complex imaging and reflection models as they are used by common computer graphics programs. In contrast, the method is designed with main emphasis on geometrically correct synthetic images without radiometric impact. The calculation process includes photogrammetric distortion models, hence cameras with arbitrary geometric imaging characteristics can be applied. Consequently, image sets can be created that are consistent to mathematical photogrammetric models to be used as sup-pixel accurate data for the assessment of high-precision photogrammetric processing methods. In the first instance the paper describes the process of image simulation under consideration of colour value interpolation, MTF/PSF and so on. Subsequently the geometric quality of the synthetic images is evaluated with ellipse operators. Finally, simulated image sets are used to investigate matching and tracking algorithms as they have been developed at IAPG for deformation measurement in car safety testing.

Solubility of 238U radionuclide from various types of soil in synthetic gastrointestinal fluids using "US in vitro" digestion method

NASA Astrophysics Data System (ADS)

Rashid, Nur Shahidah Abdul; Sarmani, Sukiman; Majid, Amran Ab.; Mohamed, Faizal; Siong, Khoo Kok

2015-04-01

238U radionuclide is a naturally occuring radioactive material that can be found in soil. In this study, the solubility of 238U radionuclide obtained from various types of soil in synthetic gastrointestinal fluids was analysed by "US P in vitro" digestion method. The synthetic gastrointestinal fluids were added to the samples with well-ordered, mixed throughly and incubated according to the human physiology digestive system. The concentration of 238U radionuclide in the solutions extracted from the soil was measured using Induced Coupling Plasma Mass Spectrometer (ICP-MS). The concentration of 238U radionuclide from the soil samples in synthetic gastrointestinal fluids showed different values due to different homogenity of soil types and chemical reaction of 238U radionuclide. In general, the solubility of 238U radionuclide in gastric fluid was higher (0.050 - 0.209 ppm) than gastrointestinal fluids (0.024 - 0.050 ppm). It could be concluded that the US P in vitro digestion method is practicle for estimating the solubility of 238U radionuclide from soil materials and could be useful for monitoring and risk assessment purposes applying to environmental, health and contaminated soil samples.

Extraction of organic acids by ion-pair formation with tri-n-octylamine. Part 7. Comparison of methods for extraction of synthetic dyes from yogurt.

PubMed

Puttemans, M L; de Voogt, M; Dryon, L; Massart, D

1985-01-01

Synthetic dyes were extracted from yogurt by different methods, but all methods had in common a liberation of dyes from the food followed by ion-pair formation with tri-n-octylamine. Extraction with pH 5.5 phosphate buffer gave high recoveries for 5 of the 7 dyes investigated and was relatively fast. Precipitation of proteins followed by polyamide adsorption and desorption gave high yields for all the dyes but was tedious and long.

Polyborylated reagents for modern organic synthesis

PubMed Central

SHIMIZU, Masaki; HIYAMA, Tamejiro

2008-01-01

Diverse kinds of gem- and vic-diborylated compounds are now readily available thanks to advances in gem-diborylation of lithium carbenoids as well as vic-diborylation of carbon–carbon multiple bonds with diboron compounds. These diborylated reagents lead to invention of polyborylated reagents and many novel and useful synthetic methods for supreme stereocontrol. This review summarizes preparative methods and synthetic reactions of di- and polyborylated reagents with the emphasis on multiple bond formation. PMID:18941288

Numerical modeling of the radiative transfer in a turbid medium using the synthetic iteration.

PubMed

Budak, Vladimir P; Kaloshin, Gennady A; Shagalov, Oleg V; Zheltov, Victor S

2015-07-27

In this paper we propose the fast, but the accurate algorithm for numerical modeling of light fields in the turbid media slab. For the numerical solution of the radiative transfer equation (RTE) it is required its discretization based on the elimination of the solution anisotropic part and the replacement of the scattering integral by a finite sum. The solution regular part is determined numerically. A good choice of the method of the solution anisotropic part elimination determines the high convergence of the algorithm in the mean square metric. The method of synthetic iterations can be used to improve the convergence in the uniform metric. A significant increase in the solution accuracy with the use of synthetic iterations allows applying the two-stream approximation for the regular part determination. This approach permits to generalize the proposed method in the case of an arbitrary 3D geometry of the medium.

2nd Congress on applied synthetic biology in Europe (Málaga, Spain, November 2013).

PubMed

Vetter, Beatrice V; Pantidos, Nikolaos; Edmundson, Matthew

2014-05-25

The second meeting organised by the EFB on the advances of applied synthetic biology in Europe was held in Málaga, Spain in November 2013. The potential for the broad application of synthetic biology was reflected in the five sessions of this meeting: synthetic biology for healthcare applications, tools and technologies for synthetic biology, production of recombinant proteins, synthetic plant biology, and biofuels and other small molecules. Outcomes from the meeting were that synthetic biology offers methods for rapid development of new strains that will result in decreased production costs, sustainable chemical production and new medical applications. Additionally, it also introduced novel ways to produce sustainable energy and biofuels, to find new alternatives for bioremediation and resource recovery, and environmentally friendly foodstuff production. All the above-mentioned advances could enable biotechnology to solve some of the major problems of Society. However, while there are still limitations in terms of lacking tools, standardisation and suitable host organisms, this meeting has laid a foundation providing cutting-edge concepts and techniques to ultimately convert the potential of synthetic biology into practice. Copyright © 2014. Published by Elsevier B.V. All rights reserved.

Developments in the synthesis of the antiplatelet and antithrombotic drug (S)-clopidogrel.

PubMed

Saeed, Aamer; Shahzad, Danish; Faisal, Muhammad; Larik, Fayaz Ali; El-Seedi, Hesham R; Channar, Pervaiz Ali

2017-11-01

S-(+)-Methyl 2-(2-chlorophenyl)-2-(6,7-dihydrothieno[3,2-c]pyridin-5(4H)-yl)acetate, also known as (S)-clopidogrel, is marketed under the trade names Plavix and Iscover. It is a potent thienopyridine-class of antithrombotic and antiplatelet drug (antiaggregant). Among the two available stereoisomers of clopidogrel, for pharmaceutical activities only the S-enantiomer is applicable, as no antithrombotic activity is observed in the R-enantiomer and causes political upheavals and social turmoil in animal experiments. Worldwide sales of Plavix amounted to $6.4 billion yearly, which ranks second. Attributed to the increased demand of (S)-clopidogrel drug, it provoked the synthetic community to devise facile synthetic approaches. This review aims to summarize the synthetic methods of (S)-clopidogrel drug reported in the literature. The present review discusses the pros and cons of each synthetic methodology, which would be beneficial to the scientific community for further developments in the synthetic methodologies for (S)-clopidogrel. In addition, the compilation approach of literature-reported synthetic strategies of (S)-clopidogrel in one platform is advantageous, supportive, and crucial for the synthetic community to elect the best synthetic methodology of (S)-clopidogrel and to create new synthesis ideas. © 2017 Wiley Periodicals, Inc.

Continuous estimates on the earthquake early warning magnitude by use of the near-field acceleration records

NASA Astrophysics Data System (ADS)

Li, Jun; Jin, Xing; Wei, Yongxiang; Zhang, Hongcai

2013-10-01

In this article, the seismic records of Japan's Kik-net are selected to measure the acceleration, displacement, and effective peak acceleration of each seismic record within a certain time after P wave, then a continuous estimation is given on earthquake early warning magnitude through statistical analysis method, and Wenchuan earthquake record is utilized to check the method. The results show that the reliability of earthquake early warning magnitude continuously increases with the increase of the seismic information, the biggest residual happens if the acceleration is adopted to fit earthquake magnitude, which may be caused by rich high-frequency components and large dispersion of peak value in acceleration record, the influence caused by the high-frequency components can be effectively reduced if the effective peak acceleration and peak displacement is adopted, it is estimated that the dispersion of earthquake magnitude obviously reduces, but it is easy for peak displacement to be affected by long-period drifting. In various components, the residual enlargement phenomenon at vertical direction is almost unobvious, thus it is recommended in this article that the effective peak acceleration at vertical direction is preferred to estimate earthquake early warning magnitude. Through adopting Wenchuan strong earthquake record to check the method mentioned in this article, it is found that this method can be used to quickly, stably, and accurately estimate the early warning magnitude of this earthquake, which shows that this method is completely applicable for earthquake early warning.

Accelerating separable footprint (SF) forward and back projection on GPU

NASA Astrophysics Data System (ADS)

Xie, Xiaobin; McGaffin, Madison G.; Long, Yong; Fessler, Jeffrey A.; Wen, Minhua; Lin, James

2017-03-01

Statistical image reconstruction (SIR) methods for X-ray CT can improve image quality and reduce radiation dosages over conventional reconstruction methods, such as filtered back projection (FBP). However, SIR methods require much longer computation time. The separable footprint (SF) forward and back projection technique simplifies the calculation of intersecting volumes of image voxels and finite-size beams in a way that is both accurate and efficient for parallel implementation. We propose a new method to accelerate the SF forward and back projection on GPU with NVIDIA's CUDA environment. For the forward projection, we parallelize over all detector cells. For the back projection, we parallelize over all 3D image voxels. The simulation results show that the proposed method is faster than the acceleration method of the SF projectors proposed by Wu and Fessler.13 We further accelerate the proposed method using multiple GPUs. The results show that the computation time is reduced approximately proportional to the number of GPUs.

A robust gene-stacking method utilizing yeast assembly for plant synthetic biology

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

Shih, Patrick M.; Vuu, Khanh; Mansoori, Nasim

The advent and growth of synthetic biology has demonstrated its potential as a promising avenue of research to address many societal needs. But, plant synthetic biology efforts have been hampered by a dearth of DNA part libraries, versatile transformation vectors and efficient assembly strategies. We describe a versatile system (named jStack) utilizing yeast homologous recombination to efficiently assemble DNA into plant transformation vectors. We also demonstrate how this method can facilitate pathway engineering of molecules of pharmaceutical interest, production of potential biofuels and shuffling of disease-resistance traits between crop species. Our approach provides a powerful alternative to conventional strategies formore » stacking genes and traits to address many impending environmental and agricultural challenges.« less

Liquid-liquid microextraction of synthetic pigments in beverages using a hydrophobic deep eutectic solvent.

PubMed

Zhu, Shuqiang; Zhou, Jia; Jia, Hongfang; Zhang, Haixia

2018-03-15

A method was developed for the determination of eight synthetic pigments in beverage samples by liquid-liquid microextraction followed by high performance liquid chromatography. Using hydrophobic deep eutectic solvent (DES) as the microextraction solvent, several key parameters were optimized, including the type and volume of the hydrophobic DES, pH value, vortex time and salt content. Detection limits were in the range 0.016-1.12 ng/mL, recoveries were in the range 74.5-102.5% and relative standard deviations were <5.4%. The method is simple, green and practical, and could be applied to the extraction and determination of synthetic pigments in beverages. Copyright © 2017 Elsevier Ltd. All rights reserved.

A robust gene-stacking method utilizing yeast assembly for plant synthetic biology

DOE PAGES

Shih, Patrick M.; Vuu, Khanh; Mansoori, Nasim; ...

2016-10-26

The advent and growth of synthetic biology has demonstrated its potential as a promising avenue of research to address many societal needs. But, plant synthetic biology efforts have been hampered by a dearth of DNA part libraries, versatile transformation vectors and efficient assembly strategies. We describe a versatile system (named jStack) utilizing yeast homologous recombination to efficiently assemble DNA into plant transformation vectors. We also demonstrate how this method can facilitate pathway engineering of molecules of pharmaceutical interest, production of potential biofuels and shuffling of disease-resistance traits between crop species. Our approach provides a powerful alternative to conventional strategies formore » stacking genes and traits to address many impending environmental and agricultural challenges.« less

The effect of synthetic method and annealing temperature on metal site preference in Al(1-x)Ga(x)FeO3.

PubMed

Walker, James D S; Grosvenor, Andrew P

2013-08-05

Magnetoelectric materials couple both magnetic and electronic properties, making them attractive for use in multifunctional devices. The magnetoelectric AFeO3 compounds (Pna2(1); A = Al, Ga) have received attention as the properties of the system depend on composition as well as the synthetic method used. Al(1-x)Ga(x)FeO3. (0 ≤ x ≤ 1) was synthesized by the sol-gel and coprecipitation methods and studied by X-ray absorption near-edge spectroscopy (XANES). Al L(2,3-), Ga K-, and Fe K-edge XANES spectra were collected to examine how the average metal coordination number (CN) changes with the synthetic method. Al and Fe were found to prefer octahedral sites, while Ga prefers the tetrahedral site. It was found that composition played a larger role in determining site occupancies than synthetic method. Samples made by the sol-gel or ceramic methods (reported previously; Walker, J. D. S.; Grosvenor, A. P. J. Solid State Chem. 2013, 197, 147-153) showed smaller spectral changes than samples made via the coprecipitation method. This is attributed to greater ion mobility in samples synthesized via coprecipitation as the reactants do not have a long-range polymeric or oxide network during synthesis like samples synthesized via the sol-gel or ceramic method. Increasing annealing temperature increases the average coordination number of Al, and to a lesser extent Ga, while the average coordination number of Fe decreases. This study indicates that greater disorder is observed when the Al(1-x)Ga(x)FeO3. compounds have high Al content, and when annealed at higher temperatures.

The Electrostatic Gavimeter: An Alternative Way of Measuring Gravitational Acceleration

NASA Astrophysics Data System (ADS)

Kashinski, David

2005-03-01

In the past, Earth’s gravitational acceleration g has been measured in many ways, including the use of a pendulum as well as other models involving the use of a mass and a spring. We have designed a new method incorporating a spring with a capacitor and a voltmeter. This capacitor model still uses a hanging mass on a spring, but alters the method of determining the change in position of the spring due to the gravitational acceleration. We relate the change in position to the potential difference across the capacitor needed to cause a discharge through parallel plates. By relating this voltage directly to the gravitaional acceleration,a new method of measuring g is obtained.

3-D inversion of airborne electromagnetic data parallelized and accelerated by local mesh and adaptive soundings

NASA Astrophysics Data System (ADS)

Yang, Dikun; Oldenburg, Douglas W.; Haber, Eldad

2014-03-01

Airborne electromagnetic (AEM) methods are highly efficient tools for assessing the Earth's conductivity structures in a large area at low cost. However, the configuration of AEM measurements, which typically have widely distributed transmitter-receiver pairs, makes the rigorous modelling and interpretation extremely time-consuming in 3-D. Excessive overcomputing can occur when working on a large mesh covering the entire survey area and inverting all soundings in the data set. We propose two improvements. The first is to use a locally optimized mesh for each AEM sounding for the forward modelling and calculation of sensitivity. This dedicated local mesh is small with fine cells near the sounding location and coarse cells far away in accordance with EM diffusion and the geometric decay of the signals. Once the forward problem is solved on the local meshes, the sensitivity for the inversion on the global mesh is available through quick interpolation. Using local meshes for AEM forward modelling avoids unnecessary computing on fine cells on a global mesh that are far away from the sounding location. Since local meshes are highly independent, the forward modelling can be efficiently parallelized over an array of processors. The second improvement is random and dynamic down-sampling of the soundings. Each inversion iteration only uses a random subset of the soundings, and the subset is reselected for every iteration. The number of soundings in the random subset, determined by an adaptive algorithm, is tied to the degree of model regularization. This minimizes the overcomputing caused by working with redundant soundings. Our methods are compared against conventional methods and tested with a synthetic example. We also invert a field data set that was previously considered to be too large to be practically inverted in 3-D. These examples show that our methodology can dramatically reduce the processing time of 3-D inversion to a practical level without losing resolution. Any existing modelling technique can be included into our framework of mesh decoupling and adaptive sampling to accelerate large-scale 3-D EM inversions.

Peptide/protein-polymer conjugates: synthetic strategies and design concepts.

PubMed

Gauthier, Marc A; Klok, Harm-Anton

2008-06-21

This feature article provides a compilation of tools available for preparing well-defined peptide/protein-polymer conjugates, which are defined as hybrid constructs combining (i) a defined number of peptide/protein segments with uniform chain lengths and defined monomer sequences (primary structure) with (ii) a defined number of synthetic polymer chains. The first section describes methods for post-translational, or direct, introduction of chemoselective handles onto natural or synthetic peptides/proteins. Addressed topics include the residue- and/or site-specific modification of peptides/proteins at Arg, Asp, Cys, Gln, Glu, Gly, His, Lys, Met, Phe, Ser, Thr, Trp, Tyr and Val residues and methods for producing peptides/proteins containing non-canonical amino acids by peptide synthesis and protein engineering. In the second section, methods for introducing chemoselective groups onto the side-chain or chain-end of synthetic polymers produced by radical, anionic, cationic, metathesis and ring-opening polymerization are described. The final section discusses convergent and divergent strategies for covalently assembling polymers and peptides/proteins. An overview of the use of chemoselective reactions such as Heck, Sonogashira and Suzuki coupling, Diels-Alder cycloaddition, Click chemistry, Staudinger ligation, Michael's addition, reductive alkylation and oxime/hydrazone chemistry for the convergent synthesis of peptide/protein-polymer conjugates is given. Divergent approaches for preparing peptide/protein-polymer conjugates which are discussed include peptide synthesis from synthetic polymer supports, polymerization from peptide/protein macroinitiators or chain transfer agents and the polymerization of peptide side-chain monomers.

Indole diterpenoid natural products as the inspiration for new synthetic methods and strategies.

PubMed

Corsello, Michael A; Kim, Junyong; Garg, Neil K

2017-09-01

Indole terpenoids comprise a large class of natural products with diverse structural topologies and a broad range of biological activities. Accordingly, indole terpenoids have and continue to serve as attractive targets for chemical synthesis. Many synthetic efforts over the past few years have focused on a subclass of this family, the indole diterpenoids. This minireview showcases the role indole diterpenoids have played in inspiring the recent development of clever synthetic strategies, and new chemical reactions.

Polymer nanocomposites for lithium battery applications

DOEpatents

Sandi-Tapia, Giselle; Gregar, Kathleen Carrado

2006-07-18

A single ion-conducting nanocomposite of a substantially amorphous polyethylene ether and a negatively charged synthetic smectite clay useful as an electrolyte. Excess SiO₂ improves conductivity and when combined with synthetic hectorite forms superior membranes for batteries. A method of making membranes is also disclosed.