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https://www.readbyqxmd.com/read/28819998/reliability-and-validity-of-the-script-concordance-test-for-postgraduate-students-of-general-practice
#1
Julie Subra, Bruno Chicoulaa, André Stillmunkès, Pierre Mesthé, Stéphane Oustric, Marie-Eve Rougé Bugat
BACKGROUND: The script concordance test (SCT) is a validated method of examining students' clinical reasoning. Medical students' professional skills are assessed during their postgraduate years as they study for a specialist qualification in general practice. However, no specific provision is made for assessing their clinical reasoning during their postgraduate study. OBJECTIVE: The aim was to demonstrate the reliability and validity of the SCT in general practice and to determine if this tool could be used to assess medical students' progress in acquiring clinical reasoning...
December 2017: European Journal of General Practice
https://www.readbyqxmd.com/read/28817602/exploring-the-potential-of-a-structural-alphabet-based-tool-for-mining-multiple-target-conformations-and-target-flexibility-insight
#2
Leslie Regad, Jean-Baptiste Chéron, Dhoha Triki, Caroline Senac, Delphine Flatters, Anne-Claude Camproux
Protein flexibility is often implied in binding with different partners and is essential for protein function. The growing number of macromolecular structures in the Protein Data Bank entries and their redundancy has become a major source of structural knowledge of the protein universe. The analysis of structural variability through available redundant structures of a target, called multiple target conformations (MTC), obtained using experimental or modeling methods and under different biological conditions or different sources is one way to explore protein flexibility...
2017: PloS One
https://www.readbyqxmd.com/read/28817359/developing-the-storyline-for-an-advance-care-planning-video-for-surgery-patients-patient-centered-outcomes-research-engagement-from-stakeholder-summit-to-state-fair
#3
Rebecca A Aslakson, Anne L R Schuster, Thomas J Lynch, Matthew J Weiss, Lydia Gregg, Judith Miller, Sarina R Isenberg, Norah L Crossnohere, Alison M Conca-Cheng, Angelo E Volandes, Thomas J Smith, John F P Bridges
BACKGROUND: Patient-centered outcomes research (PCOR) methods and social learning theory (SLT) require intensive interaction between researchers and stakeholders. Advance care planning (ACP) is valuable before major surgery, but a systematic review found no extant perioperative ACP tools. Consequently, PCOR methods and SLT can inform the development of an ACP educational video for patients and families preparing for major surgery. OBJECTIVE: The objective is to develop and test acceptability of an ACP video storyline...
August 17, 2017: Journal of Palliative Medicine
https://www.readbyqxmd.com/read/28817224/a-novel-post-hoc-method-for-detecting-index-switching-finds-no-evidence-for-increased-switching-on-the-illumina-hiseq-x
#4
Gregory L Owens, Marco Todesco, Emily B M Drummond, Sam Yeaman, Loren H Rieseberg
High throughput sequencing using the Illumina HiSeq platform is a pervasive and critical molecular ecology resource, and has provided the data underlying many recent advances. A recent study has suggested that 'index switching', where reads are misattributed to the wrong sample, may be higher in new versions of the HiSeq platform. This has the potential to invalidate both published and in-progress work across the field. Here, we test for evidence of index switching in an exemplar whole genome shotgun dataset sequenced on both the Illumina HiSeq 2500, which should not have the problem, and the Illumina HiSeq X, which may...
August 17, 2017: Molecular Ecology Resources
https://www.readbyqxmd.com/read/28816025/aromatic-interactions-at-the-ligand-protein-interface-implications-for-the-development-of-docking-scoring-functions
#5
Michal Brylinski
The ability to design and fine-tune non-covalent interactions between organic ligands and proteins is indispensable to rational drug development. Aromatic stacking has long been recognized as one of the key constituents of ligand-protein interfaces. In this communication, we employ a two-parameter geometric model to conduct a large-scale statistical analysis of aromatic contacts in the experimental and computer-generated structures of ligand-protein complexes, considering various combinations of aromatic amino acid residues and ligand rings...
August 17, 2017: Chemical Biology & Drug Design
https://www.readbyqxmd.com/read/28813334/the-future-for-pettlep-a-modern-perspective-on-an-effective-and-established-tool
#6
REVIEW
Dave Collins, Howie J Carson
Over the past 15 years there has been much research into the PETTLEP model of motor imagery, originally designed to improve the quality and impact of imagery interventions on sport performance. This article reviews the most recent trends within this research. Despite a suggested change of underpinning mechanisms involved, there is much support for the positive impact of the model when applied within the sporting context and with engaged participants. The model also appears to have provided impact in fields other than sport, such as medicine and music...
August 2017: Current Opinion in Psychology
https://www.readbyqxmd.com/read/28809854/in-the-grip-of-worry-cerebral-blood-flow-changes-during-worry-induction-and-reappraisal-in-late-life-generalized-anxiety-disorder
#7
H T Karim, D L Tudorascu, M A Butters, S Walker, H J Aizenstein, C Andreescu
Severe worry includes a complex blend of maladaptive affective and cognitive processes. Contrary to other forms of anxiety, there is no consensus in the field regarding the neural basis of worry. To date, no study has looked at neural patterns associated specifically with in-scanner induction and reappraisal of worry. In this study, we attempt to describe distinct components of the 'neural phenomenology' of worry: induction, maintenance, severity and reappraisal, by using a personalized, in-scanner worry script...
August 15, 2017: Translational Psychiatry
https://www.readbyqxmd.com/read/28805806/lung-tumor-exome-files-with-t-cell-receptor-recombinations-a-mouse-model-of-t-cell-infiltrates-reflecting-mutation-burdens
#8
Yaping N Tu, Wei Lue Tong, Timothy J Fawcett, George Blanck
Tumor exomes and RNASeq data were originally intended for obtaining tumor mutations and gene expression profiles, respectively. However, recent work has determined that tumor exome and RNAseq read files contain reads representing T-cell and B-cell receptor (TcR and BcR) recombinations, presumably due to infiltrating lymphocytes. Furthermore, the recovery of immune receptor recombination reads has demonstrated correlations with specific, previously appreciated aspects of tumor immunology. To further understand the usefulness of recovering TcR and BcR recombinations from tumor exome files, we developed a scripted algorithm for recovery of reads representing these recombinations from a previously described mouse model of lung tumorigenesis...
August 14, 2017: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://www.readbyqxmd.com/read/28801691/a-new-data-processing-routine-facilitating-the-identification-of-surface-adhered-proteins-from-bacterial-conditioning-films-via-qcm-d-maldi-tof-ms
#9
Siegfried Hohmann, Anke Neidig, Boris Kühl, Frank Kirschhöfer, Jörg Overhage, Gerald Brenner-Weiß
Conditioning films are an important factor in the initiation and development of microbial biofilms, which are the leading cause of chronic infections associated with medical devices. Here, we analyzed the protein content of conditioning films formed after exposure to supernatants of cultures of the human pathogen Pseudomonas aeruginosa PAO1. Adhesion of substances from the supernatant was monitored using quartz crystal microbalance with dissipation monitoring (QCM-D) sensor chips modified with the commonly used implant material titanium dioxide (TiO2)...
August 11, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28800393/povme-3-0-software-for-mapping-binding-pocket-flexibility
#10
Jeffrey R Wagner, Jesper Sørensen, Nathan Hensley, Celia Wong, Clare Zhu, Taylor Perison, Rommie E Amaro
We present a substantial update to the open-source POVME binding pocket analysis software. New capabilities of POVME 3.0 include a flexible chemical coloring scheme for feature identification, post-analysis tools for comparing large ensembles of pockets (e.g., from molecular dynamics simulations), and the introduction of scripts and methods that facilitate binding pocket comparison and analysis. We envision the use of this software for visualization of binding pocket dynamics, selection of representative structures for ensemble docking, and incorporation of molecular dynamics results into ligand design efforts...
August 11, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/28799637/facilitating-the-analysis-of-the-multifocal-electroretinogram-using-the-free-software-environment-r
#11
Richard Bergholz, Mirjam Rossel, Ralf M Dutescu, Klaas P Vöge, Daniel J Salchow
PURPOSE: The large amount of data rendered by the multifocal electroretinogram (mfERG) can be analyzed and visualized in various ways. The evaluation and comparison of more than one examination is time-consuming and prone to create errors. Using the free software environment R we developed a solution to average the data of multiple examinations and to allow a comparison of different patient groups. METHODS: Data of single mfERG recordings as exported in .csv format from a RETIport 21 system (version 7/03, Roland Consult) or manually compiled ...
August 7, 2017: European Journal of Ophthalmology
https://www.readbyqxmd.com/read/28795584/use-of-an-android-phone-application-for-automated-text-messages-in-international-settings-a-case-study-in-an-hiv-clinical-trial-in-st-petersburg-russia
#12
Leah S Forman, Gregory J Patts, Sharon M Coleman, Elena Blokhina, John Lu, Tatiana Yaroslavtseva, Natalia Gnatienko, Evgeny Krupitsky, Jeffrey H Samet, Christine E Chaisson
BACKGROUND/AIMS: Reproducible outcomes in clinical trials depend on adherence to study protocol. Short message service (also known as text message) reminders have been shown to improve clinical trial adherence in the United States and elsewhere. However, due to systematic differences in mobile data plans, languages, and technology, these systems are not easily translated to international settings. METHODS: To gauge technical capabilities for international projects, we developed SMSMessenger, an automated Android application that uses a US server to send medication reminders to participants in a clinical trial in St...
August 1, 2017: Clinical Trials: Journal of the Society for Clinical Trials
https://www.readbyqxmd.com/read/28795166/an-efficient-strategy-using-k-mers-to-analyse-16s-rrna-sequences
#13
Marcel Martínez-Porchas, Francisco Vargas-Albores
The use of k-mers has been a successful strategy for improving metagenomics studies, including taxonomic classifications, or de novo assemblies, and can be used to obtain sequences of interest from the available databases. The aim of this manuscript was to propose a simple but efficient strategy to generate k-mers and to use them to obtain and analyse in silico 16S rRNA sequence fragments. A total of 513,309 bacterial sequences contained in the SILVA database were considered for the study, and homemade PHP scripts were used to search for specific nucleotide chains, recover fragments of bacterial sequences, make calculations and organize information...
July 2017: Heliyon
https://www.readbyqxmd.com/read/28794860/minion-analysis-and-reference-consortium-phase-2-data-release-and-analysis-of-r9-0-chemistry
#14
Miten Jain, John R Tyson, Matthew Loose, Camilla L C Ip, David A Eccles, Justin O'Grady, Sunir Malla, Richard M Leggett, Ola Wallerman, Hans J Jansen, Vadim Zalunin, Ewan Birney, Bonnie L Brown, Terrance P Snutch, Hugh E Olsen
BACKGROUND: Long-read sequencing is rapidly evolving and reshaping the suite of opportunities for genomic analysis. For the MinION in particular, as both the platform and chemistry develop, the user community requires reference data to set performance expectations and maximally exploit third-generation sequencing. We performed an analysis of MinION data derived from whole genome sequencing of Escherichiacoli K-12 using the R9.0 chemistry, comparing the results with the older R7.3 chemistry...
2017: F1000Research
https://www.readbyqxmd.com/read/28793091/-maltreatment-and-discrimination-in-induced-abortion-care-perception-of-women-in-teresina-state-of-piau%C3%A3-brazil
#15
Alberto Pereira Madeiro, Andréa Cronemberger Rufino
Treatment of complications resulting from induced abortion may be hampered by discriminatory attitudes manifested by healthcare professionals in hospitals and abortion services. This article retrieved stories of institutional abuse directed at women who had an induced abortion in illegal and unsafe conditions. Seventy-eight women admitted to a public hospital in Teresina for complications after an induced abortion were interviewed. A semi-structured script was used with questions about practices and itineraries of abortion and institutional violence during hospitalization...
August 2017: Ciência & Saúde Coletiva
https://www.readbyqxmd.com/read/28789639/cipher-a-flexible-and-extensive-workflow-platform-for-integrative-next-generation-sequencing-data-analysis-and-genomic-regulatory-element-prediction
#16
Carlos Guzman, Iván D'Orso
BACKGROUND: Next-generation sequencing (NGS) approaches are commonly used to identify key regulatory networks that drive transcriptional programs. Although these technologies are frequently used in biological studies, NGS data analysis remains a challenging, time-consuming, and often irreproducible process. Therefore, there is a need for a comprehensive and flexible workflow platform that can accelerate data processing and analysis so more time can be spent on functional studies. RESULTS: We have developed an integrative, stand-alone workflow platform, named CIPHER, for the systematic analysis of several commonly used NGS datasets including ChIP-seq, RNA-seq, MNase-seq, DNase-seq, GRO-seq, and ATAC-seq data...
August 8, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28789592/how-does-emotional-intelligence-relate-to-adolescents-interpretation-of-cues-for-disgust
#17
Lydia Whitaker, Sherri C Widen
This study investigated the relationship of emotional intelligence and age to adolescents' (11-17 years) free labelling responses to proposed facial expressions and situations for disgust. Emotional intelligence continues to develop throughout adolescence and may provide needed cognitive support for linking the disgust face to the disgust script. Emotional intelligence, specifically, regulating one's own and others emotions, and age predicted adolescents' labelling of disgust facial expressions (but not situations) as disgusted...
August 8, 2017: Cognition & Emotion
https://www.readbyqxmd.com/read/28782542/supported-employment-for-veterans-with-traumatic-brain-injury-patient-perspectives
#18
Kathleen F Carlson, Terri K Pogoda, Tess Gilbert, Sandra G Resnick, Elizabeth Twamley, Maya E O'Neil, Nina A Sayer
OBJECTIVE: To quantify the need for, and interest in, Supported Employment (SE) among recent military Veterans with traumatic brain injury (TBI), and to examine characteristics associated with Veterans' interest in SE. DESIGN: Stratified random sample of Iraq and Afghanistan War Veterans confirmed to have TBI through the Veterans Health Administration (VHA) screening and evaluation system. SETTING: Community-based via mailed survey. PARTICIPANTS: We recruited 1,800 Veterans with clinician-confirmed TBI (1,080 mild TBI; 720 moderate/severe TBI) through multiple mailings...
August 3, 2017: Archives of Physical Medicine and Rehabilitation
https://www.readbyqxmd.com/read/28780227/insights-into-the-immune-manipulation-mechanisms-of-pollen-allergens-by-protein-domain-profiling
#19
Seema Patel, Aruna Rani, Arun Goyal
Plant pollens are airborne allergens, as their inhalation causes immune activation, leading to rhinitis, conjunctivitis, sinusitis and oral allergy syndrome. A myriad of pollen proteins belonging to profilin, expansin, polygalacturonase, glucan endoglucosidase, pectin esterase, and lipid transfer protein class have been identified. In the present in silico study, the protein domains of fifteen pollen sequences were extracted from the UniProt database and submitted to the interactive web tool SMART (Simple Modular Architecture Research Tool), for finding the protein domain profiles...
July 29, 2017: Computational Biology and Chemistry
https://www.readbyqxmd.com/read/28777478/a-simplified-method-of-calculating-cpra-for-kidney-allocation-application-in-hong-kong
#20
Yuen Piu Chan, Monica Wing Kan Wong, Lydia Wing Mui Tang, Mengbiao Guo, Wanling Yang, Patrick Ip, Philip Kam Tao Li, Chi Bon Leung, Ka Foon Chau, Johnny Chi Kwong Lam, Nicholas Ka Ming Yeung, Janette Siu Yin Kwok
Calculated panel reactive antibody (cPRA) represents possibility of encountering an incompatible donor for organ transplant candidates, and has gradually replaced traditional PRA as a measurement of sensitization level. We tested two cPRA calculation methods on a cohort of renal candidate (n=613). HLA typing of 563 Chinese deceased renal donors were used to estimate allele and haplotype frequencies of Hong Kong donor pool. The OPTN formula was adopted to generate cPRA (cPRA(freq)). We also incorporated a computer script to compare unacceptable antigens of patients against HLA phenotype of donors...
August 4, 2017: Transplant International: Official Journal of the European Society for Organ Transplantation
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