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https://www.readbyqxmd.com/read/29161187/network-mapping-with-gimme
#1
Adriene M Beltz, Kathleen M Gates
Network science is booming! While the insights and images afforded by network mapping techniques are compelling, implementing the techniques is often daunting to researchers. Thus, the aim of this tutorial is to facilitate implementation in the context of GIMME, or group iterative multiple model estimation. GIMME is an automated network analysis approach for intensive longitudinal data. It creates person-specific networks that explain how variables are related in a system. The relations can signify current or future prediction that is common across people or applicable only to an individual...
November 2017: Multivariate Behavioral Research
https://www.readbyqxmd.com/read/29155828/role-of-co-repressor-genomic-landscapes-in-shaping-the-notch-response
#2
Stephen K K Chan, Gustavo Cerda-Moya, Robert Stojnic, Kat Millen, Bettina Fischer, Silvie Fexova, Lenka Skalska, Maria Gomez-Lamarca, Zoe Pillidge, Steven Russell, Sarah J Bray
Repressors are frequently deployed to limit the transcriptional response to signalling pathways. For example, several co-repressors interact directly with the DNA-binding protein CSL and are proposed to keep target genes silenced in the absence of Notch activity. However, the scope of their contributions remains unclear. To investigate co-repressor activity in the context of this well defined signalling pathway, we have analysed the genome-wide binding profile of the best-characterized CSL co-repressor in Drosophila, Hairless, and of a second CSL interacting repressor, SMRTER...
November 20, 2017: PLoS Genetics
https://www.readbyqxmd.com/read/29153319/thermodynamic-coupling-function-analysis-of-allosteric-mechanisms-in-the-human-dopamine-transporter
#3
Michael V LeVine, Michel A Cuendet, Asghar M Razavi, George Khelashvili, Harel Weinstein
Allostery plays a crucial role in the mechanism of neurotransmitter-sodium symporters, such as the human dopamine transporter. To investigate the molecular mechanism that couples the transport-associated inward release of the Na(+) ion from the Na2 site to intracellular gating, we applied a combination of the thermodynamic coupling function (TCF) formalism and Markov state model analysis to a 50-μs data set of molecular dynamics trajectories of the human dopamine transporter, in which multiple spontaneous Na(+) release events were observed...
November 15, 2017: Biophysical Journal
https://www.readbyqxmd.com/read/29147756/locus-and-gene-based-gwas-meta-analysis-identifies-new-diabetic-nephropathy-genes
#4
Mohammad Saeed
Objective Assimilation of SNPs Interacting in Synchrony (OASIS) is a locus-based clustering algorithm recently described that can potentially address false positives and negatives in genome-wide association studies (GWAS) of complex disorders. Diabetic nephropathy (DN) is incompletely understood due to a paucity of genes identified despite several GWAS. OASIS was applied to three DN dbGAP GWAS datasets (4725 subjects; 1.06 million SNPs). OASIS identified 19 DN genes which were verified using single variant replication in a standard association study and gene-based analysis using GATES...
November 16, 2017: Immunogenetics
https://www.readbyqxmd.com/read/29146521/hla-dq-gluten-tetramer-blood-test-accurately-identifies-patients-with-and-without-celiac-disease-in-absence-of-gluten-consumption
#5
Vikas K Sarna, Knut E A Lundin, Lars Mørkrid, Shuo-Wang Qiao, Ludvig M Sollid, Asbjørn Christophersen
BACKGROUND & AIMS: Celiac disease is characterized by HLA-DQ2/8-restricted responses of CD4+ T cells to cereal gluten proteins. A diagnosis of celiac disease based on serologic and histologic evidence and duodenal histology requires patients to be on gluten-containing diets. The growing number of individuals adhering to a gluten-free diet (GFD) without exclusion of celiac disease complicates its detection. HLA-DQ-gluten tetramers can be used to detect gluten-specific T cells in blood of patients with celiac disease, even if they are on a GFD...
November 13, 2017: Gastroenterology
https://www.readbyqxmd.com/read/29145747/two-novel-families-with-hemiplegic-migraine-caused-by-recurrent-scn1a-mutation-p-f1499l
#6
Victoria Schubert, Eva Auffenberg, Saskia Biskup, Karin Jurkat-Rott, Tobias Freilinger
Background Familial hemiplegic migraine type 3 is a monogenic subtype of migraine caused by missense mutations in the neuronal voltage-gated sodium channel gene SCN1A, with 10 different mutations reported so far. In two familial hemiplegic migraine type 3 families, partial cosegregation with a rare eye phenotype (elicited repetitive daily blindness) was previously reported. Methods Two novel familial hemiplegic migraine pedigrees were subjected to genetic analysis and detailed work-up of associated clinical features...
January 1, 2017: Cephalalgia: An International Journal of Headache
https://www.readbyqxmd.com/read/29142381/nursing-management-of-adults-with-severe-traumatic-brain-injury-a-narrative-review
#7
REVIEW
Roseminu Varghese, Jyothi Chakrabarty, Girish Menon
Effective nursing management strategies for adults with severe traumatic brain injury (STBI) are still a remarkable issue and a difficult task for neurologists, neurosurgeons, and neuronurses. A list of justified indications and scientific rationale for nursing management of these patients are continuously evolving. The objectives of the study are to analyze the pertinently available research and clinical studies that demonstrate the nursing management strategies for adults with STBI and to synthesize the available evidence based on the review...
October 2017: Indian Journal of Critical Care Medicine
https://www.readbyqxmd.com/read/29142096/novel-ca-2-dependent-mechanisms-regulate-spontaneous-release-at-excitatory-synapses-onto-ca1-pyramidal-cells
#8
Walter E Babiec, Thomas J O'Dell
Although long thought to simply be a source of synaptic noise, spontaneous, action-potential independent release of neurotransmitter from presynaptic terminals has multiple roles in synaptic function. We explored whether and to what extent the two predominantly proposed mechanisms for explaining spontaneous release, stochastic activation of voltage-gated Ca(2+) channels (VGCCs) or activation of Ca(2+)-sensing receptors (CaSRs) by extracelluar Ca(2+), played a role in the sensitivity of spontaneous release to the level of extracellular Ca(2+) concentration at excitatory synapses at CA1 pyramidal cells of the adult, male mouse hippocampus...
November 15, 2017: Journal of Neurophysiology
https://www.readbyqxmd.com/read/29138942/calculation-of-left-ventricular-volumes-and-ejection-fraction-from-dynamic-cardiac-gated-15-o-water-pet-ct-5d-pet
#9
Jonny Nordström, Tanja Kero, Hendrik Johannes Harms, Charles Widström, Frank A Flachskampf, Jens Sörensen, Mark Lubberink
BACKGROUND: Quantitative measurement of myocardial blood flow (MBF) is of increasing interest in the clinical assessment of patients with suspected coronary artery disease (CAD). (15)O-water positron emission tomography (PET) is considered the gold standard for non-invasive MBF measurements. However, calculation of left ventricular (LV) volumes and ejection fraction (EF) is not possible from standard (15)O-water uptake images. The purpose of the present work was to investigate the possibility of calculating LV volumes and LVEF from cardiac-gated parametric blood volume (V B) (15)O-water images and from first pass (FP) images...
November 14, 2017: EJNMMI Physics
https://www.readbyqxmd.com/read/29137729/the-shear-wave-elastic-modulus-and-the-increased-nuclear-factor-kappa-b-nf-kb-p65-and-cyclooxygenase-2-cox-2-expression-in-the-area-of-myofascial-trigger-points-activated-in-a-rat-model-by-blunt-trauma-to-the-vastus-medialis
#10
Hengyong Lv, Zhen Li, Tiantian Hu, Yuexiang Wang, Jinpeng Wu, Yingxin Li
We aimed to elucidate the increased inflammatory cytokines expression such as nuclear factor kappa B (NF-kB/p65), cyclooxygenase-2 (COX-2), and voltage-gated calcium channels (VGCC) in the area of activated myofascial trigger points (MTrPs) in a rat model by blunt trauma to the vastus medialis and to evaluate the feasibility of a quantitative analysis of muscle elastic modulus using shear wave elastography (SWE). Twelve 7-week-old male SD rats were divided into normal (NM, n = 6) and model groups (MO, n = 6)...
November 6, 2017: Journal of Biomechanics
https://www.readbyqxmd.com/read/29136243/structure-and-electrical-properties-of-dna-nanotubes-embedded-in-lipid-bilayer-membranes
#11
Himanshu Joshi, Prabal K Maiti
Engineering the synthetic nanopores through lipid bilayer membrane to access the interior of a cell is a long persisting challenge in biotechnology. Here, we demonstrate the stability and dynamics of a tile-based 6-helix DNA nanotube (DNT) embedded in POPC lipid bilayer using the analysis of 0.2 μs long equilibrium MD simulation trajectories. We observe that the head groups of the lipid molecules close to the lumen cooperatively tilt towards the hydrophilic sugar-phosphate backbone of DNA and form a toroidal structure around the patch of DNT protruding in the membrane...
November 10, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29134947/effects-of-si-sio2-interface-stress-on-the-performance-of-ultra-thin-body-field-effect-transistors-a-first-principles-study
#12
Hyo-Eun Jung, Mincheol Shin
First-principles density functional theory (DFT) based device simulations are performed for Si ultra-thin-body (UTB) field effect transistors with the explicit SiO2 atoms in the gate dielectric. In order to evaluate the Si/SiO2 interface stress effects on the UTB device performance, the interface stress tensor is extracted from the Si/SiO2 atomic structure by DFT calculations. The influence of the interface stress on the transport properties is examined through full quantum mechanical non-equilibrium Green's function calculations...
November 14, 2017: Nanotechnology
https://www.readbyqxmd.com/read/29133295/head-injury-mechanisms-in-fis-world-cup-alpine-and-freestyle-skiers-and-snowboarders
#13
Sophie Elspeth Steenstrup, Arnhild Bakken, Tone Bere, Declan Alexander Patton, Roald Bahr
INTRODUCTION: Head injuries represent a concern in skiing and snowboarding, with traumatic brain injuries being the most common cause of death. AIM: To describe the mechanisms of head and face injuries among World Cup alpine and freestyle skiers and snowboarders. METHODS: We performed a qualitative analysis of videos obtained of head and face injuries reported through the International Ski Federation Injury Surveillance System during 10 World Cup seasons (2006-2016)...
November 13, 2017: British Journal of Sports Medicine
https://www.readbyqxmd.com/read/29133043/1-4-naphthoquinones-potently-inhibiting-p2x7-receptor-activity
#14
R X Faria, F H Oliveira, J P Salles, A S Oliveira, N L von Ranke, M L Bello, C R Rodrigues, H C Castro, A R Louvis, D L Martins, V F Ferreira
P2X7 receptor (P2X7R) is an ATP-gated ion-channel with potential therapeutic applications. In this study, we prepared and searched a series of 1,4-naphthoquinones derivatives to evaluate their antagonistic effect on both human and murine P2X7 receptors. We explored the structure-activity relationship and binding mode of the most active compounds using a molecular modeling approach. Biological analysis of this series (eight analogues and two compounds) revealed significant in vitro inhibition against both human and murine P2X7R...
October 23, 2017: European Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/29132614/early-childhood-linear-growth-faltering-in-low-income-and-middle-income-countries-as-a-whole-population-condition-analysis-of-179-demographic-and-health-surveys-from-64-countries-1993-2015
#15
Daniel E Roth, Aditi Krishna, Michael Leung, Joy Shi, Diego G Bassani, Aluisio J D Barros
BACKGROUND: The causes of early childhood linear growth faltering (known as stunting) in low-income and middle-income countries remain inadequately understood. We aimed to determine if the progressive postnatal decline in mean height-for-age Z score (HAZ) in low-income and middle-income countries is driven by relatively slow growth of certain high-risk children versus faltering of the entire population. METHODS: Distributions of HAZ (based on WHO growth standards) were analysed in 3-month age intervals from 0 to 36 months of age in 179 Demographic and Health Surveys from 64 low-income and middle-income countries (1993-2015)...
December 2017: Lancet Global Health
https://www.readbyqxmd.com/read/29132613/identification-and-management-of-shigella-infection-in-children-with-diarrhoea-a-systematic-review-and-meta-analysis
#16
Kirkby D Tickell, Rebecca L Brander, Hannah E Atlas, Jeffrey M Pernica, Judd L Walson, Patricia B Pavlinac
BACKGROUND: Shigella infections are a leading cause of diarrhoeal death among children in low-income and middle-income countries. WHO guidelines reserve antibiotics for treating children with dysentery. Reliance on dysentery for identification and management of Shigella infection might miss an opportunity to reduce Shigella-associated morbidity and mortality. We aimed to systematically review and evaluate Shigella-associated and dysentery-associated mortality, the diagnostic value of dysentery for the identification of Shigella infection, and the efficacy of antibiotics for children with Shigella or dysentery, or both...
December 2017: Lancet Global Health
https://www.readbyqxmd.com/read/29132315/comprehensive-genomic-analysis-of-the-cngc-gene-family-in-brassica-oleracea-novel-insights-into-synteny-structures-and-transcript-profiles
#17
Kaleem U Kakar, Zarqa Nawaz, Khadija Kakar, Essa Ali, Abdulwareth A Almoneafy, Raqeeb Ullah, Xue-Liang Ren, Qing-Yao Shu
BACKGROUND: The cyclic nucleotide-gated ion channel (CNGC) family affects the uptake of cations, growth, pathogen defence, and thermotolerance in plants. However, the systematic identification, origin and function of this gene family has not been performed in Brassica oleracea, an important vegetable crop and genomic model organism. RESULTS: In present study, we identified 26 CNGC genes in B. oleracea genome, which are non-randomly localized on eight chromosomes, and classified into four major (I-IV) and two sub-groups (i...
November 13, 2017: BMC Genomics
https://www.readbyqxmd.com/read/29132311/weighted-gene-co-expression-network-analysis-of-expression-data-of-monozygotic-twins-identifies-specific-modules-and-hub-genes-related-to-bmi
#18
Weijing Wang, Wenjie Jiang, Lin Hou, Haiping Duan, Yili Wu, Chunsheng Xu, Qihua Tan, Shuxia Li, Dongfeng Zhang
BACKGROUND: The therapeutic management of obesity is challenging, hence further elucidating the underlying mechanisms of obesity development and identifying new diagnostic biomarkers and therapeutic targets are urgent and necessary. Here, we performed differential gene expression analysis and weighted gene co-expression network analysis (WGCNA) to identify significant genes and specific modules related to BMI based on gene expression profile data of 7 discordant monozygotic twins. RESULTS: In the differential gene expression analysis, it appeared that 32 differentially expressed genes (DEGs) were with a trend of up-regulation in twins with higher BMI when compared to their siblings...
November 13, 2017: BMC Genomics
https://www.readbyqxmd.com/read/29131950/cooperative-bond-scission-in-a-soft-porous-crystal-enables-discriminatory-gate-opening-for-ethylene-over-ethane
#19
Susan Sen, Nobuhiko Hosono, Jia-Jia Zheng, Shinpei Kusaka, Ryotaro Matsuda, Shigeyoshi Sakaki, Susumu Kitagawa
Here we report a soft porous crystal possessing hemilabile crosslinks in its framework that exhibits exclusive gate opening for ethylene, enabling the discriminatory adsorption of ethylene over ethane. A Co-based porous coordination polymer (PCP) bearing vinylogous tetrathiafulvalene (VTTF) ligands, [Co(VTTF)], forms Co-S bonds as intermolecular crosslinks in its framework in the evacuated closed state. The PCP recognizes ethylene via d-π complexation on the accessible metal site that displaces and cleaves the Co-S bond to "unlock" the closed structure...
November 13, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/29130799/allergen-immunotherapy-modulates-sensitivity-of-treg-cells-to-apoptosis-in-a-rat-model-of-allergic-asthma
#20
Ankur Datta, Saibal Moitra, Prasanta K Das, Somnath Mondal, Sk Md Omar Faruk, Iman Hazra, Santanu K Tripathi, Swapna Chaudhuri
AIM: To study the apoptosis of Foxp3(+) Treg cells following Alstonia scholaris pollen sensitization-challenge and following allergen immunotherapy. MATERIALS & METHODS: Wistar rats were sensitized-challenged with Alstonia scholaris pollen and were further given intranasal immunotherapy. For the analysis of the apoptotic proteins on Treg cells by flow cytometry, multiple gating procedures were followed. RESULTS: Allergen sensitization-challenge increases Annexin-V, Fas, FasL, caspases-8, 9, 3 cytochrome-C, APAF-1, Bax, perforin-1 and granzyme-B on Treg cells which is decreased following intranasal immunotherapy...
November 2017: Immunotherapy
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