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https://www.readbyqxmd.com/read/28335544/combination-effect-of-antituberculosis-drugs-and-ethanolic-extract-of-selected-medicinal-plants-against-multi-drug-resistant-mycobacterium-tuberculosis-isolates
#1
Prabasiwi Nur Fauziyah, Elin Yulinah Sukandar, Dhyan Kusuma Ayuningtyas
Adverse drug reaction and resistance to antituberculosis drugs remain the causes of tuberculosis therapeutic failure. This research aimed to find the combination effect of standard antituberculosis drugs with Hibiscus sabdariffa L., Kaempferia galanga L., and Piper crocatum N.E. Br against multi-drug resistant (MDR) Mycobacterium tuberculosis isolates. Two MDR strains (i.e., isoniazid/ethambutol resistant and rifampicin/streptomycin resistant) of M. tuberculosis were inoculated in Löwenstein-Jensen medium containing a combination of standard antituberculosis drugs and ethanolic extracts of H...
March 20, 2017: Scientia Pharmaceutica
https://www.readbyqxmd.com/read/28335522/extracellular-vesicles-deliver-host-and-virus-rna-and-regulate-innate-immune-response
#2
REVIEW
Takahisa Kouwaki, Masaaki Okamoto, Hirotake Tsukamoto, Yoshimi Fukushima, Hiroyuki Oshiumi
The innate immune system plays a crucial role in controlling viral infection. Pattern recognition receptors (PRRs), such as Toll-like receptors and RIG-I-like receptors, sense viral components called pathogen-associated molecular patterns (PAMPs) and trigger signals to induce innate immune responses. Extracellular vesicles (EVs), including exosomes and microvesicles, deliver functional RNA and mediate intercellular communications. Recent studies have revealed that EVs released from virus-infected cells deliver viral RNA to dendritic cells and macrophages, thereby activating PRRs in recipient cells, which results in the expression of type I interferon and pro-inflammatory cytokines...
March 20, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28335480/weighted-kernel-entropy-component-analysis-for-fault-diagnosis-of-rolling-bearings
#3
Hongdi Zhou, Tielin Shi, Guanglan Liao, Jianping Xuan, Jie Duan, Lei Su, Zhenzhi He, Wuxing Lai
This paper presents a supervised feature extraction method called weighted kernel entropy component analysis (WKECA) for fault diagnosis of rolling bearings. The method is developed based on kernel entropy component analysis (KECA) which attempts to preserve the Renyi entropy of the data set after dimension reduction. It makes full use of the labeled information and introduces a weight strategy in the feature extraction. The class-related weights are introduced to denote differences among the samples from different patterns, and genetic algorithm (GA) is implemented to seek out appropriate weights for optimizing the classification results...
March 18, 2017: Sensors
https://www.readbyqxmd.com/read/28335345/electrostatic-self-assembly-of-diamond-nanoparticles-onto-al-and-n-polar-sputtered-aluminum-nitride-surfaces
#4
Taro Yoshikawa, Markus Reusch, Verena Zuerbig, Volker Cimalla, Kee-Han Lee, Magdalena Kurzyp, Jean-Charles Arnault, Christoph E Nebel, Oliver Ambacher, Vadim Lebedev
Electrostatic self-assembly of diamond nanoparticles (DNPs) onto substrate surfaces (so-called nanodiamond seeding) is a notable technique, enabling chemical vapor deposition (CVD) of nanocrystalline diamond thin films on non-diamond substrates. In this study, we examine this technique onto differently polarized (either Al- or N-polar) c-axis oriented sputtered aluminum nitride (AlN) film surfaces. This investigation shows that Al-polar films, as compared to N-polar ones, obtain DNPs with higher density and more homogeneously on their surfaces...
November 17, 2016: Nanomaterials
https://www.readbyqxmd.com/read/28335269/galactosylated-liposomes-for-targeted-co-delivery-of-doxorubicin-vimentin-sirna-to-hepatocellular-carcinoma
#5
Hea Ry Oh, Hyun-Young Jo, James S Park, Dong-Eun Kim, Je-Yoel Cho, Pyung-Hwan Kim, Keun-Sik Kim
The combination of therapeutic nucleic acids and chemotherapeutic drugs has shown great promise for cancer therapy. In this study, asialoglycoprotein receptors (ASGPR) targeting-ligand-based liposomes were tested to determine whether they can co-deliver vimentin siRNA and doxorubicin to hepatocellular carcinoma (HCC) selectively. To achieve this goal, we developed an ASGPR receptor targeted co-delivery system called gal-doxorubicin/vimentin siRNA liposome (Gal-DOX/siRNA-L). The Gal-DOX/siRNA-L was created via electrostatic interaction of galactose linked-cationic liposomal doxorubicin (Gal-DOX-L) on vimentin siRNA...
July 30, 2016: Nanomaterials
https://www.readbyqxmd.com/read/28335004/barriers-and-facilitators-for-institutional-delivery-among-poor-mesoamerican-women-a-cross-sectional-study
#6
Bernardo Hernandez, Danny V Colombara, Marielle C Gagnier, Sima S Desai, Annie Haakenstad, Casey Johanns, Claire R McNellan, Jennifer Nelson, Erin B Palmisano, Diego Ríos-Zertuche, Alexandra Schaefer, Paola Zúñiga-Brenes, Emma Iriarte, Ali H Mokdad
Professional skilled care has shown to be one of the most promising strategies to reduce maternal mortality, and in-facility deliveries are a cost-effective way to ensure safe births. Countries in Mesoamerica have emphasized in-facility delivery care by professionally skilled attendants, but access to good-quality delivery care is still lacking for many women. We examined the characteristics of women who had a delivery in a health facility and determinants of the decision to bypass a closer facility and travel to a distant one...
March 15, 2017: Health Policy and Planning
https://www.readbyqxmd.com/read/28334970/expenditure-tracking-and-review-of-reproductive-maternal-newborn-and-child-health-policy-in-pakistan
#7
Muhammad Ashar Malik, Abdul Sattar Nahyoun, Arjumand Rizvi, Zaid Ahmad Bhatti, Zulfiqar Ahmad Bhutta
Since 2001 substantial resources have been allocated to the reproductive, maternal, newborn and child health sector (RMNCH) in Pakistan. Many new programmes have been started and coverage of some existing programmes has been extended to un-served and rural areas. Despite these efforts the Millennium Development Goals (MDGs) 4 and 5 were not achieved (2000-15). Maternal Mortality Ratio was reduced to 170 per 100 000 live births (target 100) by 2013 at an annual reduction rate of 3.6% (1990-2013). Against the target of 46 per 1000 live births, the Under Five Mortality Rate was reduced to 81 per 1000 live births by 2015 at an annual reduction rate of 2...
March 15, 2017: Health Policy and Planning
https://www.readbyqxmd.com/read/28334797/molecular-mechanism-governing-ratio-dependent-transcription-regulation-in-the-ccdab-operon
#8
Alexandra Vandervelde, Igor Drobnak, San Hadži, Yann G-J Sterckx, Thomas Welte, Henri De Greve, Daniel Charlier, Rouslan Efremov, Remy Loris, Jurij Lah
Bacteria can become transiently tolerant to several classes of antibiotics. This phenomenon known as persistence is regulated by small genetic elements called toxin-antitoxin modules with intricate yet often poorly understood self-regulatory features. Here, we describe the structures of molecular complexes and interactions that drive the transcription regulation of the ccdAB toxin-antitoxin module. Low specificity and affinity of the antitoxin CcdA2 for individual binding sites on the operator are enhanced by the toxin CcdB2, which bridges the CcdA2 dimers...
February 17, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334786/lessons-learned-from-community-based-participatory-research-establishing-a-partnership-to-support-lesbian-gay-bisexual-and-transgender-ageing-in-place
#9
Leslie A Wright, Diane K King, Jessica H Retrum, Kenneth Helander, Shari Wilkins, Jennifer M Boggs, Jennifer Dickman Portz, Kathryn Nearing, Wendolyn S Gozansky
Background.: Due to a history of oppression and lack of culturally competent services, lesbian, gay, bisexual and transgender (LGBT) seniors experience barriers to accessing social services. Tailoring an evidence-based ageing in place intervention to address the unique needs of LGBT seniors may decrease the isolation often faced by this population. Objective.: To describe practices used in the formation of a community-based participatory research (CBPR), partnership involving social workers, health services providers, researchers and community members who engaged to establish a LGBT ageing in place model called Seniors Using Supports To Age In Neighborhoods (SUSTAIN)...
February 21, 2017: Family Practice
https://www.readbyqxmd.com/read/28334760/twin-primer-non-enzymatic-dna-assembly-an-efficient-and-accurate-multi-part-dna-assembly-method
#10
Jing Liang, Zihe Liu, Xi Z Low, Ee L Ang, Huimin Zhao
DNA assembly forms the cornerstone of modern synthetic biology. Despite the numerous available methods, scarless multi-fragment assembly of large plasmids remains challenging. Furthermore, the upcoming wave in molecular biological automation demands a rethinking of how we perform DNA assembly. To streamline automation workflow and minimize operator intervention, a non-enzymatic assembly method is highly desirable. Here, we report the optimization and operationalization of a process called Twin-Primer Assembly (TPA), which is a method to assemble polymerase chain reaction-amplified fragments into a plasmid without the use of enzymes...
February 23, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334611/somatosensory-cortex-plays-an-essential-role-in-forelimb-motor-adaptation-in-mice
#11
Mackenzie Weygandt Mathis, Alexander Mathis, Naoshige Uchida
Our motor outputs are constantly re-calibrated to adapt to systematic perturbations. This motor adaptation is thought to depend on the ability to form a memory of a systematic perturbation, often called an internal model. However, the mechanisms underlying the formation, storage, and expression of such models remain unknown. Here, we developed a mouse model to study forelimb adaptation to force field perturbations. We found that temporally precise photoinhibition of somatosensory cortex (S1) applied concurrently with the force field abolished the ability to update subsequent motor commands needed to reduce motor errors...
March 22, 2017: Neuron
https://www.readbyqxmd.com/read/28334366/vcnet-vector-based-gene-co-expression-network-construction-and-its-application-to-rna-seq-data
#12
Zengmiao Wang, Huaying Fang, Nelson Leung-Sang Tang, Minghua Deng
Motivation: Building gene co-expression network (GCN) from gene expression data is an important field of bioinformatic research. Nowadays, RNA-seq data provides high dimensional information to quantify gene expressions in term of read counts for individual exons of genes. Such an increase in the dimension of expression data during the transition from microarray to RNA-seq era made many previous co-expression analysis algorithms based on simple univariate correlation no longer applicable...
March 8, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334342/tagging-snp-set-selection-with-maximum-information-based-on-linkage-disequilibrium-structure-in-genome-wide-association-studies
#13
Shudong Wang, Sicheng He, Fayou Yuan, Xinjie Zhu
Motivation: Effective tagging single-nucleotide polymorphism (SNP)-set selection is crucial to SNP-set analysis in genome-wide association studies (GWAS). Most of the existing tagging SNP-set selection methods cannot make full use of the information hidden in common or rare variants associated diseases. It is noticed that some SNPs have overlapping genetic information owing to linkage disequilibrium (LD) structure between SNPs. Therefore, when testing the association between SNPs and disease susceptibility, it is sufficient to elect the representative SNPs (called tag SNP-set or tagSNP-set) with maximum information...
March 16, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334310/different-from-trees-more-than-metaphors-branching-silhouettes-corals-cacti-and-the-oaks
#14
János Podani
There has long been ambiguity in the use of the term tree in phylogenetic systematics, which is a continuous source of misinterpretation of evolutionary relationships. The basic problem is that while many trees with phylogenetic or evolutionary relevance, such as cladograms, are consistent with graph theory, tree-like visualization of phylogeny may also be done via other types of graphics, especially botanical (or literal) tree drawings. As a consequence, the meaning of such diagrams is not always clear: a given picture may have multiple interpretations in its different parts and two figures that look similar may actually carry quite different information...
March 11, 2017: Systematic Biology
https://www.readbyqxmd.com/read/28334224/computational-modeling-of-in-vivo-and-in-vitro-protein-dna-interactions-by-multiple-instance-learning
#15
Zhen Gao, Jianhua Ruan
Motivation: The study of transcriptional regulation is still difficult yet fundamental in molecular biology research. While the development of both in vivo and in vitro profiling techniques have significantly enhanced our knowledge of transcription factor (TF)-DNA interactions, computational models of TF-DNA interactions are relatively simple and may not reveal sufficient biological insight. In particular, supervised learning based models for TF-DNA interactions attempt to map sequence-level features ( k -mers) to binding event but usually ignore the location of k -mers, which can cause data fragmentation and consequently inferior model performance...
March 1, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334118/individualized-analysis-of-differentially-expressed-mirnas-with-application-to-the-identification-of-mirnas-deregulated-commonly-in-lung-cancer-tissues
#16
Haidan Yan, Hao Cai, Qingzhou Guan, Jun He, Juan Zhang, You Guo, Haiyan Huang, Xiangyu Li, Yawei Li, Yunyan Gu, Lishuang Qi, Zheng Guo
Identifying differentially expressed microRNAs (DE miRNAs) between cancer samples and normal controls is a common way to investigate carcinogenesis mechanisms. However, for a DE miRNA detected at the population-level, we do not know whether it is DE in a particular cancer sample. Here, based on the finding that the within-sample relative expression orderings of miRNA pairs are highly stable in a particular type of normal tissues but widely disrupted in the corresponding cancer tissues, we proposed a method, called RankMiRNA, to identify DE miRNAs in each cancer tissue compared with its own normal state...
February 23, 2017: Briefings in Bioinformatics
https://www.readbyqxmd.com/read/28334108/fast-admixture-analysis-and-population-tree-estimation-for-snp-and-ngs-data
#17
Yu Jade Cheng, Thomas Mailund, Rasmus Nielsen
Structure methods are highly used population genetic methods for classifying individuals in a sample fractionally into discrete ancestry components. We introduce a new optimization algorithm for the classical STRUCTURE model in a maximum likelihood framework. Using analyses of real data we show that the new method finds solutions with higher likelihoods than the state-of-the-art method inthe same computational time. The optimization algorithm is also applicable to models based on genotype likelihoods, that can account for the uncertainty in genotype-calling associated with Next Generation Sequencing (NGS) data...
February 17, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334002/improving-hybrid-how-to-best-combine-indirect-and-direct-encoding-in-evolutionary-algorithms
#18
Lucas Helms, Jeff Clune
Many challenging engineering problems are regular, meaning solutions to one part of a problem can be reused to solve other parts. Evolutionary algorithms with indirect encoding perform better on regular problems because they reuse genomic information to create regular phenotypes. However, on problems that are mostly regular, but contain some irregularities, which describes most real-world problems, indirect encodings struggle to handle the irregularities, hurting performance. Direct encodings are better at producing irregular phenotypes, but cannot exploit regularity...
2017: PloS One
https://www.readbyqxmd.com/read/28333996/evaluating-erroneous-offside-calls-in-soccer
#19
Stefanie Hüttermann, Benjamin Noël, Daniel Memmert
The ability to simultaneously attend to multiple objects declines with increases in the visual angle separating distant objects. We explored whether these laboratory-measured limits on visual attentional spread generalize to a real life context: offside calls by soccer assistant referees. We coded all offside calls from a full year of first division German soccer matches. By determining the x-y coordinates of the relevant players and assistant referee on the soccer field we were able to calculate how far assistant referees had to spread their visual attention to perform well...
2017: PloS One
https://www.readbyqxmd.com/read/28333980/evaluating-alignment-and-variant-calling-software-for-mutation-identification-in-c-elegans-by-whole-genome-sequencing
#20
Harold E Smith, Sijung Yun
Whole-genome sequencing is a powerful tool for analyzing genetic variation on a global scale. One particularly useful application is the identification of mutations obtained by classical phenotypic screens in model species. Sequence data from the mutant strain is aligned to the reference genome, and then variants are called to generate a list of candidate alleles. A number of software pipelines for mutation identification have been targeted to C. elegans, with particular emphasis on ease of use, incorporation of mapping strain data, subtraction of background variants, and similar criteria...
2017: PloS One
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