Open Bioinformatics Journal最新文献_第6页

Long Non-coding RNAs in the Human Genome Acquired by Horizontal Gene Transfer 通过水平基因转移获得的人类基因组中的长非编码RNA

Open Bioinformatics Journal Pub Date : 2018-08-31 DOI: 10.2174/1875036201811010182

R. Pierneef, F. Clasen, Oliver Bezuidt, O. Reva

{"title":"Long Non-coding RNAs in the Human Genome Acquired by Horizontal Gene Transfer","authors":"R. Pierneef, F. Clasen, Oliver Bezuidt, O. Reva","doi":"10.2174/1875036201811010182","DOIUrl":"https://doi.org/10.2174/1875036201811010182","url":null,"abstract":"\u0000 \u0000 Horizontal gene transfer of mobile genetic elements is an essential component of prokaryotic evolution. These insertion events in eukaryotes and particularly in the human genome have been investigated by various methodologies with varying results.\u0000 \u0000 \u0000 \u0000 In this paper, we implement a sequence composition approach to investigate insertions of genomic islands in the human genome.\u0000 \u0000 \u0000 \u0000 A modified version of a prokaryotic GI identifier, SeqWord Gene Island Sniffer v.2.0, was used to predict genomic islands in the hg38 version of the human genome.\u0000 \u0000 \u0000 \u0000 Predicted genomic islands were enriched with long non-coding RNAs and also contributed to the acquisition and modification of proteins associated with the immune system and gonad development, albeit to a lesser extent. The estimated rate of acquisition of these genomic islands in vertebrate genomes was non-linear with regards to species divergence times with an acceleration at the time of vertebrate land invasion and during the transition of prosimians to monkeys soon after the Cretaceous-Paleogene extinction.\u0000 \u0000 \u0000 \u0000 The rapid acquisition of non-conserved long non-coding RNAs in the human genome and probably in vertebrata genomes was facilitated by horizontal gene transfer. All predicted human genomic islands and supporting information are freely accessible from http://hislands.bi.up.ac.za.\u0000","PeriodicalId":38956,"journal":{"name":"Open Bioinformatics Journal","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-08-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45233548","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Computational Pharmacogenetics of P-Glycoprotein Mediated Antiepileptic Drug Resistance p糖蛋白介导的抗癫痫药物耐药性的计算药物遗传学研究

Open Bioinformatics Journal Pub Date : 2018-08-31 DOI: 10.2174/1875036201811010197

Sindhu Varghese, Ashok Palaniappan

{"title":"Computational Pharmacogenetics of P-Glycoprotein Mediated Antiepileptic Drug Resistance","authors":"Sindhu Varghese, Ashok Palaniappan","doi":"10.2174/1875036201811010197","DOIUrl":"https://doi.org/10.2174/1875036201811010197","url":null,"abstract":"The treatment of epilepsy using antiepileptogenic drugs is complicated by drug resistance, resulting in treatment failure in more than one-third of cases. Human P-glycoprotein (hPGP;MDR1) is a known epileptogenic mediator.Given that experimental investigations have suggested a role for pharmacogenetics in this treatment failure, it would be of interest to study hPGP polymorphisms that might contribute to the emergence of drug resistance. Changes in protein functional activity could result from mutations as well as altered abundance. Bioinformatics approaches were used to assess and rank the functional impact of 20 missenseMDR1polymorphisms and the top five were selected. The structures of the wildtype and variant hPGP were modelled based on the mouse PGP structure. Docking studies of the wildtype and variant hPGP with four standard anti-epileptic drugs were carried out.Our results revealed that the drug binding site with respect to the wildtype protein was uniform. However, the variant hPGP proteins displayed a repertoire of binding sites with stronger binding affinities towards the drug.Our studies indicated that specific polymorphisms inMDR1could drive conformational changes of PGP structure, facilitating altered contacts with drug-substrates and thus modifying their bioavailability. This suggests thatMDR1polymorphisms could actively contribute to the emergence of pharmaco-resistance in antiepileptic therapy.","PeriodicalId":38956,"journal":{"name":"Open Bioinformatics Journal","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-08-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44401771","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Cyclostationary Analysis for Heart Rate Variability 心率变异性的循环平稳分析

Open Bioinformatics Journal Pub Date : 2018-07-31 DOI: 10.2174/1875036201811010164

M. Ambrosanio, F. Baselice

引用次数: 2

A Study on the Relevance of Feature Selection Methods in Microarray Data 微阵列数据特征选择方法相关性研究

Open Bioinformatics Journal Pub Date : 2018-07-31 DOI: 10.2174/1875036201811010117

Barnali Sahu, Satchidananda Dehuri, A. Jagadev

引用次数: 24

Enhanced Teamwork Communication Model for Electronic Clinical Pathways in Healthcare 医疗保健电子临床路径的增强团队沟通模型

Open Bioinformatics Journal Pub Date : 2018-07-31 DOI: 10.2174/1875036201811010140

Wasef Mater, M. Aldwairi, R. Ibrahim

引用次数: 3

A Wearable System for the Stress Monitoring of Air Traffic Controllers During An Air Traffic Control Refresher Training and the Trier Social Stress Test: A Comparative Study 一种可穿戴式空中交通管制员压力监测系统在空中交通管制复习训练和Trier社会压力测试中的比较研究

Open Bioinformatics Journal Pub Date : 2018-05-31 DOI: 10.2174/1875036201811010106

S. Rodrigues, J. S. Paiva, D. Dias, Marta Aleixo, R. Filipe, J. P. Cunha

{"title":"A Wearable System for the Stress Monitoring of Air Traffic Controllers During An Air Traffic Control Refresher Training and the Trier Social Stress Test: A Comparative Study","authors":"S. Rodrigues, J. S. Paiva, D. Dias, Marta Aleixo, R. Filipe, J. P. Cunha","doi":"10.2174/1875036201811010106","DOIUrl":"https://doi.org/10.2174/1875036201811010106","url":null,"abstract":"Air Traffic Control (ATC) is a complex and demanding process, exposing Air Traffic Controllers (ATCs) to high stress. Recently, efforts have been made in ATC to maintain safety and efficiency in the face of increasing air traffic demands. Computer simulations have been a useful tool for ATC training, improving ATCs skills and consequently traffic safety.This study aims to: a) evaluate psychophysiological indices of stress in an ATC simulation environment using a wearable biomonitoring platform. In order to obtain a measure of ATCs stress levels, results from an experimental study with the same participants, that included a stress-induced task were used as a stress ground truth; b) understand if there are differences in stress levels of ATCs with different job functions (“advisors”vs“operationals”) when performing an ATC Refresher Training, in a simulator environment.Two studies were conducted with ATCs: Study 1, that included a stress-induced task - the Trier Social Stress Test (TSST) and Study 2, that included an ATC simulation task. Linear Heart Rate Variability (HRV) features from ATCs were acquired using a medical-grade wearable Electrocardiogram (ECG) device. Self-reports were used to measure perceived stress.TSST was self-reported as being much more stressful than the simulation task. Physiological data supports these results. Results from study 2 showed more stress among the “advisors” group when comparing to the “operational” group.Results point to the importance of the development of quantified Occupational Health (qOHealth) devices to allow monitoring and differentiation of ATCs stress responses.","PeriodicalId":38956,"journal":{"name":"Open Bioinformatics Journal","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"48629433","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 3

Bioinformatic Analysis of a “Functional Cluster” Probably Related to Retinitis Pigmentosa 可能与色素性视网膜炎有关的“功能簇”的生物信息学分析

Open Bioinformatics Journal Pub Date : 2018-05-23 DOI: 10.2174/1875036201811010089

L. Donato, L. Denaro

引用次数: 0

Android Library for Recognition of Activities of Daily Living: Implementation Considerations, Challenges, and Solutions 用于识别日常生活活动的Android库：实施注意事项、挑战和解决方案

Open Bioinformatics Journal Pub Date : 2018-05-22 DOI: 10.2174/1875036201811010061

I. Pires, Maria Cristina Canavarro Teixeira, Nuno Pombo, N. Garcia, Francisco Flórez-Revuelta, S. Spinsante, R. Goleva, Eftim Zdravevski

引用次数: 18

Clinical Model to the Analysis of Synergy Pattern Changes of Back Muscles and its Relationship with the Occurrence of Fatigue 背部肌肉协同模式变化分析的临床模型及其与疲劳发生的关系

Open Bioinformatics Journal Pub Date : 2018-05-14 DOI: 10.2174/1875036201811010052

Armin Hakkak Moghaddam Torbati, E. Tahami, H. Kobravi

引用次数: 1

Identification of Better Gene Expression Data for Mosquito Species Classification Using Radial Basis Function Network Methodology 基于径向基函数网络方法的蚊虫物种分类基因表达数据筛选

Open Bioinformatics Journal Pub Date : 2018-04-30 DOI: 10.2174/1875036201811010038

J. Eswari, C. Venkateswarlu

引用次数: 1