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https://www.readbyqxmd.com/read/28633391/kmerpyramid-an-interactive-visualization-tool-for-nucleobase-and-k-mer-frequencies
#1
Jochen Kruppa, Erhard van der Vries, Wendy K Jo, Alexander Postel, Paul Becher, Albert Osterhaus, Klaus Jung
Summary: Bioinformatics methods often incorporate the frequency distribution of nulecobases or k -mers in DNA or RNA sequences, for example as part of metagenomic or phylogenetic analysis. Because the frequency matrix with sequences in the rows and nucleobases in the columns is multi-dimensional it is hard to visualize. We present the R-package 'kmerPyramid' that allows to display each sequence, based on its nucleobase or k -mer distribution projected to the space of principal components, as a point within a 3-dimensional, interactive pyramid...
June 15, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28633196/tight-junction-strand-formation-by-claudin-10-isoforms-and-claudin-10a-10b-chimeras
#2
Susanne Milatz, Jörg Piontek, Caroline Hempel, Luca Meoli, Christoph Grohe, Anja Fromm, In-Fah M Lee, Rukeia El-Athman, Dorothee Günzel
Claudins are integral components of tight junctions (TJs) in epithelia and endothelia. When expressed in cell lines devoid of TJs, claudins are able to form TJ-like strands at contacts between adjacent cells. According to a current model of TJ strand formation, claudin protomers assemble in an antiparallel double row within the plasma membrane of each cell (cis-interaction) while binding to corresponding double rows from the neighboring cells (trans-interaction). Cis-interaction was proposed to involve two interfaces of the protomers' first extracellular segment (extracellular loop (ECL)1)...
June 20, 2017: Annals of the New York Academy of Sciences
https://www.readbyqxmd.com/read/28631834/citizenship-community-mental-health-and-the-common-good
#3
Kendall Atterbury, Michael Rowe
In this article, we address the issue of community mental health and the common good via an applied theory of citizenship to support the social inclusion, empowerment, and inclusion of persons diagnosed with psychiatric disorders. We begin by discussing citizenship, and the concept of the common good, in regard to historical conceptions of citizenship, including the historical exclusion of women, people of color, persons with mental illness, and others. We then review the development of our citizenship framework in response to the limitations of even the most innovative community mental health interventions, specifically the practice of mental health outreach to persons who are homeless...
June 20, 2017: Behavioral Sciences & the Law
https://www.readbyqxmd.com/read/28631409/exploration-of-a-ternary-deep-eutectic-solvent-of-methyltriphenylphosphonium-bromide-chalcone-formic-acid-for-the-selective-recognition-of-rutin-and-quercetin-in-herba-artemisiae-scopariae
#4
Wanwan Ma, Tangand Baokun, Kyung Ho Row
A methyltriphenylphosphonium bromide/chalcone/formic acid as a green ternary deep eutectic solvent was applied as a functional monomer and dummy template simultaneously in the synthesis of a new molecularly imprinted polymer. Ternary deep eutectic solvent based molecularly imprinted polymers were used as a solid-phase extraction sorbent in the separation and purification of rutin and quercetin from Herba Artemisiae Scopariae combined with high-performance liquid chromatography. FTIR spectroscopy and field-emission scanning electron microscopy were applied to characterize the deep eutectic solvent based molecularly imprinted polymers synthesized using different molar ratios of chalcone...
June 20, 2017: Journal of Separation Science
https://www.readbyqxmd.com/read/28630889/subspace-aware-recovery-of-low-rank-and-jointly-sparse-signals
#5
Sampurna Biswas, Soura Dasgupta, Raghuraman Mudumbai, Mathews Jacob
We consider the recovery of a matrix X, which is simultaneously low rank and joint sparse, from few measurements of its columns using a two-step algorithm. Each column of X is measured using a combination of two measurement matrices; one which is the same for every column, while the the second measurement matrix varies from column to column. The recovery proceeds by first estimating the row subspace vectors from the measurements corresponding to the common matrix. The estimated row subspace vectors are then used to recover X from all the measurements using a convex program of joint sparsity minimization...
March 2017: IEEE Transactions on Computational Imaging
https://www.readbyqxmd.com/read/28630603/elevated-il-37-levels-in-the-plasma-of-patients-with-severe-coronary-artery-calcification
#6
Meng Chai, Hai-Tao Zhang, Yu-Jie Zhou, Qing-Wei Ji, Qing Yang, Yu-Yang Liu, Ying-Xin Zhao, Dong-Mei Shi, Wei Liu, Li-Xia Yang, Lin-Lin Zhang, Jing Liang
BACKGROUND: Coronary artery calcification (CAC) is a predictor of cardiovascular events and plaque burden and is closely associated with chronic inflammation. Interleukin (IL)-37 is a newly discovered member of the IL-1 family and is considered an anti-inflammatory cytokine. Our recent study on mice indicated that IL-37 could attenuate atherosclerosis and vascular calcification, which suggests that IL-37 could be associated with the development of atherosclerosis and related diseases...
May 2017: Journal of Geriatric Cardiology: JGC
https://www.readbyqxmd.com/read/28630580/the-effect-of-upper-body-anaerobic-pre-loading-on-2000-m-ergometer-rowing-performance-in-college-level-male-rowers
#7
Priit Purge, Peter Hofmann, Rait Merisaar, Alexander Mueller, Gerhard Tschakert, Jarek Mäestu, Jaak Jürimäe
Elevated blood lactate has been shown to influence subsequent anaerobic exercise due to an inhibition of glycolysis. The aim of the present study was therefore to investigate the influence of a short and high-intensity anaerobic arm crank pre-load exercise (HIE) added to a low-intensity warm-up on cardio-respiratory and metabolic responses on a subsequent all out rowing exercise. Nine well-trained college level male rowers (24.6 ± 7.1 yrs; 1.87 ± 0.07 m; 88.9 ± 9.8 kg; 18.5 ± 3.7% body fat) volunteered to participate in the study...
June 2017: Journal of Sports Science & Medicine
https://www.readbyqxmd.com/read/28628442/phylogeography-of-burkholderia-pseudomallei-isolates-western-hemisphere
#8
Jay E Gee, Christopher A Gulvik, Mindy G Elrod, Dhwani Batra, Lori A Rowe, Mili Sheth, Alex R Hoffmaster
The bacterium Burkholderia pseudomallei causes melioidosis, which is mainly associated with tropical areas. We analyzed single-nucleotide polymorphisms (SNPs) among genome sequences from isolates of B. pseudomallei that originated in the Western Hemisphere by comparing them with genome sequences of isolates that originated in the Eastern Hemisphere. Analysis indicated that isolates from the Western Hemisphere form a distinct clade, which supports the hypothesis that these isolates were derived from a constricted seeding event from Africa...
July 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28628370/multiple-joint-exercises-using-elastic-resistance-bands-vs-conventional-resistance-training-equipment-a-cross-over-study
#9
Vegard M Iversen, Paul Jarle Mork, Ottar Vasseljen, Ronny Bergquist, Marius S Fimland
Previous studies indicate that elastic resistance bands (ERB) can be a viable option to conventional resistance-training equipment (CRE) during single-joint resistance exercises, but their efficacy has not been established for several commonly used multiple-joint resistance exercises. Thus, we compared muscular activation levels in four popular multiple-joint exercises performed with ERB (TheraBand(®)) vs. CRE (Olympic barbell or cable pulley machines). In a cross-over design, men and women (n = 29) performed squats, stiff-legged deadlifts, unilateral rows and lateral pulldown using both modalities...
June 19, 2017: European Journal of Sport Science
https://www.readbyqxmd.com/read/28627535/a-first-principles-study-on-the-adsorption-of-ethylenediamine-on-ge-100
#10
Do Hwan Kim, Suklyun Hong
We have performed density functional theory (DFT) calculations of the atomic and electronic structures of ethylenediamine on Ge(100). The two amine groups in ethylenediamine can interact with germanium surface atoms through a N-H dissociative nucleophilic reaction and/or N-dative bonding with an electron-deficient down Ge atom. Of the monodentate and row-bridged bidentate structures that formed, the dative-bonded configurations were found to be more stable than the NH dissociative adsorption structures. The formation of row-bridged bidentate, structures is more favorable than that of on-top or end-bridged structures...
June 19, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28625583/bridging-suture-makes-consistent-and-secure-fixation-in-double-row-rotator-cuff-repair
#11
Tetsutaro Fukuhara, Teruhisa Mihata, Bong Jae Jun, Masashi Neo
BACKGROUND: Inconsistent tension distribution may decrease the biomechanical properties of the rotator cuff tendon after double-row repair, resulting in repair failure. The purpose of this study was to compare the tension distribution along the repaired rotator cuff tendon among three double-row repair techniques. METHODS: In each of 42 fresh-frozen porcine shoulders, a simulated infraspinatus tendon tear was repaired by using 1 of 3 double-row techniques: (1) conventional double-row repair (no bridging suture); (2) transosseous-equivalent repair (bridging suture alone); and (3) compression double-row repair (which combined conventional double-row and bridging sutures)...
June 15, 2017: Journal of Orthopaedic Science: Official Journal of the Japanese Orthopaedic Association
https://www.readbyqxmd.com/read/28624239/functional-outcome-and-healing-of-large-and-massive-rotator-cuff-tears-repaired-with-a-load-sharing-rip-stop-construct
#12
Matthew P Noyes, Alexandre Ladermann, Patrick J Denard
PURPOSE: To prospectively review functional outcomes and healing rates of large and massive rotator cuff tears repaired with a load-sharing rip-stop (LSRS) technique. METHODS: Twenty-one consecutive patients underwent arthroscopic rotator cuff repair with an LSRS construct between January and December 2014. Seventeen patients with a minimum of 2 years' follow-up were included. Four patients did not complete clinical evaluations and functional outcome scores at a minimum of 2 years' follow-up and were lost to follow-up...
June 14, 2017: Arthroscopy: the Journal of Arthroscopic & related Surgery
https://www.readbyqxmd.com/read/28623667/the-genome-and-phenome-of-the-green-alga-chloroidium-sp-utex-3007-reveal-adaptive-traits-for-desert-acclimatization
#13
David R Nelson, Basel Khraiwesh, Weiqi Fu, Saleh Alseekh, Ashish Kumar Jaiswal, Amphun Chaiboonchoe, Khaled M Hazzouri, Matthew J O'Connor, Glenn L Butterfoss, Nizar Drou, Jillian D Rowe, Jamil Harb, Alisdair R Fernie, Kristin C Gunsalus, Kourosh Salehi-Ashtiani
To investigate the phenomic and genomic traits that allow green algae to survive in deserts, we characterized a ubiquitous species, Chloroidium sp. UTEX 3007, which we isolated from multiple locations in the United Arab Emirates (UAE). Metabolomic analyses of Chloroidium sp. UTEX 3007 indicated that the alga accumulates a broad range of carbon sources, including several desiccation tolerance-promoting sugars and unusually large stores of palmitate. Growth assays revealed capacities to grow in salinities from zero to 60 g/L and to grow heterotrophically on >40 distinct carbon sources...
June 17, 2017: ELife
https://www.readbyqxmd.com/read/28622790/early-life-risk-factors-identified-for-owner-reported-feline-overweight-and-obesity-at-around-two-years-of-age
#14
E C Rowe, W J Browne, R A Casey, T J Gruffydd-Jones, J K Murray
Obesity is considered the second most common health problem in pet cats in developed countries. This study used prospective data from a longitudinal study of pet cats ('C.L.A.W.S.', www.bristol.ac.uk/vetscience/claws) to identify early-life risk factors for feline overweight/obesity occurring at around two years of age. Data were collected via five owner-completed questionnaires (for cats aged two-six months, six months, 12 months, 18 months and two years respectively) completed between May 2011 and April 2015...
August 1, 2017: Preventive Veterinary Medicine
https://www.readbyqxmd.com/read/28622442/muscular-basis-of-whisker-torsion-in-mice-and-rats
#15
Sebastian Haidarliu, Knarik Bagdasarian, Namrata Shinde, Ehud Ahissar
Whisking mammals move their whiskers in the rostrocaudal and dorsoventral directions with simultaneous rolling about their long axes (torsion). Whereas muscular control of the first two types of whisker movement was already established, the anatomic muscular substrate of the whisker torsion remains unclear. Specifically, it was not clear whether torsion is induced by asymmetrical operation of known muscles or by other largely unknown muscles. Here we report that mystacial pads of newborn and adult rats and mice contain oblique intrinsic muscles (OMs) that connect diagonally adjacent vibrissa follicles...
June 16, 2017: Anatomical Record: Advances in Integrative Anatomy and Evolutionary Biology
https://www.readbyqxmd.com/read/28621550/the-use-of-digital-technologies-to-collect-patient-data-in-outcomes-research
#16
Bill Byrom, Bill Row
No abstract text is available yet for this article.
June 16, 2017: Journal of Comparative Effectiveness Research
https://www.readbyqxmd.com/read/28620181/hair-bundles-of-cochlear-outer-hair-cells-are-shaped-to-minimize-their-fluid-dynamic-resistance
#17
Nikola Ciganović, Amanuel Wolde-Kidan, Tobias Reichenbach
The mammalian sense of hearing relies on two types of sensory cells: inner hair cells transmit the auditory stimulus to the brain, while outer hair cells mechanically modulate the stimulus through active feedback. Stimulation of a hair cell is mediated by displacements of its mechanosensitive hair bundle which protrudes from the apical surface of the cell into a narrow fluid-filled space between reticular lamina and tectorial membrane. While hair bundles of inner hair cells are of linear shape, those of outer hair cells exhibit a distinctive V-shape...
June 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28619368/preliminary-evidence-for-associations-between-molecular-markers-and-quantitative-traits-in-a-set-of-bread-wheat-triticum-aestivum-l-cultivars-and-breeding-lines
#18
Babak Abdollahi Mandoulakani, Shilan Nasri, Sahar Dashchi, Sorour Arzhang, Iraj Bernousi, Hossein Abbasi Holasou
The identification of polymorphic markers associated with various quantitative traits allows us to test their performance for the exploitation of the extensive quantitative variation maintained in gene banks. In the current study, a set of 97 wheat germplasm accessions including 48 cultivars and 49 breeding lines were evaluated for 18 agronomic traits. The accessions were also genotyped with 23 ISSR, nine IRAP and 20 REMAP markers, generating a total of 658 clear and scorable bands, 86% of which were polymorphic...
June 12, 2017: Comptes Rendus Biologies
https://www.readbyqxmd.com/read/28616794/long-term-survival-after-multidisciplinary-therapy-for-residual-gallbladder-cancer-with-peritoneal-dissemination-a-case-report
#19
Daisuke Kuga, Tomoki Ebata, Yukihiro Yokoyama, Tsuyoshi Igami, Gen Sugawara, Takashi Mizuno, Junpei Yamaguchi, Masato Nagino
BACKGROUND: Although surgical resection is the only curative treatment for gallbladder cancer (GBC), concomitant peritoneal dissemination is considered far beyond the scope of resection. We report a long-term survivor with a residual GBC with multiple peritoneal disseminations who underwent an extended resection after effective chemotherapy. CASE PRESENTATION: A 59-year-old male underwent an open cholecystectomy for Mirizzi syndrome at a local hospital. Because of severe inflammation, the gallbladder was perforated during surgery, ending in a piecemeal resection...
December 2017: Surgical Case Reports
https://www.readbyqxmd.com/read/28616172/developing-approaches-for-linear-mixed-modeling-in-landscape-genetics-through-landscape-directed-dispersal-simulations
#20
Jeffrey R Row, Steven T Knick, Sara J Oyler-McCance, Stephen C Lougheed, Bradley C Fedy
Dispersal can impact population dynamics and geographic variation, and thus, genetic approaches that can establish which landscape factors influence population connectivity have ecological and evolutionary importance. Mixed models that account for the error structure of pairwise datasets are increasingly used to compare models relating genetic differentiation to pairwise measures of landscape resistance. A model selection framework based on information criteria metrics or explained variance may help disentangle the ecological and landscape factors influencing genetic structure, yet there are currently no consensus for the best protocols...
June 2017: Ecology and Evolution
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