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https://www.readbyqxmd.com/read/29352864/rosin-modified-cellulose-nanofiber-as-a-reinforcing-and-co-antimicrobial-agents-in-polylactic-acid-chitosan-composite-film-for-food-packaging
#1
Xun Niu, Yating Liu, Yang Song, Jinquan Han, Hui Pan
Cellulose nanofiber (CNF) was modified by rosin and used as a reinforcement filler within a polylactic acid (PLA) matrix. The resulting film was then coated with chitosan (CHT) to prepare a two-layer composite film for antimicrobial food packaging. The FT-IR spectra of rosin modified CNF (R-CNF) displayed a clear peak at 1730cm-1, which confirmed the successful esterification of CNF by rosin. The R-CNF showed a better dispersion in PLA matrix than CNF and the loading of R-CNF had a significant effect on the mechanical properties of the resulting film...
March 1, 2018: Carbohydrate Polymers
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/29351185/brief-report-lead-levels-in-selected-electronic-cigarettes-from-canada-and-the-united-states
#3
Zachary R Dunbar, Ananth Das, Richard J O'Connor, Maciej L Goniewicz, Binnian Wei, Mark J Travers
Few published studies have investigated the presence of lead in the e-liquid of electronic nicotine delivery systems (ENDS). Lead inhalation is associated with increased risk of stroke, heart disease, and other diseases. This study used a novel application of graphite furnace technology to compare the concentration of lead between e-liquids of different packaging and product designs using e-liquids that are or were commercially available in the United States and Canada. Eleven nicotine-free disposable ENDS devices and 12 bottled refill solutions that contained nicotine were purchased from retailers in Canada and the United States between 2015 and 2017...
January 19, 2018: International Journal of Environmental Research and Public Health
https://www.readbyqxmd.com/read/29346509/a-distance-based-approach-for-testing-the-mediation-effect-of-the-human-microbiome
#4
Jie Zhang, Zhi Wei, Jun Chen
Motivation: Recent studies have revealed a complex interplay between environment, the human microbiome, and health and disease. Mediation analysis of the human microbiome in these complex relationships could potentially provide insights into the role of the microbiome in the etiology of disease and, more importantly, lead to novel clinical interventions by modulating the microbiome. However, due to the high dimensionality, sparsity, non-normality and phylogenetic structure of microbiome data, none of the existing methods are suitable for testing such clinically important mediation effect...
January 15, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29346385/combined-effectiveness-of-anthelmintic-chemotherapy-and-wash-among-hiv-infected-adults
#5
Arianna R Means, Lisette van Lieshout, Eric Brienen, Krista Yuhas, James P Hughes, Paul Ndungu, Benson Singa, Judd L Walson
INTRODUCTION: Current global helminth control guidelines focus on regular deworming of targeted populations for morbidity control. However, water, sanitation, and hygiene (WASH) interventions may also be important for reducing helminth transmission. We evaluated the impact of different potential helminth protective packages on infection prevalence, including repeated treatment with albendazole and praziquantel with and without WASH access. METHODOLOGY/PRINCIPAL FINDINGS: We conducted a cohort study nested within a randomized trial of empiric deworming of HIV-infected adults in Kenya...
January 2018: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/29345329/generating-quantitative-cell-identity-labels-with-marker-enrichment-modeling-mem
#6
Kirsten E Diggins, Jocelyn S Gandelman, Caroline E Roe, Jonathan M Irish
Multiplexed single-cell experimental techniques like mass cytometry measure 40 or more features and enable deep characterization of well-known and novel cell populations. However, traditional data analysis techniques rely extensively on human experts or prior knowledge, and novel machine learning algorithms may generate unexpected population groupings. Marker enrichment modeling (MEM) creates quantitative identity labels based on features enriched in a population relative to a reference. While developed for cell type analysis, MEM labels can be generated for a wide range of multidimensional data types, and MEM works effectively with output from expert analysis and diverse machine learning algorithms...
January 18, 2018: Current Protocols in Cytometry
https://www.readbyqxmd.com/read/29344842/reasons-for-abortion-religion-religiosity-spirituality-and-attitudes-of-male-secondary-school-youth-in-south-africa
#7
Lebohang Selebalo-Bereng, Cynthia Joan Patel
This study focused on the relationship between religion, religiosity/spirituality (R/S), and attitudes of a sample of South African male secondary school youth toward women's rights to legal abortion in different situations. We distributed 400 self-administered questionnaires assessing the main variables (attitudes toward reasons for abortion and R/S) to the target sample in six different secondary schools in KwaZulu-Natal, South Africa. The responses of a final sample of 327 learners were then analyzed using the Statistical Package for the Social Sciences (SPSS) software...
January 17, 2018: Journal of Religion and Health
https://www.readbyqxmd.com/read/29342249/splice-expression-variation-analysis-seva-for-inter-tumor-heterogeneity-of-gene-isoform-usage-in-cancer
#8
Bahman Afsari, Theresa Guo, Michael Considine, Liliana Florea, Luciane T Kagohara, Genevieve L Stein-O'Brien, Dylan Kelley, Emily Flam, Kristina D Zambo, Patrick K Ha, Donald Geman, Michael F Ochs, Joseph A Califano, Daria A Gaykalova, Alexander V Favorov, Elana J Fertig
Motivation: Current bioinformatics methods to detect changes in gene isoform usage in distinct phenotypes compare the relative expected isoform usage in phenotypes. These statistics model differences in isoform usage in normal tissues, which have stable regulation of gene splicing. Pathological conditions, such as cancer, can have broken regulation of splicing that increases the heterogeneity of the expression of splice variants. Inferring events with such differential heterogeneity in gene isoform usage requires new statistical approaches...
January 12, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29342236/magnamwar-an-r-package-for-genome-wide-association-studies-of-bacterial-orthologs
#9
Corinne E Sexton, Hayden Z Smith, Peter D Newell, Angela E Douglas, John M Chaston
Summary: Here we report on an R package for genome-wide association studies of orthologous genes in bacteria. Before using the software, orthologs from bacterial genomes or metagenomes are defined using local or online implementations of OrthoMCL. These presence-absence patterns are statistically associated with variation in user-collected phenotypes using the Mono-Associated GNotobiotic Animals Metagenome-Wide Association R package (MAGNAMWAR). Genotype-phenotype associations can be performed with several different statistical tests based on the type and distribution of the data...
January 12, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29342233/quantumclone-clonal-assessment-of-functional-mutations-in-cancer-based-on-a-genotype-aware-method-for-clonal-reconstruction
#10
Paul Deveau, Leo Colmet Daage, Derek Oldridge, Virginie Bernard, Angela Bellini, Mathieu Chicard, Nathalie Clement, Eve Lapouble, Valerie Combaret, Anne Boland, Vincent Meyer, Jean-Francois Deleuze, Isabelle Janoueix-Lerosey, Emmanuel Barillot, Olivier Delattre, John Maris, Gudrun Schleiermacher, Valentina Boeva
Motivation: In cancer, clonal evolution is assessed based on information coming from single nucleotide variants and copy number alterations. Nonetheless, existing methods often fail to accurately combine information from both sources to truthfully reconstruct clonal populations in a given tumor sample or in a set of tumor samples coming from the same patient. Moreover, previously published methods detect clones from a single set of variants. As a result, compromises have to be done between stringent variant filtering (reducing dispersion in variant allele frequency estimates, VAFs) and using all biologically relevant variants...
January 12, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29341912/quantitative-estimation-of-phenytoin-sodium-disproportionation-in-the-formulations-using-vibration-spectroscopies-and-multivariate-methodologies
#11
Sathish Dharani, Ziyaur Rahman, Sogra F Barakh Ali, Hamideh Afrooz, Mansoor A Khan
Phenytoin sodium (PS) has tendency to convert to its base form; phenytoin base (PHT) during manufacturing, packaging, shelf life and in-use conditions that can influence its clinical performance. The objective of the present work was to develop a non-destructive, quick and easy analytical method for quantification of PHT in the drug product. A formulation was prepared containing the excipients present in the commercial capsule formulation of PS. Formulation containing either 100% PHT or PS was prepared and these formulations were mixed in different proportion to achieve 0-100% PHT matrices...
January 13, 2018: International Journal of Pharmaceutics
https://www.readbyqxmd.com/read/29340253/rbiomirgs-an-all-in-one-mirna-gene-set-analysis-solution-featuring-target-mrna-mapping-and-expression-profile-integration
#12
Jing Zhang, Kenneth B Storey
Background: With the continuous discovery of microRNA's (miRNA) association with a wide range of biological and cellular processes, expression profile-based functional characterization of such post-transcriptional regulation is crucial for revealing its significance behind particular phenotypes. Profound advancement in bioinformatics has been made to enable in depth investigation of miRNA's role in regulating cellular and molecular events, resulting in a huge quantity of software packages covering different aspects of miRNA functional analysis...
2018: PeerJ
https://www.readbyqxmd.com/read/29340037/systemic-bioinformatics-analysis-of-recurrent-aphthous-stomatitis-gene-expression-profiles
#13
Jian Wu, Zheng-Ping Chen, An-Quan Shang, Wei-Wei Wang, Zong-Ning Chen, Yun-Juan Tao, Yue Zhou, Wan-Xiang Wang
Recurrent aphthous stomatitis (RAS) represents the most common chronic oral diseases with the prevalence ranges from 5% to 25% for different populations. Its pathogenesis remains poorly understood, which limits the development of effective drugs and treatment methods. In this study, we conducted systemic bioinformatics analysis of gene expression profiles from the Gene Expression Omnibus (GEO) to identify potential drug targets for RAS. We firstly downloaded the gene microarray datasets with the accession number of GSE37265 from GEO and performed robust multi-array (RMA) normalization with affy R programming package...
December 19, 2017: Oncotarget
https://www.readbyqxmd.com/read/29336210/semi-supervised-identification-of-cancer-subgroups-using-survival-outcomes-and-overlapping-grouping-information
#14
Wei Wei, Zequn Sun, Willian A da Silveira, Zhenning Yu, Andrew Lawson, Gary Hardiman, Linda E Kelemen, Dongjun Chung
Identification of cancer patient subgroups using high throughput genomic data is of critical importance to clinicians and scientists because it can offer opportunities for more personalized treatment and overlapping treatments of cancers. In spite of tremendous efforts, this problem still remains challenging because of low reproducibility and instability of identified cancer subgroups and molecular features. In order to address this challenge, we developed Integrative Genomics Robust iDentification of cancer subgroups (InGRiD), a statistical approach that integrates information from biological pathway databases with high-throughput genomic data to improve the robustness for identification and interpretation of molecularly-defined subgroups of cancer patients...
January 1, 2018: Statistical Methods in Medical Research
https://www.readbyqxmd.com/read/29336119/evaluations-of-ultraiq-software-for-objective-ultrasound-image-quality-assessment-using-images-from-a-commercial-scanner
#15
Zaiyang Long, Donald J Tradup, Scott F Stekel, Krzysztof R Gorny, Nicholas J Hangiandreou
We evaluated a commercially available software package that uses B-mode images to semi-automatically measure quantitative metrics of ultrasound image quality, such as contrast response, depth of penetration (DOP), and spatial resolution (lateral, axial, and elevational). Since measurement of elevational resolution is not a part of the software package, we achieved it by acquiring phantom images with transducers tilted at 45 degrees relative to the phantom. Each measurement was assessed in terms of measurement stability, sensitivity, repeatability, and semi-automated measurement success rate...
January 16, 2018: Journal of Applied Clinical Medical Physics
https://www.readbyqxmd.com/read/29334888/dicer-an-r-package-for-class-discovery-using-an-ensemble-driven-approach
#16
Derek S Chiu, Aline Talhouk
BACKGROUND: Given a set of features, researchers are often interested in partitioning objects into homogeneous clusters. In health research, cancer research in particular, high-throughput data is collected with the aim of segmenting patients into sub-populations to aid in disease diagnosis, prognosis or response to therapy. Cluster analysis, a class of unsupervised learning techniques, is often used for class discovery. Cluster analysis suffers from some limitations, including the need to select up-front the algorithm to be used as well as the number of clusters to generate, in addition, there may exist several groupings consistent with the data, making it very difficult to validate a final solution...
January 15, 2018: BMC Bioinformatics
https://www.readbyqxmd.com/read/29331675/module-analysis-captures-pancancer-genetically-and-epigenetically-deregulated-cancer-driver-genes-for-smoking-and-antiviral-response
#17
Magali Champion, Kevin Brennan, Tom Croonenborghs, Andrew J Gentles, Nathalie Pochet, Olivier Gevaert
The availability of increasing volumes of multi-omics profiles across many cancers promises to improve our understanding of the regulatory mechanisms underlying cancer. The main challenge is to integrate these multiple levels of omics profiles and especially to analyze them across many cancers. Here we present AMARETTO, an algorithm that addresses both challenges in three steps. First, AMARETTO identifies potential cancer driver genes through integration of copy number, DNA methylation and gene expression data...
December 1, 2017: EBioMedicine
https://www.readbyqxmd.com/read/29331464/somatic-cell-count-based-selection-reduces-susceptibility-to-energy-shortage-during-early-lactation-in-a-sheep-model
#18
J Bouvier-Muller, C Allain, F Enjalbert, Y Farizon, D Portes, G Foucras, R Rupp
During the transition from late gestation to early lactation ruminants experience a negative energy balance (NEB), which is considered to increase susceptibility to mammary infections. Our previous study in 2 divergent lines of sheep selected for high and low somatic cell score (SCS) suggested an association between the response to NEB and genetic susceptibility to mastitis. Forty-eight early-lactation primiparous dairy ewes from the 2 SCS genetic lines were allocated to 2 homogeneous subgroups-an NEB group, which was energy restricted and received 60% of the energy requirements for 15 d, and a control-fed group-to obtain 4 balanced groups of 12 ewes: high-SCS positive energy balance, low-SCS positive energy balance, high-SCS NEB, and low-SCS NEB...
January 10, 2018: Journal of Dairy Science
https://www.readbyqxmd.com/read/29330081/optimization-of-a-technology-supported-physical-activity-intervention-for-breast-cancer-survivors-fit2thrive-study-protocol
#19
Siobhan M Phillips, Linda M Collins, Frank J Penedo, Kerry S Courneya, Whitney Welch, Alison Cottrell, Gillian R Lloyd, Kara Gavin, David Cella, Ronald T Ackermann, Juned Siddique, Bonnie Spring
Fit2Thrive is a theory-guided physical activity promotion trial using the Multiphase Optimization Strategy (MOST) to test efficacy for improving physical activity of five technology-supported physical activity promotion intervention components among breast cancer survivors. This trial will recruit 256 inactive breast cancer survivors nationwide. All participants will receive the core intervention which includes a Fitbit and standard self-monitoring Fit2Thrive smartphone application which will be downloaded to their personal phone...
January 9, 2018: Contemporary Clinical Trials
https://www.readbyqxmd.com/read/29329372/enrichment-analysis-with-epiannotator
#20
Yoann Pageaud, Christoph Plass, Yassen Assenov
Motivation: Deciphering relevant biological insights from epigenomic data can be a challenging task. One commonly used approach is to perform enrichment analysis. However, finding, downloading and using the publicly available functional annotations requires time, programming skills and IT infrastructure. Here we describe the online tool EpiAnnotator for performing enrichment analyses on epigenomic data in a fast and user-friendly way. Results: EpiAnnotator is an R Package accompanied by a web interface...
January 10, 2018: Bioinformatics
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