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https://www.readbyqxmd.com/read/28811565/iss-pc-identifying-splicing-sites-via-physical-chemical-properties-using-deep-sparse-auto-encoder
#1
Zhao-Chun Xu, Peng Wang, Wang-Ren Qiu, Xuan Xiao
Gene splicing is one of the most significant biological processes in eukaryotic gene expression, such as RNA splicing, which can cause a pre-mRNA to produce one or more mature messenger RNAs containing the coded information with multiple biological functions. Thus, identifying splicing sites in DNA/RNA sequences is significant for both the bio-medical research and the discovery of new drugs. However, it is expensive and time consuming based only on experimental technique, so new computational methods are needed...
August 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28808011/behavioral-responses-to-annual-temperature-variation-alter-the-dominant-energy-pathway-growth-and-condition-of-a-cold-water-predator
#2
Matthew M Guzzo, Paul J Blanchfield, Michael D Rennie
There is a pressing need to understand how ecosystems will respond to climate change. To date, no long-term empirical studies have confirmed that fish populations exhibit adaptive foraging behavior in response to temperature variation and the potential implications this has on fitness. Here, we use an unparalleled 11-y acoustic telemetry, stable isotope, and mark-recapture dataset to test if a population of lake trout (Salvelinus namaycush), a cold-water stenotherm, adjusted its use of habitat and energy sources in response to annual variations in lake temperatures during the open-water season and how these changes translated to the growth and condition of individual fish...
August 14, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28797242/going-deeper-in-the-automated-identification-of-herbarium-specimens
#3
Jose Carranza-Rojas, Herve Goeau, Pierre Bonnet, Erick Mata-Montero, Alexis Joly
BACKGROUND: Hundreds of herbarium collections have accumulated a valuable heritage and knowledge of plants over several centuries. Recent initiatives started ambitious preservation plans to digitize this information and make it available to botanists and the general public through web portals. However, thousands of sheets are still unidentified at the species level while numerous sheets should be reviewed and updated following more recent taxonomic knowledge. These annotations and revisions require an unrealistic amount of work for botanists to carry out in a reasonable time...
August 11, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28797191/systematic-review-seeking-erythropoietin-role-for-neuroprotection-in-neonates-with-hypoxic-ischemic-encephalopathy-presently-where-do-we-stand
#4
Bhawan Deep Garg, Deepak Sharma, Anju Bansal
BACKGROUND: Hypoxic ischemic encephalopathy (HIE) is one of the leading causes of neonatal mortality in developing countries and leads to some form of neuro-developmental disability in latter part of life. AIMS: To evaluate the role of erythropoietin (EPO) in neuro-protection for term newborn having HIE. METHOD: The literature search was done for various trials by searching the Cochrane Central Register of Controlled Trials (CENTRAL), PubMed, EMBASE, Web of science, Scopus, Index Copernicus, and other data base...
August 10, 2017: Journal of Maternal-fetal & Neonatal Medicine
https://www.readbyqxmd.com/read/28792641/vertical-gradients-in-species-richness-and-community-composition-across-the-twilight-zone-in-the-north-pacific-subtropical-gyre
#5
Stephanie A Sommer, Lauren Van Woudenberg, Petra H Lenz, Georgina Cepeda, Erica Goetze
Although metazoan animals in the mesopelagic zone play critical roles in deep pelagic food webs and in the attenuation of carbon in midwaters, the diversity of these assemblages is not fully known. A metabarcoding survey of mesozooplankton diversity across the epipelagic, mesopelagic and upper bathypelagic zones (0-1500m) in the North Pacific Subtropical Gyre revealed far higher estimates of species richness than expected given prior morphology-based studies in the region (4,024 OTUs, 10-fold increase), despite conservative bioinformatic processing...
August 9, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28791730/arterial-supply-of-the-thumb-systemic-review
#6
REVIEW
J Miletin, A Sukop, V Baca, D Kachlik
INTRODUCTION: We offer a complete systematic review of the anatomy of arteries of the thumb, including their sources in the first web space. MATERIALS AND METHODS: Eleven studies were selected from the PubMed, Medline, Embase, Scopus and Ovid databases. Data about each artery of the thumb were obtained; in particular, the incidence and dominance of each of these arteries were calculated. RESULTS: The ulnopalmar digital artery of the thumb (UPDAT) was found in 99...
August 9, 2017: Clinical Anatomy
https://www.readbyqxmd.com/read/28782181/public-regulatory-databases-as-a-source-of-insight-for-neuromodulation-devices-stimulation-parameters
#7
REVIEW
Doe Kumsa, G Karl Steinke, Gregory F Molnar, Eric M Hudak, Fred W Montague, Shawn C Kelley, Darrel F Untereker, Alan Shi, Benjamin P Hahn, Chris Condit, Hyowon Lee, Dawn Bardot, Jose A Centeno, Victor Krauthamer, Pavel A Takmakov
OBJECTIVE: The Shannon model is often used to define an expected boundary between non-damaging and damaging modes of electrical neurostimulation. Numerous preclinical studies have been performed by manufacturers of neuromodulation devices using different animal models and a broad range of stimulation parameters while developing devices for clinical use. These studies are mostly absent from peer-reviewed literature, which may lead to this information being overlooked by the scientific community...
August 7, 2017: Neuromodulation: Journal of the International Neuromodulation Society
https://www.readbyqxmd.com/read/28770049/short-range-phenotypic-divergence-among-genetically-distinct-parapatric-populations-of-an-australian-funnel-web-spider
#8
Mark K L Wong, James D Woodman, David M Rowell
Speciation involves divergence at genetic and phenotypic levels. Where substantial genetic differentiation exists among populations, examining variation in multiple phenotypic characters may elucidate the mechanisms by which divergence and speciation unfold. Previous work on the Australian funnel-web spider Atrax sutherlandi Gray (2010; Records of the Australian Museum62, 285-392; Mygalomorphae: Hexathelidae: Atracinae) has revealed a marked genetic structure along a 110-kilometer transect, with six genetically distinct, parapatric populations attributable to past glacial cycles...
July 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28768513/clinical-and-laboratory-predictors-of-death-in-african-children-with-features-of-severe-malaria-a-systematic-review-and-meta-analysis
#9
Paulina Sypniewska, Jose F Duda, Isabella Locatelli, Clotilde Rambaud Althaus, Fabrice Althaus, Blaise Genton
BACKGROUND: The criteria for defining severe malaria have evolved over the last 20 years. We aimed to assess the strength of association of death with features currently characterizing severe malaria through a systematic review and meta-analysis. METHOD: Electronic databases (Medline, Embase, Cochrane Database of Systematic Reviews, Thomson Reuters Web of Knowledge) were searched to identify publications including African children with severe malaria. PRISMA guidelines were followed...
August 3, 2017: BMC Medicine
https://www.readbyqxmd.com/read/28753431/project-drive-a-compendium-of-cancer-dependencies-and-synthetic-lethal-relationships-uncovered-by-large-scale-deep-rnai-screening
#10
E Robert McDonald, Antoine de Weck, Michael R Schlabach, Eric Billy, Konstantinos J Mavrakis, Gregory R Hoffman, Dhiren Belur, Deborah Castelletti, Elizabeth Frias, Kalyani Gampa, Javad Golji, Iris Kao, Li Li, Philippe Megel, Thomas A Perkins, Nadire Ramadan, David A Ruddy, Serena J Silver, Sosathya Sovath, Mark Stump, Odile Weber, Roland Widmer, Jianjun Yu, Kristine Yu, Yingzi Yue, Dorothee Abramowski, Elizabeth Ackley, Rosemary Barrett, Joel Berger, Julie L Bernard, Rebecca Billig, Saskia M Brachmann, Frank Buxton, Roger Caothien, Justina X Caushi, Franklin S Chung, Marta Cortés-Cros, Rosalie S deBeaumont, Clara Delaunay, Aurore Desplat, William Duong, Donald A Dwoske, Richard S Eldridge, Ali Farsidjani, Fei Feng, JiaJia Feng, Daisy Flemming, William Forrester, Giorgio G Galli, Zhenhai Gao, François Gauter, Veronica Gibaja, Kristy Haas, Marc Hattenberger, Tami Hood, Kristen E Hurov, Zainab Jagani, Mathias Jenal, Jennifer A Johnson, Michael D Jones, Avnish Kapoor, Joshua Korn, Jilin Liu, Qiumei Liu, Shumei Liu, Yue Liu, Alice T Loo, Kaitlin J Macchi, Typhaine Martin, Gregory McAllister, Amandine Meyer, Sandra Mollé, Raymond A Pagliarini, Tanushree Phadke, Brian Repko, Tanja Schouwey, Frances Shanahan, Qiong Shen, Christelle Stamm, Christine Stephan, Volker M Stucke, Ralph Tiedt, Malini Varadarajan, Kavitha Venkatesan, Alberto C Vitari, Marco Wallroth, Jan Weiler, Jing Zhang, Craig Mickanin, Vic E Myer, Jeffery A Porter, Albert Lai, Hans Bitter, Emma Lees, Nicholas Keen, Audrey Kauffmann, Frank Stegmeier, Francesco Hofmann, Tobias Schmelzle, William R Sellers
Elucidation of the mutational landscape of human cancer has progressed rapidly and been accompanied by the development of therapeutics targeting mutant oncogenes. However, a comprehensive mapping of cancer dependencies has lagged behind and the discovery of therapeutic targets for counteracting tumor suppressor gene loss is needed. To identify vulnerabilities relevant to specific cancer subtypes, we conducted a large-scale RNAi screen in which viability effects of mRNA knockdown were assessed for 7,837 genes using an average of 20 shRNAs per gene in 398 cancer cell lines...
July 27, 2017: Cell
https://www.readbyqxmd.com/read/28748430/inicu-integrated-neonatal-care-unit-capturing-neonatal-journey-in-an-intelligent-data-way
#11
Harpreet Singh, Gautam Yadav, Raghuram Mallaiah, Preetha Joshi, Vinay Joshi, Ravneet Kaur, Suneyna Bansal, Samir K Brahmachari
Neonatal period represents first 28 days of life, which is the most vulnerable time for a child's survival especially for the preterm babies. High neonatal mortality is a prominent and persistent problem across the globe. Non-availability of trained staff and infrastructure are the major recognized hurdles in the quality care of these neonates. Hourly progress growth charts and reports are still maintained manually by nurses along with continuous calculation of drug dosage and nutrition as per the changing weight of the baby...
August 2017: Journal of Medical Systems
https://www.readbyqxmd.com/read/28724888/crosscheck-an-open-source-web-tool-for-high-throughput-screen-data-analysis
#12
Jamil Najafov, Ayaz Najafov
Modern high-throughput screening methods allow researchers to generate large datasets that potentially contain important biological information. However, oftentimes, picking relevant hits from such screens and generating testable hypotheses requires training in bioinformatics and the skills to efficiently perform database mining. There are currently no tools available to general public that allow users to cross-reference their screen datasets with published screen datasets. To this end, we developed CrossCheck, an online platform for high-throughput screen data analysis...
July 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28674771/a-review-of-the-physiology-of-a-survival-expert-of-big-freeze-deep-snow-and-an-empty-stomach-the-boreal-raccoon-dog-nyctereutes-procyonoides
#13
REVIEW
Anne-Mari Mustonen, Petteri Nieminen
The raccoon dog (Nyctereutes procyonoides) is an invasive canid originating from eastern Asia. Here, we review its physiological adaptations to wintering, with an emphasis on northern Europe, where the raccoon dog spends the coldest part of the year in winter sleep. The timing of physiological changes related to wintering is connected to photoperiod by melatonin. In preparation to winter, raccoon dogs display autumnal hyperphagia and fattening probably regulated by the interaction of several peptide hormones...
July 4, 2017: Journal of Comparative Physiology. B, Biochemical, Systemic, and Environmental Physiology
https://www.readbyqxmd.com/read/28672247/biomagnification-of-persistent-organic-pollutants-in-a-deep-sea-temperate-food-web
#14
Sonia Romero-Romero, Laura Herrero, Mario Fernández, Belén Gómara, José Luis Acuña
Polychlorinated biphenyls (PCBs), polybrominated diphenyl ethers (PBDEs) and polychlorinated dibenzo-p-dioxins and -furans (PCDD/Fs) were measured in a temperate, deep-sea ecosystem, the Avilés submarine Canyon (AC; Cantabrian Sea, Southern Bay of Biscay). There was an increase of contaminant concentration with the trophic level of the organisms, as calculated from stable nitrogen isotope data (δ(15)N). Such biomagnification was only significant for the pelagic food web and its magnitude was highly dependent on the type of top predators included in the analysis...
June 30, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28668628/effectiveness-and-safety-of-non-vitamin-k-antagonist-oral-anticoagulants-for-atrial-fibrillation-and-venous-thromboembolism-a-systematic-review-and-meta-analyses
#15
REVIEW
Abdulaali R Almutairi, Lili Zhou, Walid F Gellad, Jeannie K Lee, Marion K Slack, Jennifer R Martin, Wei-Hsuan Lo-Ciganic
PURPOSE: The findings from the observational studies comparing the effectiveness and safety of non-vitamin K antagonist oral anticoagulants (NOACs) versus vitamin K antagonists (VKAs) for atrial fibrillation (AF) and venous thromboembolism (VTE) are inconsistent. We conducted separate meta-analyses examining the efficacy/effectiveness and safety of NOACs versus VKAs by disease (AF vs VTE), study design (randomized controlled trials [RCTs] vs observational studies), and NOAC (dabigatran, rivaroxaban, apixaban, and edoxaban)...
July 2017: Clinical Therapeutics
https://www.readbyqxmd.com/read/28665252/deep-brain-stimulation-for-parkinson-s-disease-meta-analysis-of-results-of-randomized-trials-at-varying-lengths-of-follow-up
#16
Alireza Mansouri, Shervin Taslimi, Jetan H Badhiwala, Christopher D Witiw, Farshad Nassiri, Vincent J J Odekerken, Rob M A De Bie, Suneil K Kalia, Mojgan Hodaie, Renato P Munhoz, Alfonso Fasano, Andres M Lozano
OBJECTIVE Deep brain stimulation (DBS) is effective in the management of patients with advanced Parkinson's disease (PD). While both the globus pallidus pars interna (GPi) and the subthalamic nucleus (STN) are accepted targets, their relative efficacy in randomized controlled trials (RCTs) has not been established beyond 12 months. The objective of this study was to conduct a meta-analysis of RCTs to compare outcomes among adults with PD undergoing DBS of GPi or STN at various time points, including 36 months of follow-up...
June 30, 2017: Journal of Neurosurgery
https://www.readbyqxmd.com/read/28659874/the-deep-sea-microbial-community-from-the-amazonian-basin-associated-with-oil-degradation
#17
Mariana E Campeão, Luciana Reis, Luciana Leomil, Louisi de Oliveira, Koko Otsuki, Piero Gardinali, Oliver Pelz, Rogerio Valle, Fabiano L Thompson, Cristiane C Thompson
One consequence of oil production is the possibility of unplanned accidental oil spills; therefore, it is important to evaluate the potential of indigenous microorganisms (both prokaryotes and eukaryotes) from different oceanic basins to degrade oil. The aim of this study was to characterize the microbial response during the biodegradation process of Brazilian crude oil, both with and without the addition of the dispersant Corexit 9500, using deep-sea water samples from the Amazon equatorial margin basins, Foz do Amazonas and Barreirinhas, in the dark and at low temperatures (4°C)...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28658157/efficacy-of-tranexamic-acid-plus-drain-clamping-to-reduce-blood-loss-in-total-knee-arthroplasty-a-meta-analysis
#18
REVIEW
Yan Zhang, Jun-Wei Zhang, Bao-Hua Wang
BACKGROUND: Perioperative blood loss is still an unsolved problem in total knee arthroplasty (TKA). The efficacy of the preoperative use of tranexamic acid (TXA) plus drain-clamping to reduce blood loss in TKA has been debated. This meta-analysis aimed to illustrate the efficacy of TXA plus drain-clamping to reduce blood loss in patients who underwent a TKA. METHODS: In February 2017, a systematic computer-based search was conducted in PubMed, EMBASE, Web of Science, the Cochrane Database of Systematic Reviews, and Google Scholar...
June 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/28657187/an-insight-into-the-deep-web-why-it-matters-for-addiction-psychiatry
#19
Laura Orsolini, Duccio Papanti, John Corkery, Fabrizio Schifano
OBJECTIVE: Nowadays, the web is rapidly spreading, playing a significant role in the marketing or sale or distribution of "quasi" legal drugs, hence facilitating continuous changes in drug scenarios. The easily renewable and anarchic online drug-market is gradually transforming indeed the drug market itself, from a "street" to a "virtual" one, with customers being able to shop with a relative anonymity in a 24-hr marketplace. The hidden "deep web" is facilitating this phenomenon. The paper aims at providing an overview to mental health's and addiction's professionals on current knowledge about prodrug activities on the deep web...
May 2017: Human Psychopharmacology
https://www.readbyqxmd.com/read/28644548/repetitive-peripheral-magnetic-stimulation-for-activities-of-daily-living-and-functional-ability-in-people-after-stroke
#20
REVIEW
Ryo Momosaki, Naoki Yamada, Erika Ota, Masahiro Abo
BACKGROUND: Repetitive peripheral magnetic stimulation (rPMS) is a form of therapy that creates painless stimulation of deep muscle structures to improve motor function in people with physical impairment from brain or nerve disorders. Use of rPMS for people after stroke has been identified as a feasible approach to improve activities of daily living and functional ability. However, no systematic reviews have assessed the findings of available trials. The effect and safety of this intervention for people after stroke currently remain uncertain...
June 23, 2017: Cochrane Database of Systematic Reviews
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