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https://www.readbyqxmd.com/read/27909154/towards-a-novel-modular-architecture-for-cern-radiation-monitoring
#1
Hamza Boukabache, Michel Pangallo, Gael Ducos, Nicola Cardines, Antonio Bellotta, Ciarán Toner, Daniel Perrin, Doris Forkel-Wirth
The European Organization for Nuclear Research (CERN) has the legal obligation to protect the public and the people working on its premises from any unjustified exposure to ionising radiation. In this context, radiation monitoring is one of the main concerns of the Radiation Protection Group. After 30 y of reliable service, the ARea CONtroller (ARCON) system is approaching the end of its lifecycle, which raises the need for new, more efficient radiation monitors with a high level of modularity to ensure better maintainability...
November 30, 2016: Radiation Protection Dosimetry
https://www.readbyqxmd.com/read/27906471/negotiated-safety-components-context-and-use-an-integrative-literature-review
#2
REVIEW
NataIie M Leblanc, Jason W Mitchell, Joseph P De Santis
AIM: To examine the components and use of negotiated safety in the context of HIV prevention and to identify reported factors associated with the concept. BACKGROUND: There is an emerging interest in dyadic approaches to address HIV transmission. Although there are theoretical foundations for how interpersonal relationships influence individual behaviour, how these dyadic processes influence on health is still not wholly understood. DESIGN: Integrative review of empirical and theoretical literature...
December 1, 2016: Journal of Advanced Nursing
https://www.readbyqxmd.com/read/27903916/scnaphase-using-haplotype-resolved-read-depth-to-genotype-somatic-copy-number-alterations-from-low-cellularity-aneuploid-tumors
#3
Wenhan Chen, Alan J Robertson, Devika Ganesamoorthy, Lachlan J M Coin
Accurate identification of copy number alterations is an essential step in understanding the events driving tumor progression. While a variety of algorithms have been developed to use high-throughput sequencing data to profile copy number changes, no tool is able to reliably characterize ploidy and genotype absolute copy number from tumor samples that contain less than 40% tumor cells. To increase our power to resolve the copy number profile from low-cellularity tumor samples, we developed a novel approach that pre-phases heterozygote germline single nucleotide polymorphisms (SNPs) in order to replace the commonly used 'B-allele frequency' with a more powerful 'parental-haplotype frequency'...
November 29, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27899658/the-big-data-center-from-deposition-to-integration-to-translation
#4
(no author information available yet)
Biological data are generated at unprecedentedly exponential rates, posing considerable challenges in big data deposition, integration and translation. The BIG Data Center, established at Beijing Institute of Genomics (BIG), Chinese Academy of Sciences, provides a suite of database resources, including (i) Genome Sequence Archive, a data repository specialized for archiving raw sequence reads, (ii) Gene Expression Nebulas, a data portal of gene expression profiles based entirely on RNA-Seq data, (iii) Genome Variation Map, a comprehensive collection of genome variations for featured species, (iv) Genome Warehouse, a centralized resource housing genome-scale data with particular focus on economically important animals and plants, (v) Methylation Bank, an integrated database of whole-genome single-base resolution methylomes and (vi) Science Wikis, a central access point for biological wikis developed for community annotations...
November 28, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27899627/improvements-to-patric-the-all-bacterial-bioinformatics-database-and-analysis-resource-center
#5
Alice R Wattam, James J Davis, Rida Assaf, Sébastien Boisvert, Thomas Brettin, Christopher Bun, Neal Conrad, Emily M Dietrich, Terry Disz, Joseph L Gabbard, Svetlana Gerdes, Christopher S Henry, Ronald W Kenyon, Dustin Machi, Chunhong Mao, Eric K Nordberg, Gary J Olsen, Daniel E Murphy-Olson, Robert Olson, Ross Overbeek, Bruce Parrello, Gordon D Pusch, Maulik Shukla, Veronika Vonstein, Andrew Warren, Fangfang Xia, Hyunseung Yoo, Rick L Stevens
The Pathosystems Resource Integration Center (PATRIC) is the bacterial Bioinformatics Resource Center (https://www.patricbrc.org). Recent changes to PATRIC include a redesign of the web interface and some new services that provide users with a platform that takes them from raw reads to an integrated analysis experience. The redesigned interface allows researchers direct access to tools and data, and the emphasis has changed to user-created genome-groups, with detailed summaries and views of the data that researchers have selected...
November 29, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27899471/when-science-becomes-too-easy-science-popularization-inclines-laypeople-to-underrate-their-dependence-on-experts
#6
Lisa Scharrer, Yvonne Rupieper, Marc Stadtler, Rainer Bromme
Science popularization fulfills the important task of making scientific knowledge understandable and accessible for the lay public. However, the simplification of information required to achieve this accessibility may lead to the risk of audiences relying overly strongly on their own epistemic capabilities when making judgments about scientific claims. Moreover, they may underestimate how the division of cognitive labor makes them dependent on experts. This article reports an empirical study demonstrating that this "easiness effect of science popularization" occurs when laypeople read authentic popularized science depictions...
November 29, 2016: Public Understanding of Science
https://www.readbyqxmd.com/read/27895471/adherence-satisfaction-and-preferences-for-treatment-in-patients-with-psoriasis-in-the-european-union-a-systematic-review-of-the-literature
#7
I Belinchón, R Rivera, C Blanch, M Comellas, L Lizán
BACKGROUND AND OBJECTIVE: Adherence to treatment in patients with psoriasis is often poor. An investigation of patient preferences and satisfaction with treatment may be important, based on the expected correlation with therapy compliance. This paper aims to examine and describe the current literature on patient preferences, satisfaction and adherence to treatment for psoriasis in the European Union (EU). METHODS: Electronic searches were conducted using PubMed, ISI Web of Knowledge, Scopus, Spanish databases and Google Scholar...
2016: Patient Preference and Adherence
https://www.readbyqxmd.com/read/27893777/simulating-next-generation-sequencing-datasets-from-empirical-mutation-and-sequencing-models
#8
Zachary D Stephens, Matthew E Hudson, Liudmila S Mainzer, Morgan Taschuk, Matthew R Weber, Ravishankar K Iyer
An obstacle to validating and benchmarking methods for genome analysis is that there are few reference datasets available for which the "ground truth" about the mutational landscape of the sample genome is known and fully validated. Additionally, the free and public availability of real human genome datasets is incompatible with the preservation of donor privacy. In order to better analyze and understand genomic data, we need test datasets that model all variants, reflecting known biology as well as sequencing artifacts...
2016: PloS One
https://www.readbyqxmd.com/read/27891100/a-review-about-functional-illiteracy-definition-cognitive-linguistic-and-numerical-aspects
#9
REVIEW
Réka Vágvölgyi, Andra Coldea, Thomas Dresler, Josef Schrader, Hans-Christoph Nuerk
Formally, availability of education for children has increased around the world over the last decades. However, despite having a successful formal education career, adults can become functional illiterates. Functional illiteracy means that a person cannot use reading, writing, and calculation skills for his/her own and the community's development. Functional illiteracy has considerable negative effects not only on personal development, but also in economic and social terms. Although functional illiteracy has been highly publicized in mass media in the recent years, there is limited scientific knowledge about the people termed functional illiterates; definition, assessment, and differential diagnoses with respect to related numerical and linguistic impairments are rarely studied and controversial...
2016: Frontiers in Psychology
https://www.readbyqxmd.com/read/27885036/visionary-medicine-speculative-fiction-racial-justice-and-octavia-butler-s-bloodchild
#10
John Carlo Pasco, Camille Anderson, Sayantani DasGupta
Medical students across the USA have increasingly made the medical institution a place for speculating racially just futures. From die-ins in Fall 2014 to silent protests in response to racially motivated police brutality, medical schools have responded to the public health crisis that is racial injustice in the USA. Reading science fiction may benefit healthcare practitioners who are already invested in imagining a more just, healthier futurity. Fiction that rewrites the future in ways that undermine contemporary power regimes has been termed 'visionary fiction'...
December 2016: Medical Humanities
https://www.readbyqxmd.com/read/27881843/comparison-of-exome-based-hla-class-i-genotyping-tools-identification-of-platform-specific-genotyping-errors
#11
Kazuma Kiyotani, Tu H Mai, Yusuke Nakamura
Accurate human leukocyte antigen (HLA) genotyping is critical in studies involving the immune system. Several algorithms to estimate HLA genotypes from whole-exome data were developed. We compared the accuracy of seven algorithms, including Optitype, Polysolver and PHLAT, as well as investigated patterns and possible causes of miscalls using 12 clinical samples and 961 individuals from the 1000 Genomes Project. Optitype showed the highest accuracy of 97.2% for HLA class I alleles at the second field resolution, followed by 94...
November 24, 2016: Journal of Human Genetics
https://www.readbyqxmd.com/read/27876817/a-framework-for-the-detection-of-de-novo-mutations-in-family-based-sequencing-data
#12
Laurent C Francioli, Mircea Cretu-Stancu, Kiran V Garimella, Menachem Fromer, Wigard P Kloosterman, Kaitlin E Samocha, Benjamin M Neale, Mark J Daly, Eric Banks, Mark A DePristo, Paul Iw de Bakker
Germline mutation detection from human DNA sequence data is challenging due to the rarity of such events relative to the intrinsic error rates of sequencing technologies and the uneven coverage across the genome. We developed PhaseByTransmission (PBT) to identify de novo single nucleotide variants and short insertions and deletions (indels) from sequence data collected in parent-offspring trios. We compute the joint probability of the data given the genotype likelihoods in the individual family members, the known familial relationships and a prior probability for the mutation rate...
November 23, 2016: European Journal of Human Genetics: EJHG
https://www.readbyqxmd.com/read/27873412/what-s-in-a-name-word-inflation-punctuation-abbreviation-and-cloud-formation
#13
Susie J Schofield, Pieta G Schofield
The title of a journal paper offers a crucial portal into any scientific field. It determines whether interested readers locate the paper and whether others have enough interest sparked to lead them to read the abstract. This article looks at authored journal paper titles in Medical Education over its first 50 years (n = 6357) of publication and Medical Teacher over its first 35 years of publication, revealing both trends in areas of interest and how those interests are worded. Word clouds per decade showed a shift from teaching to learning and from examination to assessment, and new foci on learning, patients, research and feedback in both journals...
December 2016: Medical Education
https://www.readbyqxmd.com/read/27872116/reporting-quality-of-abstracts-of-trials-published-in-top-five-pain-journals-a-protocol-for-a-systematic-survey
#14
Kamath Sriganesh, Suparna Bharadwaj, Mei Wang, Luciana P F Abbade, Rachel Couban, Lawrence Mbuagbaw, Lehana Thabane
INTRODUCTION: Abstracts of randomised controlled trials (RCTs) are often the first and the only source read in a journal by busy healthcare providers. This necessitates good reporting of abstracts. The quality of reporting of abstracts, though gradually improving over time, is still not uniform across medical journals. Improvement in completeness of reporting of abstracts has been documented in general medical journals after the publication of the consolidated standards of reporting trials (CONSORT) extension for abstracts in 2008...
November 21, 2016: BMJ Open
https://www.readbyqxmd.com/read/27871178/use-of-polyethylene-glycol-in-functional-constipation-and-fecal-impaction
#15
Miguel Mínguez, Antonio López Higueras, Javier Júdez
OBJECTIVE: The objective of this study was to evaluate in an analytical and descriptive manner the evidence published so far on the use of polyethylene glycol (PEG), with or without electrolytes, in the management of functional constipation and the treatment of fecal impaction. METHODOLOGY: Search on MEDLINE, EMBASE and Cochrane databases until May 2016 of all publications adjusted to the following terms: constipation AND/OR fecal impaction AND (PEG OR polyethylene glycol OR macrogol OR movicol OR idralax OR miralax OR transipeg OR forlax OR golytely OR isocolan OR mulytely) NOT colonoscopy...
November 22, 2016: Revista Española de Enfermedades Digestivas
https://www.readbyqxmd.com/read/27868333/to-measure-or-not-to-measure-direct-oral-anticoagulants-before-surgery-or-invasive-procedures-comment
#16
R Selby, Z Shah, L Black, J Ongteco, S Kulkarni, D Piraino
With interest, we read a recent publication by Armando Tripodi, aimed at discussing whether direct oral anticoagulants (DOACs) should be measured prior to surgical or invasive procedures [1]. Although specific assays for the assessment of anticoagulant activity of the direct oral anticoagulants (dabigatran and the oral factor Xa inhibitors) have been developed and are easy to perform on automated coagulation analyzers [1-3], they are currently not available in the majority of Ontario laboratories. Since the APTT is readily available at most of our laboratories, we studied the effect of different dabigatran concentrations on the APTT, using six different APTT reagents and performed on three coagulation analyzer platforms...
November 21, 2016: Journal of Thrombosis and Haemostasis: JTH
https://www.readbyqxmd.com/read/27867804/dfast-and-daga-web-based-integrated-genome-annotation-tools-and-resources
#17
Yasuhiro Tanizawa, Takatomo Fujisawa, Eli Kaminuma, Yasukazu Nakamura, Masanori Arita
Quality assurance and correct taxonomic affiliation of data submitted to public sequence databases have been an everlasting problem. The DDBJ Fast Annotation and Submission Tool (DFAST) is a newly developed genome annotation pipeline with quality and taxonomy assessment tools. To enable annotation of ready-to-submit quality, we also constructed curated reference protein databases tailored for lactic acid bacteria. DFAST was developed so that all the procedures required for DDBJ submission could be done seamlessly online...
2016: Bioscience of Microbiota, Food and Health
https://www.readbyqxmd.com/read/27865728/the-prevalence-and-demographic-associations-of-presenting-near-vision-impairment-among-adults-living-in-the-united-states
#18
Nazlee Zebardast, David S Friedman, Susan Vitale
PURPOSE: Estimate prevalence of presenting near-vision impairment (PNVI) among people =50years in the United States (US) and examine associations with socio-demographic characteristics. DESIGN: Cross-sectional study METHODS: 11016 of 12781 (88.5%) US adults =50 years participated in the National Health and Nutrition Examination Survey (NHANES) between 1999-2008 with recorded near visual acuity. PNVI was defined as presenting near-vision worse than 20/40; functional near-vision impairment (FNVI) was defined as at least "moderate-difficulty" with either reading newsprint or near-work...
November 16, 2016: American Journal of Ophthalmology
https://www.readbyqxmd.com/read/27863463/the-chip-seq-tools-and-web-server-a-resource-for-analyzing-chip-seq-and-other-types-of-genomic-data
#19
Giovanna Ambrosini, René Dreos, Sunil Kumar, Philipp Bucher
BACKGROUND: ChIP-seq and related high-throughput chromatin profilig assays generate ever increasing volumes of highly valuable biological data. To make sense out of it, biologists need versatile, efficient and user-friendly tools for access, visualization and itegrative analysis of such data. RESULTS: Here we present the ChIP-Seq command line tools and web server, implementing basic algorithms for ChIP-seq data analysis starting with a read alignment file. The tools are optimized for memory-efficiency and speed thus allowing for processing of large data volumes on inexpensive hardware...
November 18, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27862757/easy-read-and-accessible-information-for-people-with-intellectual-disabilities-is-it-worth-it-a-meta-narrative-literature-review
#20
REVIEW
Deborah Chinn, Claire Homeyard
BACKGROUND: The proliferation of "accessible information" for people with intellectual disabilities in UK health care has accelerated in recent years, underpinned by policy guidance alongside the recent introduction of mandatory standards. However, questions have been raised as to the impact of such resources as a means of enhancing involvement in health care and addressing health inequalities. OBJECTIVE: To review and synthesize the evidence from different approaches used to evaluate the impact of accessible information for people with intellectual disabilities using a meta-narrative approach...
November 16, 2016: Health Expectations: An International Journal of Public Participation in Health Care and Health Policy
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