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https://www.readbyqxmd.com/read/28065665/unbiased-identification-of-blood-based-biomarkers-for-pulmonary-tuberculosis-by-modeling-and-mining-molecular-interaction-networks
#1
Awanti Sambarey, Abhinandan Devaprasad, Abhilash Mohan, Asma Ahmed, Soumya Nayak, Soumya Swaminathan, George D'Souza, Anto Jesuraj, Chirag Dhar, Subash Babu, Annapurna Vyakarnam, Nagasuma Chandra
Efficient diagnosis of tuberculosis (TB) is met with multiple challenges, calling for a shift of focus from pathogen-centric diagnostics towards identification of host-based multi-marker signatures. Transcriptomics offer a list of differentially expressed genes, but cannot by itself identify the most influential contributors to the disease phenotype. Here, we describe a computational pipeline that adopts an unbiased approach to identify a biomarker signature. Data from RNA sequencing from whole blood samples of TB patients were integrated with a curated genome-wide molecular interaction network, from which we obtain a comprehensive perspective of variations that occur in the host due to TB...
February 2017: EBioMedicine
https://www.readbyqxmd.com/read/28059505/predicting-plant-invasions-following-china-s-water-diversion-project
#2
Dasheng Liu, Rui Wang, Doria R Gordon, Xihua Sun, Lu Chen, Yanwen Wang
China's South to North Water Diversion (SNWD) project connects portions of the Yangtze River in the south to the Yellow River system in the north, overcoming biogeographic barriers to water movement. The diversion will supply potable water to over 110 million people and provide multiple other socio-economic benefits. However, an inadvertent negative impact of this connection includes creation of conduits for species invasions. Alligator weed (Alternanthera philoxeroides), water hyacinth (Eichhornia crassipes), and water lettuce (Pistia stratiotes) are the only aquatic plant species on China's shortlists for special control...
January 6, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28040614/recommendation-for-a-test-battery-for-the-ecotoxicological-evaluation-of-the-environmental-safety-of-construction-products
#3
Stefan Gartiser, Ines Heisterkamp, Ute Schoknecht, Nicole Bandow, N Michael Burkhardt, Monika Ratte, Outi Ilvonen
The European Construction Products Regulation allows Member States to adopt rules for evaluating the environmental impact of their buildings. The aim of the project was to develop recommendations for a test battery for the ecotoxicological assessment of the environmental impact of construction products for outdoor use and contribute to the European harmonization of test methods. From a shortlist of 39 products 20 products were included in the ecotoxicological testing program. Monolithic and plate-like construction products were eluted in the Dynamic Surface Leaching test (DSLT) in accordance with CEN/TS 16637-2, granular products were eluted in a one stage batch test in accordance with DIN EN 12457-1...
December 23, 2016: Chemosphere
https://www.readbyqxmd.com/read/28008612/a-large-sample-test-of-a-semi-automated-clavicle-search-engine-to-assist-skeletal-identification-by-radiograph-comparison
#4
Susan S D'Alonzo, Pierre Guyomarc'h, John E Byrd, Carl N Stephan
In 2014, a morphometric capability to search chest radiograph databases by quantified clavicle shape was published to assist skeletal identification. Here, we extend the validation tests conducted by increasing the search universe 18-fold, from 409 to 7361 individuals to determine whether there is any associated decrease in performance under these more challenging circumstances. The number of trials and analysts were also increased, respectively, from 17 to 30 skeletons, and two to four examiners. Elliptical Fourier analysis was conducted on clavicles from each skeleton by each analyst (shadowgrams trimmed from scratch in every instance) and compared to the search universe...
January 2017: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/28005150/early-trends-in-bronchoscopic-lung-volume-reduction-a-systematic-review-and-meta-analysis-of-efficacy-parameters
#5
REVIEW
Abhishek Kumar, Rajany Dy, Kanwaljit Singh, M Jeffery Mador
INTRODUCTION: The goal of our systematic review and meta-analysis is to examine the therapeutic effectiveness of bronchoscopic lung volume reduction (BLVR), and to compare it with medical management and lung volume reduction surgery. METHODS: Variables of interest were absolute change in FEV1, 6MWT, and SGRQ. Meta-analysis was performed for the BLVR modalities with ≥3 trials. Of the 18 shortlisted publications, only valves (four trials; n = 159) and coils (six trials; n = 194) qualified for meta-analysis...
December 22, 2016: Lung
https://www.readbyqxmd.com/read/28000560/ligand-based-pharmacophore-modeling-and-extended-bioactivity-prediction-for-salinosporamide-a-b-and-c-from-marine-actinomycetes-salinispora-tropica
#6
Kesavan Dineshkumar, Aparna Vasudevan, Waheeta Hopper
Actinomycetes are microorganisms producing structurally unique secondary metabolites with pharmaceutically essential bioactivities. Salinispora is an obligate marine actinomycete which produces structurally varied and unique secondary metabolites. There is plenty of scope for the development of drugs out of these novel compounds isolated from Salinispora. Salinosporamides A, B and C are secondary metabolites identified from Salinispora. Anticancer, antibacterial and anti-protozoa activity have been shown in previous studies, which make them interesting subjects for further extended biological activity prediction...
December 15, 2016: Combinatorial Chemistry & High Throughput Screening
https://www.readbyqxmd.com/read/27992827/development-of-a-snp-based-panel-for-human-identification-for-indian-populations
#7
Anujit Sarkar, Madhusudan R Nandineni
The widely employed short tandem repeat (STR)-based panels for forensic human identification (HID) have limitations while dealing with challenging forensic samples involving DNA degradation, resulting in dropping-out of higher molecular weight alleles/loci. To address this issue, bialleic markers like single nucleotide polymorphisms (SNPs) and insertion-deletions (indels), which can be scored even when the template DNA is heavily degraded (<100bp), have been suggested as alternative markers for HID testing...
December 5, 2016: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/27987574/-new-choosing-wisely-recommendations-of-inappropriate-interventions-the-perspective-of-general-practioners-in-switzerland
#8
Stefan Neuner-Jehle, Oliver Senn, Thomas Rosemann
AIM: As part of the "Choosing wisely" campaign expert-driven recommendations of inappropriate interventions which lead to overdiagnosis and overtreatment are being published. The aim of our work was to describe an innovative method for developing recommendations together with general practitioners (GPs) and to compare the results with the "Choosing wisely" campaign lists as well as with the Swiss "Smarter medicine" shortlist. METHODS: We asked 109 GPs who attended a medical education conference to form groups (of 5 to 7 GPs each) and develop three interventions that are relevant to their work and should be avoided...
December 2016: Zeitschrift Für Evidenz, Fortbildung und Qualität Im Gesundheitswesen
https://www.readbyqxmd.com/read/27974530/the-2016-journal-of-experimental-biology-outstanding-paper-prize-shortlist-and-winner
#9
Kathryn Knight
No abstract text is available yet for this article.
December 15, 2016: Journal of Experimental Biology
https://www.readbyqxmd.com/read/27958775/distinct-molecular-signature-of-murine-fetal-liver-and-adult-hematopoietic-stem-cells-identifies-novel-regulators-of-hematopoietic-stem-cell-function
#10
Javed Karim Manesia, Monica Franch, Daniel Tabas-Madrid, Ruben Nogales-Cadenas, Thomas Vanwelden, Elisa Van Den Bosch, Zhuofei Xu, Alberto Pascual-Montano, Satish Khurana, Catherine Verfaillie
During ontogeny, fetal liver (FL) acts as a major site for hematopoietic stem cell (HSC) maturation and expansion, while HSCs in the adult bone marrow (ABM) are largely quiescent. HSCs in the FL possess faster repopulation capacity as compared with ABM HSCs. However, the molecular mechanism regulating the greater self-renewal potential of FL HSCs has not yet extensively been assessed. Recently, we published RNA-sequencing based gene expression analysis on FL HSCs from 14.5 day mouse embryo (E14.5) in comparison to the ABM HSCs...
December 13, 2016: Stem Cells and Development
https://www.readbyqxmd.com/read/27917941/comparative-phylogenomic-analysis-provides-insights-into-tcp-gene-functions-in-sorghum
#11
Aleena Francis, Namrata Dhaka, Mohit Bakshi, Ki-Hong Jung, Manoj K Sharma, Rita Sharma
Sorghum is a highly efficient C4 crop with potential to mitigate challenges associated with food, feed and fuel. TCP proteins are of particular interest for crop improvement programs due to their well-demonstrated roles in crop domestication and shaping plant architecture thereby, affecting agronomic traits. We identified 20 TCP genes from Sorghum. Except SbTCP8, all are either intronless or contain introns in the untranslated regions. Comparative phylogenetic analysis of Arabidopsis, rice, Brachypodium and Sorghum TCP proteins revealed two distinct classes categorized into ten sub-clades...
December 5, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27861942/the-ectopic-accessory-parotid-system-with-congenital-cheek-fistula-an-overview-and-current-update
#12
REVIEW
Mainak Dutta
OBJECTIVE: This review attempts to provide a comprehensive, updated overview of the ectopic accessory parotid system (EAPS) from clinical and developmental perspectives and investigates its eligibility to be included in the oculo-auriculo-vertebral spectrum (OAVS). REVIEW METHODS: Results of the keyword-based search in the PubMed/MEDLINE, Google Scholar, LILACS, and Cochrane Library were subjected to the given inclusion and exclusion criteria that corroborated with the definition of EAPS...
November 12, 2016: Laryngoscope
https://www.readbyqxmd.com/read/27830256/clinical-natural-language-processing-in-2015-leveraging-the-variety-of-texts-of-clinical-interest
#13
A Névéol, P Zweigenbaum
OBJECTIVE: To summarize recent research and present a selection of the best papers published in 2015 in the field of clinical Natural Language Processing (NLP). METHOD: A systematic review of the literature was performed by the two section editors of the IMIA Yearbook NLP section by searching bibliographic databases with a focus on NLP efforts applied to clinical texts or aimed at a clinical outcome. Section editors first selected a shortlist of candidate best papers that were then peer-reviewed by independent external reviewers...
November 10, 2016: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/27818965/alcohol-related-dementia-and-neurocognitive-impairment-a-review-study
#14
REVIEW
Ankur Sachdeva, Mina Chandra, Mona Choudhary, Prabhoo Dayal, Kuljeet Singh Anand
CONTEXT: Alcohol consumption has escalated rapidly in many countries over the past decade. Evidence suggests a correlation between alcohol use and cognitive decline. We have systematically reviewed the concept and controversies, epidemiology, nosology, neuropathology and neurobiology, neuropsychology and management updates of alcohol-related dementia (ARD) in this paper. EVIDENCE ACQUISITION: We retrieved papers for this review by searching the PubMed database for terms "alcohol and dementia", "alcohol and cognitive impairment", and "alcohol and wernicke-korsakoff" mentioned in the title of the published papers...
September 2016: International Journal of High Risk Behaviors & Addiction
https://www.readbyqxmd.com/read/27815233/app-chronic-disease-checklist-protocol-to-evaluate-mobile-apps-for-chronic-disease-self-management
#15
Kevin Anderson, Oksana Burford, Lynne Emmerton
BACKGROUND: The availability of mobile health apps for self-care continues to increase. While little evidence of their clinical impact has been published, there is general agreement among health authorities and authors that consumers' use of health apps assist in self-management and potentially clinical decision making. A consumer's sustained engagement with a health app is dependent on the usability and functionality of the app. While numerous studies have attempted to evaluate health apps, there is a paucity of published methods that adequately recognize client experiences in the academic evaluation of apps for chronic conditions...
November 4, 2016: JMIR Research Protocols
https://www.readbyqxmd.com/read/27784233/physiotherapy-for-ankylosing-spondylitis-systematic-review-and-a-proposed-rehabilitation-protocol
#16
Deepak Sharan, Joshua Samuel Rajkumar
Ankylosing Spondylitis (AS) is a chronic inflammatory disease of insidious onset, mostly affecting the axial skeleton. It leads to varying degrees of restricted spinal mobility, pain and loss of functional capacity. Rehabilitation, especially Physiotherapy and exercises, are considered integral components of its management. Various rehabilitation modalities are available for the benefit of individuals with AS, but a sequenced protocol has not been reported. A scientific review was performed using the following search engines: MEDLINE (Pubmed), COCHRANE Library and Physiotherapy Evidence Database (PEDro)...
October 25, 2016: Current Rheumatology Reviews
https://www.readbyqxmd.com/read/27767932/automated-tests-for-diagnosing-and-monitoring-cognitive-impairment-a-diagnostic-accuracy-review
#17
Rabeea'h W Aslam, Vickie Bates, Yenal Dundar, Juliet Hounsome, Marty Richardson, Ashma Krishan, Rumona Dickson, Angela Boland, Eleanor Kotas, Joanne Fisher, Sudip Sikdar, Louise Robinson
BACKGROUND: Cognitive impairment is a growing public health concern, and is one of the most distinctive characteristics of all dementias. The timely recognition of dementia syndromes can be beneficial, as some causes of dementia are treatable and are fully or partially reversible. Several automated cognitive assessment tools for assessing mild cognitive impairment (MCI) and early dementia are now available. Proponents of these tests cite as benefits the tests' repeatability and robustness and the saving of clinicians' time...
October 2016: Health Technology Assessment: HTA
https://www.readbyqxmd.com/read/27677171/in-search-for-geroprotectors-in-silico-screening-and-in-vitro-validation-of-signalome-level-mimetics-of-young-healthy-state
#18
Alexander Aliper, Aleksey V Belikov, Andrew Garazha, Leslie Jellen, Artem Artemov, Maria Suntsova, Alena Ivanova, Larisa Venkova, Nicolas Borisov, Anton Buzdin, Polina Mamoshina, Evgeny Putin, Andrew G Swick, Alexey Moskalev, Alex Zhavoronkov
Populations in developed nations throughout the world are rapidly aging, and the search for geroprotectors, or anti-aging interventions, has never been more important. Yet while hundreds of geroprotectors have extended lifespan in animal models, none have yet been approved for widespread use in humans. GeroScope is a computational tool that can aid prediction of novel geroprotectors from existing human gene expression data. GeroScope maps expression differences between samples from young and old subjects to aging-related signaling pathways, then profiles pathway activation strength (PAS) for each condition...
September 24, 2016: Aging
https://www.readbyqxmd.com/read/27671164/analysis-of-allelic-imbalance-in-rice-hybrids-under-water-stress-and-association-of-asymmetrically-expressed-genes-with-drought-response-qtls
#19
Nelzo C Ereful, Li-Yu Liu, Eric Tsai, Shu-Min Kao, Shalabh Dixit, Ramil Mauleon, Katrina Malabanan, Michael Thomson, Antonio Laurena, David Lee, Ian Mackay, Andy Greenland, Wayne Powell, Hei Leung
BACKGROUND: Information on the effect of stress on the allele-specific expression (ASE) profile of rice hybrids is limited. More so, the association of allelically imbalanced genes to important traits is yet to be understood. Here we assessed allelic imbalance (AI) in the heterozygote state of rice under non- and water-stress treatments and determined association of asymmetrically expressed genes with grain yield (GY) under drought stress by in-silico co-localization analysis and selective genotyping...
December 2016: Rice
https://www.readbyqxmd.com/read/27629291/study-of-apoptosis-related-interactions-in-colorectal-cancer
#20
REVIEW
Himanshu Arora, Rehana Qureshi, M A Rizvi, Sharad Shrivastava, Mordhwaj S Parihar
Abnormalities in apoptotic functions contribute to the pathogenesis of colorectal cancer. In this study, molecular interactions behind the apoptotic regulation have been explored. For this purpose, enrichment analysis was performed considering microRNAs (miRNAs) that putatively target TP53 and altered during colon cancer. This revealed gene associated with both TP53 and miRNAs. Further analysis showed that a significant molecular interaction between the shortlisted candidates (TP53, miR-143, KRAS, BCL2, and PLK1) exists...
November 2016: Tumour Biology: the Journal of the International Society for Oncodevelopmental Biology and Medicine
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