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https://www.readbyqxmd.com/read/28340363/benchmark-integral-neutron-experiments-for-fe-be-and-c-with-dt-neutron-by-liquid-scintillation-detector
#1
He Tie, Zheng Pu, Xiao Jun, Zhu Chuanxin, Yang Jian, Guo Haiping
The measurements of iron, beryllium and carbon sphere neutron leakage spectra using BC501A detector by DT neutron source are presented. The experiments were carried out in Institute of Nuclear Physics and Chemistry (INPC), China. Neutron leakage spectra in a wide energy range at angles of 0° and 30° from the direction of incident deuteron beam were obtained. The results show the leakage neutron flux decreases notably with the spherical shell increasing when neutron energy >10MeV. When neutron energy <6MeV the leakage neutron distribution tends to lower energy side with the shell increase...
December 20, 2016: Applied Radiation and Isotopes
https://www.readbyqxmd.com/read/28340229/meaningful-use-in-the-safety-net-a-rapid-ethnography-of-patient-portal-implementation-at-five-community-health-centers-in-california
#2
Sara L Ackerman, Urmimala Sarkar, Lina Tieu, Margaret A Handley, Dean Schillinger, Kenneth Hahn, Mekhala Hoskote, Gato Gourley, Courtney Lyles
Objective: US health care institutions are implementing secure websites (patient portals) to achieve federal Meaningful Use (MU) certification. We sought to understand efforts to implement portals in "safety net" health care systems that provide services for low-income populations. Materials and Methods: Our rapid ethnography involved visits at 4 California safety net health systems and in-depth interviews at a fifth. Visits included interviews with clinicians and executives ( n  = 12), informal focus groups with front-line staff ( n  = 35), observations of patient portal sign-up procedures and clinic work, review of marketing materials and portal use data, and a brief survey ( n  = 45)...
March 15, 2017: Journal of the American Medical Informatics Association: JAMIA
https://www.readbyqxmd.com/read/28340161/organizational-benchmarks-for-test-utilization-performance-an-example-based-on-positivity-rates-for-genetic-tests
#3
Joseph Rudolf, Brian R Jackson, Andrew R Wilson, Kristi J Smock, Robert L Schmidt
Objectives: Health care organizations are under increasing pressure to deliver value by improving test utilization management. Many factors, including organizational factors, could affect utilization performance. Past research has focused on the impact of specific interventions in single organizations. The impact of organizational factors is unknown. The objective of this study is to determine whether testing patterns are subject to organizational effects, ie, are utilization patterns for individual tests correlated within organizations...
March 15, 2017: American Journal of Clinical Pathology
https://www.readbyqxmd.com/read/28339480/a-new-accuracy-measure-based-on-bounded-relative-error-for-time-series-forecasting
#4
Chao Chen, Jamie Twycross, Jonathan M Garibaldi
Many accuracy measures have been proposed in the past for time series forecasting comparisons. However, many of these measures suffer from one or more issues such as poor resistance to outliers and scale dependence. In this paper, while summarising commonly used accuracy measures, a special review is made on the symmetric mean absolute percentage error. Moreover, a new accuracy measure called the Unscaled Mean Bounded Relative Absolute Error (UMBRAE), which combines the best features of various alternative measures, is proposed to address the common issues of existing measures...
2017: PloS One
https://www.readbyqxmd.com/read/28339187/accurate-mirna-analysis-in-crude-cell-lysate-by-capillary-electrophoresis-based-hybridization-assay-in-comparison-with-quantitative-reverse-transcription-polymerase-chain-reaction
#5
Liang Hu, Alexander S Stasheuski, David W Wegman, Nan Wu, Burton B Yang, Heyam Hayder, Chun Peng, Stanley K Liu, George M Yousef, Sergey N Krylov
Accurate quantitation of microRNA (miRNA) in tissue samples is required for validation and clinical use of miRNA-based disease biomarkers. Since sample processing, such as RNA extraction, introduces undesirable biases, it is advantageous to measure miRNA in a crude cell lysate. Here we report on accurate miRNA quantitation in crude cell lysate by a CE-based hybridization assay termed direct quantitative analysis of multiple miRNAs (DQAMmiR). Accuracy and precision of miRNA quantitation were determined for miRNA samples in a crude cell lysate, RNA extract from the lysate, and a pure buffer...
March 24, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28338986/genome-wide-estimates-of-transposable-element-insertion-and-deletion-rates-in-drosophila-melanogaster
#6
Jeffrey R Adrion, Michael J Song, Daniel R Schrider, Matthew W Hahn, Sarah Schaack
Knowing the rate at which transposable elements (TEs) insert and delete is critical for understanding their role in genome evolution. We estimated spontaneous rates of insertion and deletion for all known, active TE superfamilies present in a set of Drosophila melanogaster mutation-accumulation (MA) lines using whole genome sequence data. Our results demonstrate that TE insertions far outpace TE deletions in D. melanogaster. We found a significant effect of background genotype on TE activity, with higher rates of insertions in one MA line...
March 9, 2017: Genome Biology and Evolution
https://www.readbyqxmd.com/read/28338332/benchmark-ab-initio-characterization-of-the-complex-potential-energy-surface-of-the-f-ch3ch2cl-reaction
#7
Viktor Tajti, Gabor Czako
We compute benchmark structures, frequencies, and relative energies for the stationary points of the potential energy surface of the F- + CH3CH2Cl reaction using explicitly-correlated ab initio levels of theory. CCSD(T)-F12b geometries and harmonic vibrational frequencies are obtained with the aug-cc-pVTZ and aug-cc-pVDZ basis sets, respectively. The benchmark relative energies are determined using a high-level composite method based on CCSD(T)-F12b/aug-cc-pVQZ frozen-core energies, CCSD(T)-F12b/cc-pCVTZ-F12 core electron correlation effects, and CCSD(T)-F12b/aug-cc-pVDZ zero-point energy corrections...
March 24, 2017: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/28337071/international-standards-for-genomes-transcriptomes-and-metagenomes
#8
Christopher E Mason, Ebrahim Afshinnekoo, Scott Tighe, Shixiu Wu, Shawn Levy
Challenges and biases in preparing, characterizing, and sequencing DNA and RNA can have significant impacts on research in genomics across all kingdoms of life, including experiments in single-cells, RNA profiling, and metagenomics (across multiple genomes). Technical artifacts and contamination can arise at each point of sample manipulation, extraction, sequencing, and analysis. Thus, the measurement and benchmarking of these potential sources of error are of paramount importance as next-generation sequencing (NGS) projects become more global and ubiquitous...
March 17, 2017: Journal of Biomolecular Techniques: JBT
https://www.readbyqxmd.com/read/28336965/exploring-approaches-for-detecting-protein-functional-similarity-within-an-orthology-based-framework
#9
Christian X Weichenberger, Antonia Palermo, Peter P Pramstaller, Francisco S Domingues
Protein functional similarity based on gene ontology (GO) annotations serves as a powerful tool when comparing proteins on a functional level in applications such as protein-protein interaction prediction, gene prioritization, and disease gene discovery. Functional similarity (FS) is usually quantified by combining the GO hierarchy with an annotation corpus that links genes and gene products to GO terms. One large group of algorithms involves calculation of GO term semantic similarity (SS) between all the terms annotating the two proteins, followed by a second step, described as "mixing strategy", which involves combining the SS values to yield the final FS value...
March 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28336789/percutaneous-therapy-for-tricuspid-regurgitation-a-new-frontier-for-interventional-cardiology
#10
Samir R Kapadia, Amar Krishnaswamy, E Murat Tuzcu
Functional tricuspid regurgitation (FTR) is common, whether in association with mitral or aortic valve disease or presenting as an isolated valvular disease. Several studies have shown that TR is associated with poor patient outcomes, though a cause-and-effect relationship of TR to mortality has not been proven. Similarly the impact of surgical treatment of TR on outcomes needs well-controlled randomized trials that are under planning. The current professional society guidelines for treatment of TR are based on expert opinions with a level of evidence C for all indications...
March 23, 2017: Circulation
https://www.readbyqxmd.com/read/28336715/monitoring-cell-surface-n-glycoproteome-dynamics-by-quantitative-proteomics-reveals-mechanistic-insights-into-macrophage-differentiation
#11
Mathias Kalxdorf, Stephan Gade, H Christian Eberl, Marcus Bantscheff
The plasma membrane proteome plays a crucial role in inter- and intracellular signaling, cell survival and cell identity. As such it is a prominent target for pharmacological intervention. The relatively low abundance of this subproteome in conjunction with challenging extractability and solubility still hampers their comprehensive analysis. Here, we combined a chemical glycoprotein tagging strategy with mass spectrometry to enable comprehensive analysis of the cell surface glycoprotome. To benchmark this workflow and provide guidance for cell line selection for functional experiments, we generated an inventory of the N-linked cell surface glycoproteome of 15 standard laboratory human cell lines and three primary lymphocytic cell types...
March 23, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/28336542/seten-a-tool-for-systematic-identification-and-comparison-of-processes-phenotypes-and-diseases-associated-with-rna-binding-proteins-from-condition-specific-clip-seq-profiles
#12
Gungor Budak, Rajneesh Srivastava, Sarath Chandra Janga
RNA-binding proteins (RBPs) control the regulation of gene expression in eukaryotic genomes at post-transcriptional level by binding to their cognate RNAs. Although several variants of CLIP (crosslinking and immunoprecipitation) protocols are currently available to study the global protein-RNA interaction landscape at single nucleotide resolution in a cell, currently there are very few tools which can facilitate understanding and dissecting the functional associations of RBPs from the resulting binding maps...
March 23, 2017: RNA
https://www.readbyqxmd.com/read/28336331/are-neutral-loss-and-internal-product-ions-useful-for-top-down-protein-identification
#13
Kaijie Xiao, Fan Yu, Houqin Fang, Bingbing Xue, Yan Liu, Yunhui Li, Zhixin Tian
Neutral loss and internal product ions have been found to be significant in both peptide and protein tandem mass spectra and they have been proposed to be included in database search and for protein identification. In addition to common canonical b/y ions in collision-based dissociation or c/z ions in electron-based dissociation, inclusion of neutral loss and internal product ions would certainly make better use of tandem mass spectra data; however, their ultimate utility for protein identification with false discovery rate control remains unclear...
March 20, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28335486/implicit-regularization-for-reconstructing-3d-building-rooftop-models-using-airborne-lidar-data
#14
Jaewook Jung, Yoonseok Jwa, Gunho Sohn
With rapid urbanization, highly accurate and semantically rich virtualization of building assets in 3D become more critical for supporting various applications, including urban planning, emergency response and location-based services. Many research efforts have been conducted to automatically reconstruct building models at city-scale from remotely sensed data. However, developing a fully-automated photogrammetric computer vision system enabling the massive generation of highly accurate building models still remains a challenging task...
March 19, 2017: Sensors
https://www.readbyqxmd.com/read/28335445/deciphering-egyptian-hieroglyphs-towards-a-new-strategy-for-navigation-in-museums
#15
Jaime Duque-Domingo, Pedro Javier Herrera, Enrique Valero, Carlos Cerrada
This work presents a novel strategy to decipher fragments of Egyptian cartouches identifying the hieroglyphs of which they are composed. A cartouche is a drawing, usually inside an oval, that encloses a group of hieroglyphs representing the name of a monarch. Aiming to identify these drawings, the proposed method is based on several techniques frequently used in computer vision and consists of three main stages: first, a picture of the cartouche is taken as input and its contour is localized. In the second stage, each hieroglyph is individually extracted and identified...
March 14, 2017: Sensors
https://www.readbyqxmd.com/read/28334741/benchmarks-for-measurement-of-duplicate-detection-methods-in-nucleotide-databases
#16
Qingyu Chen, Justin Zobel, Karin Verspoor
Duplication of information in databases is a major data quality challenge. The presence of duplicates, implying either redundancy or inconsistency, can have a range of impacts on the quality of analyses that use the data. To provide a sound basis for research on this issue in databases of nucleotide sequences, we have developed new, large-scale validated collections of duplicates, which can be used to test the effectiveness of duplicate detection methods. Previous collections were either designed primarily to test efficiency, or contained only a limited number of duplicates of limited kinds...
January 8, 2017: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/28334563/quality-improvement-initiatives-lead-to-reduction-in-nulliparous-term-singleton-vertex-cesarean-delivery-rate
#17
Mary A Vadnais, Michele R Hacker, Neel T Shah, JoAnn Jordan, Anna M Modest, Molly Siegel, Toni H Golen
BACKGROUND: The nulliparous term singleton vertex (NTSV) cesarean delivery rate has been recognized as a meaningful benchmark. Variation in the NTSV cesarean delivery rate among hospitals and providers suggests many hospitals may be able to safely improve their rates. The NTSV cesarean delivery rate at the authors' institution was higher than state and national averages. This study was conducted to determine the influence of a set of quality improvement interventions on the NTSV cesarean delivery rate...
February 2017: Joint Commission Journal on Quality and Patient Safety
https://www.readbyqxmd.com/read/28334482/minimising-central-line-associated-bloodstream-infections-clabsis-rate-in-inserting-central-venous-catheters-cvcs-in-the-adult-intensive-care-units-aicus
#18
REVIEW
Hedaya Hina, Joan McDowell
AIM: To investigate the procedural aspects in inserting central venous catheters that minimise central line associated bloodstream infections rates in adult intensive care units through a structured literature review. BACKGROUND: In adult intensive care units (AICU), central line associated bloodstream infections (CLABSI) are a major cause of high mortality rates and increased in costs due to the consequences of complications. METHODS: Eligible articles were identified by combining indexed keywords using Boolean operator of "AND" under databases of Ovid and CINAHL...
March 23, 2017: Journal of Clinical Nursing
https://www.readbyqxmd.com/read/28334390/seqarray-a-storage-efficient-high-performance-data-format-for-wgs-variant-calls
#19
Xiuwen Zheng, Stephanie M Gogarten, Michael Lawrence, Adrienne Stilp, Matthew P Conomos, Bruce S Weir, Cathy Laurie, David Levine
Motivation: Whole-genome sequencing (WGS) data is being generated at an unprecedented rate. Analysis of WGS data requires a flexible data format to store the different types of DNA variation. Variant call format (VCF) is a general text-based format developed to store variant genotypes and their annotations. However, VCF files are large and data retrieval is relatively slow. Here we introduce a new WGS variant data format implemented in the R/Bioconductor package "SeqArray" for storing variant calls in an arrayoriented manner which provides the same capabilities as VCF, but with multiple high compression options and data access using high-performance parallel computing...
March 16, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334359/effectiveness-of-microbial-and-chemical-insecticides-for-supplemental-control-of-bollworm-on-bt-and-non-bt-cottons
#20
N S Little, R G Luttrell, K C Allen, O P Perera, K A Parys
Laboratory and field experiments were conducted to determine the effectiveness of microbial and chemical insecticides for supplemental control of bollworm, Helicoverpa zea (Boddie) (Lepidoptera: Noctuidae), on non-Bt (DP1441RF) and Bt (DP1321B2RF) cottons. Neonate and 3rd instar larvae survival was evaluated on leaf tissue treated with microbial and chemical insecticides including a commercial formulation of Bacillus thuringiensis (Dipel), a Heliothis (Helicoverpa) nuclear polyhedrosis virus (NPV; Gemstar), λ-cyhalothrin (Karate Z), and chlorantraniliprole (Prevathon)...
March 18, 2017: Journal of Economic Entomology
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