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https://www.readbyqxmd.com/read/29352322/qportal-a-platform-for-data-driven-biomedical-research
#1
Christopher Mohr, Andreas Friedrich, David Wojnar, Erhan Kenar, Aydin Can Polatkan, Marius Cosmin Codrea, Stefan Czemmel, Oliver Kohlbacher, Sven Nahnsen
Modern biomedical research aims at drawing biological conclusions from large, highly complex biological datasets. It has become common practice to make extensive use of high-throughput technologies that produce big amounts of heterogeneous data. In addition to the ever-improving accuracy, methods are getting faster and cheaper, resulting in a steadily increasing need for scalable data management and easily accessible means of analysis. We present qPortal, a platform providing users with an intuitive way to manage and analyze quantitative biological data...
2018: PloS One
https://www.readbyqxmd.com/read/29352257/robust-phenotype-prediction-from-gene-expression-data-using-differential-shrinkage-of-co-regulated-genes
#2
Kourosh Zarringhalam, David Degras, Christoph Brockel, Daniel Ziemek
Discovery of robust diagnostic or prognostic biomarkers is a key to optimizing therapeutic benefit for select patient cohorts - an idea commonly referred to as precision medicine. Most discovery studies to derive such markers from high-dimensional transcriptomics datasets are weakly powered with sample sizes in the tens of patients. Therefore, highly regularized statistical approaches are essential to making generalizable predictions. At the same time, prior knowledge-driven approaches have been successfully applied to the manual interpretation of high-dimensional transcriptomics datasets...
January 19, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29351815/ready-to-use-protein-g-conjugated-gold-nanorods-for-biosensing-and-biomedical-applications
#3
S Centi, F Ratto, F Tatini, S Lai, R Pini
BACKGROUND: Gold nanorods (GNRs) display unique capacity to absorb and scatter near infrared light, which arises from their peculiar composition of surface plasmon resonances. For this reason, GNRs have become an innovative material of great hope in nanomedicine, in particular for imaging and therapy of cancer, as well as in photonic sensing of biological agents and toxic compounds for e.g. biomedical diagnostics, forensic analysis and environmental monitoring. As the use of GNRs is becoming more and more popular, in all these contexts, there is emerging a latent need for simple and versatile protocols for their modification with targeting units that may convey high specificity for any analyte of interest of an end-user...
January 19, 2018: Journal of Nanobiotechnology
https://www.readbyqxmd.com/read/29351786/factors-associated-with-intended-use-of-a-maternity-waiting-home-in-southern-ethiopia-a-community-based-cross-sectional-study
#4
Tienke Vermeiden, Floris Braat, Girmay Medhin, Asheber Gaym, Thomas van den Akker, Jelle Stekelenburg
BACKGROUND: Although Ethiopia is scaling up Maternity Waiting Homes (MWHs) to reduce maternal and perinatal mortality, women's use of MWHs varies markedly between facilities. To maximize MWH utilization, it is essential that policymakers are aware of supportive and inhibitory factors. This study had the objective to describe factors and perceived barriers associated with potential utilization of an MWH among recently delivered and pregnant women in Southern Ethiopia. METHODS: A community-based cross-sectional study was conducted between March and November 2014 among 428 recently delivered and pregnant women in the Eastern Gurage Zone, Southern Ethiopia, where an MWH was established for high-risk pregnant women to await onset of labour...
January 19, 2018: BMC Pregnancy and Childbirth
https://www.readbyqxmd.com/read/29350506/electronic-health-record-super-users-and-under-users-in-ambulatory-care-practices
#5
Juliet Rumball-Smith, Paul Shekelle, Cheryl L Damberg
OBJECTIVES: This study explored variation in the extent of use of electronic health record (EHR)-based health information technology (IT) functionalities across US ambulatory care practices. Use of health IT functionalities in ambulatory care is important for delivering high-quality care, including that provided in coordination with multiple practitioners. STUDY DESIGN: We used data from the 2014 Healthcare Information and Management Systems Society Analytics survey...
January 2018: American Journal of Managed Care
https://www.readbyqxmd.com/read/29350408/calibration-and-non-orthogonality-correction-of-three-axis-hall-sensors-for-the-monitoring-of-mri-workers-exposure-to-static-magnetic-fields
#6
Antoine Delmas, Lamia Belguerras, Nicolas Weber, Freddy Odille, Cédric Pasquier, Jacques Felblinger, Pierre-André Vuissoz
A Magnetic Resonance Imaging (MRI) scanner uses three different electromagnetic fields (EMF) to produce body images: a static permanent magnetic field (MF), several pulsed magnetic gradients, and a radiofrequency pulse. As a result, any occupation that includes an MRI exposes workers to a strong MF. The World Health Organization has now given the monitoring of occupational EMF exposure a high priority. One design for a low-cost, compact MF exposure monitor (« MR exposimeter ») uses a set of three orthogonally assembled Hall sensors...
January 19, 2018: Bioelectromagnetics
https://www.readbyqxmd.com/read/29350336/brain-over-bladder-a-systematic-review-of-dual-cholinesterase-inhibitor-and-urinary-anticholinergic-use
#7
REVIEW
Laura K Triantafylidis, Jenna S Clemons, Emily P Peron, John Roefaro, Kristin M Zimmerman
BACKGROUND: Case reports have demonstrated that dual use of cholinesterase inhibitors (ChIs) and urinary anticholinergics (UAChs) in older adults may be associated with delusions, aggression, changes in cognition, and anxiety, which typically resolve on drug discontinuation. Despite opposing mechanisms of action, these drugs continue to be co-prescribed. OBJECTIVE: This systematic review evaluates cognitive and functional outcomes of dual use of ChIs and UAChs and describes its prevalence...
January 19, 2018: Drugs & Aging
https://www.readbyqxmd.com/read/29350190/development-and-validation-of-a-high-resolution-mapping-platform-to-aid-in-the-public-awareness-of-radiological-hazards
#8
Peter George Martin, Dean Connor, Oliver David Payton, Macarena Leal-Olloqui, Anya C Keatley, Thomas B Scott
The distribution, quantification and exposure-related effects of radiation in the environment, arising from both natural and anthropogenic sources, is of great (and growing) concern for global populations. Recent events at the Fukushima Daiichi Nuclear Plant (FDNPP) have further highlighted the importance of developing radiation mapping technologies that not only contribute to the continued assessment of contamination, but can also serve as an educational tool for members of the public regarding its behaviour and extent...
January 19, 2018: Journal of Radiological Protection: Official Journal of the Society for Radiological Protection
https://www.readbyqxmd.com/read/29349852/what-really-matters-to-people-with-aphasia-when-it-comes-to-group-work-a-qualitative-investigation-of-factors-impacting-participation-and-integration
#9
Lucette Lanyon, Linda Worrall, Miranda Rose
BACKGROUND: Participation in a group environment is an inherently complex undertaking for people with aphasia. It involves engaging in multi-person interactions with other people who may have a range of communication strengths and strategies at their disposal. The potential challenges of community aphasia-group participation and practice has had limited attention in the research literature. Evidence from group users have primarily been drawn from the perspective of long-term members or those participating in highly specific and time-bound groups...
January 19, 2018: International Journal of Language & Communication Disorders
https://www.readbyqxmd.com/read/29349254/prevalence-of-psychological-distress-and-its-association-with-socio-demographic-and-hiv-risk-factors-in-south-africa-findings-of-the-2012-hiv-prevalence-incidence-and-behaviour-survey
#10
J C Mthembu, M L H Mabaso, G Khan, L C Simbayi
Background: In South Africa, there are limited nationally representative data on the prevalence and factors associated with psychological distress. This study used a 2012 nationally representative population-based household survey to investigate factors associated with psychological distress in South Africa. Methods: The survey is based on a multistage stratified cross-sectional design. Univariate and multivariate logistic regression models were fitted to identify factors associated with psychological distress...
December 2017: SSM—Population Health
https://www.readbyqxmd.com/read/29349248/association-of-financial-hardship-with-poor-sleep-health-outcomes-among-men-who-have-sex-with-men
#11
Dustin T Duncan, Su Hyun Park, Yazan A Al-Ajlouni, Lauren Hale, Girardin Jean-Louis, William C Goedel, Basile Chaix, Brian Elbel
Previous studies have identified an association between socioeconomic status and sleep health. While some research has studied this association among sexual minority groups, including men who have sex with men (MSM), they exclusively focused on US-based populations. The interplay between the two in shaping sleep health has not been previously examined on populations residing outside the US. This study considers both determinants, by investigating whether financial hardship is associated with sleep health among a sample of MSM in Paris, France...
December 2017: SSM—Population Health
https://www.readbyqxmd.com/read/29348708/hybphylomaker-target-enrichment-data-analysis-from-raw-reads-to-species-trees
#12
Tomáš Fér, Roswitha E Schmickl
Summary: Hybridization-based target enrichment in combination with genome skimming (Hyb-Seq) is becoming a standard method of phylogenomics. We developed HybPhyloMaker, a bioinformatics pipeline that performs target enrichment data analysis from raw reads to supermatrix-, supertree-, and multispecies coalescent-based species tree reconstruction. HybPhyloMaker is written in BASH and integrates common bioinformatics tools. It can be launched both locally and on a high-performance computer cluster...
2018: Evolutionary Bioinformatics Online
https://www.readbyqxmd.com/read/29347997/openbiodiv-o-ontology-of-the-openbiodiv-knowledge-management-system
#13
Viktor Senderov, Kiril Simov, Nico Franz, Pavel Stoev, Terry Catapano, Donat Agosti, Guido Sautter, Robert A Morris, Lyubomir Penev
BACKGROUND: The biodiversity domain, and in particular biological taxonomy, is moving in the direction of semantization of its research outputs. The present work introduces OpenBiodiv-O, the ontology that serves as the basis of the OpenBiodiv Knowledge Management System. Our intent is to provide an ontology that fills the gaps between ontologies for biodiversity resources, such as DarwinCore-based ontologies, and semantic publishing ontologies, such as the SPAR Ontologies. We bridge this gap by providing an ontology focusing on biological taxonomy...
January 18, 2018: Journal of Biomedical Semantics
https://www.readbyqxmd.com/read/29347969/miro-guidelines-for-minimum-information-for-the-reporting-of-an-ontology
#14
REVIEW
Nicolas Matentzoglu, James Malone, Chris Mungall, Robert Stevens
BACKGROUND: Creation and use of ontologies has become a mainstream activity in many disciplines, in particular, the biomedical domain. Ontology developers often disseminate information about these ontologies in peer-reviewed ontology description reports. There appears to be, however, a high degree of variability in the content of these reports. Often, important details are omitted such that it is difficult to gain a sufficient understanding of the ontology, its content and method of creation...
January 18, 2018: Journal of Biomedical Semantics
https://www.readbyqxmd.com/read/29347834/acute-care-use-for-ambulatory-care-sensitive-conditions-in-high-cost-users-of-medical-care-with-mental-illness-and-addictions
#15
Jennifer M Hensel, Valerie H Taylor, Kinwah Fung, Rebecca Yang, Simone N Vigod
OBJECTIVE: The role of mental illness and addiction in acute care use for chronic medical conditions that are sensitive to ambulatory care management requires focussed attention. This study examines how mental illness or addiction affects risk for repeat hospitalization and/or emergency department use for ambulatory care-sensitive conditions (ACSCs) among high-cost users of medical care. METHOD: A retrospective, population-based cohort study using data from Ontario, Canada...
January 1, 2018: Canadian Journal of Psychiatry. Revue Canadienne de Psychiatrie
https://www.readbyqxmd.com/read/29347074/explosive-percolation-on-directed-networks-due-to-monotonic-flow-of-activity
#16
Alex Waagen, Raissa M D'Souza, Tsai-Ching Lu
An important class of real-world networks has directed edges, and in addition, some rank ordering on the nodes, for instance the popularity of users in online social networks. Yet, nearly all research related to explosive percolation has been restricted to undirected networks. Furthermore, information on such rank-ordered networks typically flows from higher-ranked to lower-ranked individuals, such as follower relations, replies, and retweets on Twitter. Here we introduce a simple percolation process on an ordered, directed network where edges are added monotonically with respect to the rank ordering...
July 2017: Physical Review. E
https://www.readbyqxmd.com/read/29345844/assessing-hepatitis-c-spontaneous-clearance-and-understanding-associated-factors-a-systematic-review-and-meta-analysis
#17
Dewi Nur Aisyah, Laura Shallcross, Alice Jane Hully, Alastair O'Brien, Andrew Hayward
New advances in the treatment of hepatitis C provide high levels of sustained viral response but their expense limits availability in publicly funded health systems. The aim of this review is to estimate the proportion of patients who will spontaneously clear HCV and to identify factors that are associated with clearance, to support better targeting of directly acting antivirals. We searched Ovid Embase, Ovid Medline and Pubmed from 1st January 1994 to 30th June 2015 for studies reporting hepatitis C spontaneous clearance and/or demographic, clinical, and behavioural factors associated with clearance...
January 18, 2018: Journal of Viral Hepatitis
https://www.readbyqxmd.com/read/29345540/cost-effectiveness-analysis-of-asymptomatic-peripheral-artery-disease-screening-with-the-abi-test
#18
Nathan K Itoga, Hataka R Minami, Meenadachi Chelvakumar, Keon Pearson, Matthew M Mell, Eran Bendavid, Douglas K Owens
Screening for asymptomatic peripheral artery disease (aPAD) with the ankle-brachial index (ABI) test is hypothesized to reduce disease progression and cardiovascular (CV) events by identifying individuals who may benefit from early initiation of medical therapy. Using a Markov model, we evaluated the cost effectiveness of initiating medical therapy (e.g. statin and ACE-inhibitor) after a positive ankle-brachial index (ABI) screen in 65-year-old patients. We modeled progression to symptomatic PAD (sPAD) and CV events with and without ABI screening, evaluating differences in costs and quality-adjusted life years (QALYs)...
January 1, 2018: Vascular Medicine
https://www.readbyqxmd.com/read/29345407/hepatitis-c-eradication-with-daa-and-risk-of-liver-cancer-recurrence-the-debate-unrests
#19
Massimo Colombo, Vincenzo Boccaccio
The advent of user friendly and highly successful oral regimens based on direct antiviral agents (DAA), has made a cure of hepatitis C possible in more than 95% of treated patients, including those who were considered difficult to cure with interferon, a vast category including patients with advanced liver disease and those who had a hepatocellular carcinoma (HCC) successfully eradicated by resection or local ablation1 . Despite low rates of treatment uptake and response to therapy with interferon, such hard to treat patients were able to gain significant health benefits, like halting of progression towards liver failure and prevention of second primary tumours, once replication of the hepatitis C virus (HCV) was permanently shut down2,3 ...
January 18, 2018: Journal of Viral Hepatitis
https://www.readbyqxmd.com/read/29345151/emerging-technologies-for-biotherapeutic-bioanalysis-from-a-high-throughput-and-multiplexing-perspective-insights-from-an-aaps-emerging-technology-action-program-committee
#20
Shobha Purushothama, Mark Dysinger, Yao Chen, Karolina Österlund, Johanna Mora, Allison Given Chunyk, Russ Peloquin
This manuscript aims to provide insights and updates on emerging technologies from a throughput and multiplexing perspective and to update readers on changes in previously reported technologies. The technologies discussed range from nascent (ultrasensitive Cira, Intellicyt®, Dynaxi and Captsure™) to the more established (Ella and SQIDlite™). For the nascent technologies, there was an emphasis on user interviews and reviews, where available, to help provide an unbiased view to our readers. For the Ella, a review of published user data as well as author and other user experiences are summarized...
January 18, 2018: Bioanalysis
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