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https://www.readbyqxmd.com/read/28453644/traitrateprop-a-web-server-for-the-detection-of-trait-dependent-evolutionary-rate-shifts-in-sequence-sites
#1
Eli Levy Karin, Haim Ashkenazy, Susann Wicke, Tal Pupko, Itay Mayrose
Understanding species adaptation at the molecular level has been a central goal of evolutionary biology and genomics research. This important task becomes increasingly relevant with the constant rise in both genotypic and phenotypic data availabilities. The TraitRateProp web server offers a unique perspective into this task by allowing the detection of associations between sequence evolution rate and whole-organism phenotypes. By analyzing sequences and phenotypes of extant species in the context of their phylogeny, it identifies sequence sites in a gene/protein whose evolutionary rate is associated with shifts in the phenotype...
April 27, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28444340/ligpargen-web-server-an-automatic-opls-aa-parameter-generator-for-organic-ligands
#2
Leela S Dodda, Israel Cabeza de Vaca, Julian Tirado-Rives, William L Jorgensen
The accurate calculation of protein/nucleic acid-ligand interactions or condensed phase properties by force field-based methods require a precise description of the energetics of intermolecular interactions. Despite the progress made in force fields, small molecule parameterization remains an open problem due to the magnitude of the chemical space; the most critical issue is the estimation of a balanced set of atomic charges with the ability to reproduce experimental properties. The LigParGen web server provides an intuitive interface for generating OPLS-AA/1...
April 21, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28442452/homestyles-a-web-based-childhood-obesity-prevention-program-for-families-with-preschool-children-protocol-for-a-randomized-controlled-trial
#3
Carol Byrd-Bredbenner, Jennifer Martin-Biggers, Mallory Koenings, Virginia Quick, Nobuko Hongu, John Worobey
BACKGROUND: The home environment is where young children spend most of their time, and is critically important to supporting behaviors that promote health and prevent obesity. However, the home environment and lifestyle patterns remain understudied, and few interventions have investigated parent-led makeovers designed to create home environments that are supportive of optimal child health and healthy child weights. OBJECTIVE: The aim of the HomeStyles randomized controlled trial (RCT) is to determine whether the Web-based HomeStyles intervention enables and motivates parents to shape the weight-related aspects of their home environments and lifestyle behavioral practices (diet, exercise, and sleep) to be more supportive of their preschool children's optimal health and weight...
April 25, 2017: JMIR Research Protocols
https://www.readbyqxmd.com/read/28427994/global-dynamics-in-a-stoichiometric-food-chain-model-with-two-limiting-nutrients
#4
Ming Chen, Meng Fan, Yang Kuang
Ecological stoichiometry studies the balance of energy and multiple chemical elements in ecological interactions to establish how the nutrient content affect food-web dynamics and nutrient cycling in ecosystems. In this study, we formulate a food chain with two limiting nutrients in the form of a stoichiometric population model. A comprehensive global analysis of the rich dynamics of the targeted model is explored both analytically and numerically. Chaotic dynamic is observed in this simple stoichiometric food chain model and is compared with traditional model without stoichiometry...
April 18, 2017: Mathematical Biosciences
https://www.readbyqxmd.com/read/28425075/technical-note-real-time-web-based-wireless-visual-guidance-system-for-radiotherapy
#5
Danny Lee, Siyong Kim, Jatinder R Palta, Taeho Kim
Describe a Web-based wireless visual guidance system that mitigates issues associated with hard-wired audio-visual aided patient interactive motion management systems that are cumbersome to use in routine clinical practice. Web-based wireless visual display duplicates an existing visual display of a respiratory-motion management system for visual guidance. The visual display of the existing system is sent to legacy Web clients over a private wireless network, thereby allowing a wireless setting for real-time visual guidance...
April 19, 2017: Australasian Physical & Engineering Sciences in Medicine
https://www.readbyqxmd.com/read/28419807/otolaryngology-residency-program-research-resources-and-scholarly-productivity
#6
Jennifer A Villwock, Chelsea S Hamill, Brian D Nicholas, Jesse T Ryan
Objective To delineate research resources available to otolaryngology residents and their impact on scholarly productivity. Study Design Survey of current otolaryngology program directors. Setting Otolaryngology residency programs. Subjects and Methods An anonymous web-based survey was sent to 98 allopathic otolaryngology training program directors. Fisher exact tests and nonparametric correlations were used to determine statistically significant differences among various strata of programs. Results Thirty-nine percent (n = 38) of queried programs responded...
April 1, 2017: Otolaryngology—Head and Neck Surgery
https://www.readbyqxmd.com/read/28414020/modifying-alcohol-consumption-to-reduce-obesity-macro-development-and-feasibility-trial-of-a-complex-community-based-intervention-for-men
#7
Iain K Crombie, Kathryn B Cunningham, Linda Irvine, Brian Williams, Falko F Sniehotta, John Norrie, Ambrose Melson, Claire Jones, Andrew Briggs, Peter M Rice, Marcus Achison, Andrew McKenzie, Elena Dimova, Peter W Slane
BACKGROUND: Obese men who consume alcohol are at a greatly increased risk of liver disease; those who drink > 14 units of alcohol per week have a 19-fold increased risk of dying from liver disease. OBJECTIVES: To develop an intervention to reduce alcohol consumption in obese men and to assess the feasibility of a randomised controlled trial (RCT) to investigate its effectiveness. DESIGN OF THE INTERVENTION: The intervention was developed using formative research, public involvement and behaviour change theory...
April 2017: Health Technology Assessment: HTA
https://www.readbyqxmd.com/read/28413269/localization-of-epidural-space-a-review-of-available-technologies
#8
REVIEW
Hesham Elsharkawy, Abraham Sonny, Ki Jinn Chin
Although epidural analgesia is widely used for pain relief, it is associated with a significant failure rate. Loss of resistance technique, tactile feedback from the needle, and surface landmarks are traditionally used to guide the epidural needle tip into the epidural space (EDS). The aim of this narrative review is to critically appraise new and emerging technologies for identification of EDS and their potential role in the future. The PubMed, Cochrane Central Register of Controlled Clinical Studies, and Web of Science databases were searched using predecided search strategies, yielding 1048 results...
January 2017: Journal of Anaesthesiology, Clinical Pharmacology
https://www.readbyqxmd.com/read/28409109/flexor-pollicis-longus-tendoscopy
#9
Tun Hing Lui
The deep palmar spaces of the hand include the midpalmar space, the hypothenar space, the thenar space, space of Parona, and the interdigital web spaces. There are various communications between different spaces. These communications are of clinical importance in explaining the spread of inflammatory, infectious, and even neoplasic processes that involve this region. Surgical incision and drainage of all potentially communicating spaces and compartments is mandatory in deep hand infections. The purpose of this technical note is to describe the minimally invasive approach of endoscopic drainage and debridement of the flexor pollicis longus tendon sheath, radial bursa, and thenar space...
February 2017: Arthroscopy Techniques
https://www.readbyqxmd.com/read/28403456/national-survey-of-smoking-and-smoking-cessation-education-within-uk-midwifery-school-curricula
#10
Jane Forman, James M Harris, Fabiana Lorencatto, Andy McEwen, Maria J Duaso
Introduction: Smoking in pregnancy in the United Kingdom remains prevalent (11%). To encourage and support pregnant smokers to quit, midwives must be adequately trained to do so. Substantial curricular gaps have been identified in the smoking cessation training of medical, nursing, and optometry schools. This study aimed to identify the extent of smoking cessation training and assessment in UK midwifery schools. Methods: All UK undergraduate midwifery schools (n = 53) were invited to complete a web-based survey of their curricular coverage and assessment related to smoking cessation, and perceived barriers to delivering smoking cessation training...
May 1, 2017: Nicotine & Tobacco Research: Official Journal of the Society for Research on Nicotine and Tobacco
https://www.readbyqxmd.com/read/28399861/health-care-providers-attitudes-towards-transfer-and-transition-in-young-persons-with-long-term-illness-a-web-based-survey
#11
Carina Sparud-Lundin, Malin Berghammer, Philip Moons, Ewa-Lena Bratt
BACKGROUND: Transition programs in health care for young persons with special health care needs aim to maximize lifelong functioning. Exploring health care professionals' perspective may increase the possibility of successful implementation of transition programs. The aim was to survey health care professionals' attitudes towards components and barriers on transition and transfer in young people with long-term medical conditions with special health care needs. METHODS: A cross-sectional web-based survey was sent by e-mail to 529 physicians and nurses in Swedish pediatric and adult outpatient clinics...
April 11, 2017: BMC Health Services Research
https://www.readbyqxmd.com/read/28389853/toward-the-development-of-a-feature-space-representation-for-a-complex-natural-category-domain
#12
Robert M Nosofsky, Craig A Sanders, Brian J Meagher, Bruce J Douglas
This article reports data sets aimed at the development of a detailed feature-space representation for a complex natural category domain, namely 30 common subtypes of the categories of igneous, metamorphic, and sedimentary rocks. We conducted web searches to develop a library of 12 tokens each of the 30 subtypes, for a total of 360 rock pictures. In one study, subjects provided ratings along a set of 18 hypothesized primary dimensions involving visual characteristics of the rocks. In other studies, subjects provided similarity judgments among pairs of the rock tokens...
April 7, 2017: Behavior Research Methods
https://www.readbyqxmd.com/read/28389127/participatory-quantitative-health-impact-assessment-of-urban-and-transport-planning-in-cities-a-review-and-research-needs
#13
REVIEW
Mark J Nieuwenhuijsen, Haneen Khreis, Ersilia Verlinghieri, Natalie Mueller, David Rojas-Rueda
INTRODUCTION: Urban and transport planning have large impacts on public health, but these are generally not explicitly considered and/or quantified, partly because there are no comprehensive models, methods and tools readily available. Air pollution, noise, temperature, green space, motor vehicle crashes and physical activity are important pathways linking urban and transport planning and public health. For policy decision-making, it is important to understand and be able to quantify the full-chain from source through pathways to health effects and impacts to substantiate and effectively target actions...
June 2017: Environment International
https://www.readbyqxmd.com/read/28382512/microsurgery-guided-by-sequential-preoperative-lymphography-using-68-ga-neb-pet-and-mri-in-patients-with-lower-limb-lymphedema
#14
Xiao Long, Jingjing Zhang, Daming Zhang, Chao Gao, Chongwei Chi, Elan Yang, Huadan Xue, Lixin Lang, Gang Niu, Zhaohui Zhu, Fang Li, Xiaoyuan Chen
OBJECTIVE: The popularity of contemporary microsurgical techniques in treatment of lower-limb lymphedema calls for better visualization of the lymphatic system, both preoperatively and intra-operatively. The aim of this prospective study was to investigate the feasibility of a novel combination of (68)Ga-NEB positron emission tomography (PET) with magnetic resonance lymphography (MRL) in evaluating lymphedema and guiding surgical intervention. METHODS: A total of 11 patients (F 9, M 2, age range 29-69 y) with lower-limb lymphedema classified into stage I to III were recruited...
April 5, 2017: European Journal of Nuclear Medicine and Molecular Imaging
https://www.readbyqxmd.com/read/28381392/-whywetweetmh-understanding-why-people-use-twitter-to-discuss-mental-health-problems
#15
Natalie Berry, Fiona Lobban, Maksim Belousov, Richard Emsley, Goran Nenadic, Sandra Bucci
BACKGROUND: Use of the social media website Twitter is highly prevalent and has led to a plethora of Web-based social and health-related data available for use by researchers. As such, researchers are increasingly using data from social media to retrieve and analyze mental health-related content. However, there is limited evidence regarding why people use this emerging platform to discuss mental health problems in the first place. OBJECTIVES: The aim of this study was to explore the reasons why individuals discuss mental health on the social media website Twitter...
April 5, 2017: Journal of Medical Internet Research
https://www.readbyqxmd.com/read/28375759/baobab-laboratory-information-management-system-development-of-an-open-source-laboratory-information-management-system-for-biobanking
#16
Hocine Bendou, Lunga Sizani, Tim Reid, Carmen Swanepoel, Toluwaleke Ademuyiwa, Roxana Merino-Martinez, Heimo Meuller, Akin Abayomi, Alan Christoffels
A laboratory information management system (LIMS) is central to the informatics infrastructure that underlies biobanking activities. To date, a wide range of commercial and open-source LIMSs are available and the decision to opt for one LIMS over another is often influenced by the needs of the biobank clients and researchers, as well as available financial resources. The Baobab LIMS was developed by customizing the Bika LIMS software ( www.bikalims.org ) to meet the requirements of biobanking best practices...
April 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28375006/fragment-database-fdb-17
#17
Ricardo Visini, Mahendra Awale, Jean-Louis Reymond
To better understand chemical space we recently enumerated the database GDB-17 containing 166.4 billion possible molecules up to 17 atoms of C, N, O, S and halogen following the simple rules of chemical stability and synthetic feasibility. However, due to the combinatorial explosion caused by systematic enumeration GDB-17 is strongly biased toward the largest, functionally and stereochemically most complex molecules and far too large for most virtual screening tools. Herein we selected a much smaller subset of GDB-17, called the fragment database FDB-17, which contains 10 million fragmentlike molecules evenly covering a broad value range for molecular size, polarity, and stereochemical complexity...
April 24, 2017: Journal of Chemical Information and Modeling
https://www.readbyqxmd.com/read/28369917/food-web-structure-of-willow-galling-sawflies-and-their-natural-enemies-across-europe
#18
Jens-Peter Kopelke, Tommi Nyman, Kévin Cazelles, Dominique Gravel, Steve Vissault, Tomas Roslin
Communities consist of species and their interactions. They can thus be described as networks, with species as nodes and interactions as links. Within such networks, the diversity of nodes and the distribution of links may affect patterns of energy transfer between trophic levels, the dynamics of the system, and the outcome in terms of ecosystem functioning. To date, most descriptions of networks have focused on single or relatively few sites, and have oftentimes been built on poorly-resolved nodes and links...
March 29, 2017: Ecology
https://www.readbyqxmd.com/read/28369225/aozan-an-automated-post-sequencing-data-processing-pipeline
#19
Sandrine Perrin, Cyril Firmo, Sophie Lemoine, Stéphane Le Crom, Laurent Jourdren
Motivation: Data management and quality control of output from Illumina sequencers is a disk space- and time-consuming task. Thus, we developed Aozan to automatically handle data transfer, demultiplexing, conversion, and quality control once a run has finished. This software greatly improves run data management and the monitoring of run statistics via automatic emails and HTML web reports. Availability and Implementation: Aozan is implemented in Java and Python, supported on Linux systems, and distributed under the GPLv3 License at: http://www...
March 24, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28361684/nearender-an-r-package-for-functional-interpretation-of-omics-data-via-network-enrichment-analysis
#20
Ashwini Jeggari, Andrey Alexeyenko
BACKGROUND: The statistical evaluation of pathway enrichment, i.e. of gene profiles' confluence to the pathway level, allows exploring molecular landscapes using functionally annotated gene sets. However, pathway scores can also be used as predictive features in machine learning. That requires, firstly, increasing statistical power and biological relevance via a network enrichment analysis (NEA) and, secondly, a fast and convenient procedure for rendering the original data into a space of pathway scores...
March 23, 2017: BMC Bioinformatics
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