Biomedical Engineering and Computational Biology最新文献_第7页

Current status of endovascular devices to treat abdominal aortic aneurysms. 血管内装置治疗腹主动脉瘤的现状。

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2013-04-10 eCollection Date: 2013-01-01 DOI: 10.4137/BECB.S10970

Kamell Eckroth-Bernard, Robert Garvin, Evan Ryer

引用次数: 24

Some perspectives on network modeling in therapeutic target prediction. 治疗目标预测中网络建模的一些观点。

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2013-02-21 eCollection Date: 2013-01-01 DOI: 10.4137/BECB.S10793

Reka Albert, Bhaskar DasGupta, Nasim Mobasheri

引用次数: 0

Application of a Bioinformatics-Based Approach to Identify Novel Putative in vivo BACE1 Substrates. 应用基于生物信息学的方法鉴定新的假定体内BACE1底物。

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2013-02-03 eCollection Date: 2013-01-01 DOI: 10.4137/BECB.S8383

Joseph L Johnson, Emily Chambers, Keerthi Jayasundera

{"title":"Application of a Bioinformatics-Based Approach to Identify Novel Putative in vivo BACE1 Substrates.","authors":"Joseph L Johnson, Emily Chambers, Keerthi Jayasundera","doi":"10.4137/BECB.S8383","DOIUrl":"https://doi.org/10.4137/BECB.S8383","url":null,"abstract":"BACE1, a membrane-bound aspartyl protease that is implicated in Alzheimer's disease, is the first protease to cut the amyloid precursor protein resulting in the generation of amyloid-β and its aggregation to form senile plaques, a hallmark feature of the disease. Few other native BACE1 substrates have been identified despite its relatively loose substrate specificity. We report a bioinformatics approach identifying several putative BACE1 substrates. Using our algorithm, we successfully predicted the cleavage sites for 70% of known BACE1 substrates and further validated our algorithm output against substrates identified in a recent BACE1 proteomics study that also showed a 70% success rate. Having validated our approach with known substrates, we report putative cleavage recognition sequences within 962 proteins, which can be explored using in vivo methods. Approximately 900 of these proteins have not been identified or implicated as BACE1 substrates. Gene ontology cluster analysis of the putative substrates identified enrichment in proteins involved in immune system processes and in cell surface protein-protein interactions. ","PeriodicalId":42484,"journal":{"name":"Biomedical Engineering and Computational Biology","volume":null,"pages":null},"PeriodicalIF":2.8,"publicationDate":"2013-02-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.4137/BECB.S8383","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32725419","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 11

A Comparative Approach to Hand Force Estimation using Artificial Neural Networks. 一种基于人工神经网络的手部力估计比较方法。

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2012-07-30 eCollection Date: 2012-01-01 DOI: 10.4137/BECB.S9335

Farid Mobasser, Keyvan Hashtrudi-Zaad

{"title":"A Comparative Approach to Hand Force Estimation using Artificial Neural Networks.","authors":"Farid Mobasser, Keyvan Hashtrudi-Zaad","doi":"10.4137/BECB.S9335","DOIUrl":"https://doi.org/10.4137/BECB.S9335","url":null,"abstract":"In many applications that include direct human involvement such as control of prosthetic arms, athletic training, and studying muscle physiology, hand force is needed for control, modeling and monitoring purposes. The use of inexpensive and easily portable active electromyography (EMG) electrodes and position sensors would be advantageous in these applications compared to the use of force sensors which are often very expensive and require bulky frames. Among non-model-based estimation methods, Multilayer Perceptron Artificial Neural Networks (MLPANN) has widely been used to estimate muscle force or joint torque from different anatomical features in humans or animals. This paper investigates the use of Radial Basis Function (RBF) ANN and MLPANN for force estimation and experimentally compares the performance of the two methodologies for the same human anatomy, ie, hand force estimation, under an ensemble of operational conditions. In this unified study, the EMG signal readings from upper-arm muscles involved in elbow joint movement and elbow angular position and velocity are utilized as inputs to the ANNs. In addition, the use of the elbow angular acceleration signal as an input for the ANNs is also investigated. ","PeriodicalId":42484,"journal":{"name":"Biomedical Engineering and Computational Biology","volume":null,"pages":null},"PeriodicalIF":2.8,"publicationDate":"2012-07-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.4137/BECB.S9335","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32725418","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 23

Support Vector Machine Based Classification Model for Screening Plasmodium falciparum Proliferation Inhibitors and Non-Inhibitors 基于支持向量机的恶性疟原虫增殖抑制剂和非抑制剂筛选分类模型

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2011-01-01 DOI: 10.4137/BECB.S7503

S. Subramaniam, Monica Mehrotra, D. Gupta

{"title":"Support Vector Machine Based Classification Model for Screening Plasmodium falciparum Proliferation Inhibitors and Non-Inhibitors","authors":"S. Subramaniam, Monica Mehrotra, D. Gupta","doi":"10.4137/BECB.S7503","DOIUrl":"https://doi.org/10.4137/BECB.S7503","url":null,"abstract":"There is an urgent need to develop novel anti-malarials in view of the increasing disease burden and growing resistance of the currently used drugs against the malarial parasites. Proliferation inhibitors targeting P. falciparum intraerythrocytic cycle are one of the important classes of compounds being explored for its potential to be novel antimalarials. Support Vector Machine (SVM) based model developed by us can facilitate rapid screening of large and diverse chemical libraries by reducing false hits and prioritising compounds before setting up expensive High Throughput Screening experiment. The SVM model, trained with molecular descriptors of proliferation inhibitors and non-inhibitors, displayed a satisfactory performance on cross validations and independent data set, with an average accuracy of 83% and AUC of 0.88. Intriguingly, the method displayed remarkable accuracy for the recently submitted P. falciparum whole cell screening datasets. The method also predicted several inhibitors in the National Cancer Institute diversity set, mostly similar to the known inhibitors.","PeriodicalId":42484,"journal":{"name":"Biomedical Engineering and Computational Biology","volume":null,"pages":null},"PeriodicalIF":2.8,"publicationDate":"2011-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.4137/BECB.S7503","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70685915","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: 7

Automated Cardiac Drug Infusion System Using Adaptive Fuzzy Neural Networks Controller 基于自适应模糊神经网络控制器的心脏药物自动输注系统

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2011-01-01 DOI: 10.4137/BECB.S6495

M. E. Karar, M. El-Brawany

引用次数: 23

Modelling the Molecular Transportation of Subcutaneously Injected Salubrinal 皮下注射Salubrinal的分子运输模型

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2011-01-01 DOI: 10.4137/BECB.S7050

Andy B. Chen, Ping Zhang, Z. Duan, Guofeng Wang, H. Yokota

{"title":"Modelling the Molecular Transportation of Subcutaneously Injected Salubrinal","authors":"Andy B. Chen, Ping Zhang, Z. Duan, Guofeng Wang, H. Yokota","doi":"10.4137/BECB.S7050","DOIUrl":"https://doi.org/10.4137/BECB.S7050","url":null,"abstract":"For the subcutaneous administration of a chemical agent (salubrinal), we constructed a mathematical model of molecule transportation and subsequently evaluated the kinetics of diffusion, convection, and molecular turnover. Salubrinal is a potential therapeutic agent that can reduce cellular damage and death. The understanding of its temporal profiles in local tissue as well as in a whole body is important to develop a proper strategy for its administration. Here, the diffusion and convection kinetics was formulated using partial and ordinary differential equations in one- and three-dimensional (semi-spherical) coordinates. Several key parameters including an injection velocity, a diffusion coefficient, thickness of subcutaneous tissue, and a permeability factor at the tissue-blood boundary were estimated from experimental data in rats. With reference to analytical solutions in a simplified model without convection, numerical solutions revealed that the diffusion coefficient and thickness of subcutaneous tissue determined the timing of the peak concentration in the plasma, and its magnitude was dictated by the permeability factor. Furthermore, the initial velocity, induced by needle injection, elevated an immediate transport of salubrinal at t < 1h. The described analysis with a combination of partial and ordinary differential equations contributes to the prediction of local and systemic effects and the understanding of the transportation mechanism of salubrinal and other agents.","PeriodicalId":42484,"journal":{"name":"Biomedical Engineering and Computational Biology","volume":null,"pages":null},"PeriodicalIF":2.8,"publicationDate":"2011-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.4137/BECB.S7050","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70685828","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 Methodologies for Analyzing, Modeling and Controlling Gene Regulatory Networks 分析、建模和控制基因调控网络的计算方法

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2010-01-01 DOI: 10.4137/BECB.S5594

Zahra Zamani, A. Hajihosseini, A. Masoudi-Nejad

引用次数: 3

Computational Identification of Putative miRNAs from Felis Catus 猫类推测mirna的计算鉴定

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2010-01-01 DOI: 10.4137/BECB.S5233

G. Sathyamurthy, N. Swamy

{"title":"Computational Identification of Putative miRNAs from Felis Catus","authors":"G. Sathyamurthy, N. Swamy","doi":"10.4137/BECB.S5233","DOIUrl":"https://doi.org/10.4137/BECB.S5233","url":null,"abstract":"microRNAs represent a class of noncoding small RNAs of approximately 20–23 nt length, which are evolutionarily conserved and play a vital role in various biological processes by either degrading or repressing mRNA translation. The Felis catus (cat) genome sequence has been published, and just revealed the number of miRNAs in the genome–-without mention of any further details on these miRNAs. This paper discusses an in silico comparative approach using all known sequences of vertebrate pre-miRNA as query sequence, and report 405 putative miRNAs from cat genome. We determine the identity values of pre-miRNAs and mature miRNAs besides statistical sequence characteristics. Interestingly, among 405 miRNAs–-90, 53 and 50 showed 100% identity to cattle, human and dog, respectively. Further, we have validated 6 miRNAs, whose identity are <85% with the query sequence and validated them using MiPred algorithm. We also identify 25 miRNA clusters in cat based on their homologs in other vertebrates. Most importantly, based on identities among pre-miRNA, mature miRNA, miRNA families and clusters, we observe that miRNAs from cat are more identical to cattle, than humans. Our results, therefore may add a new dimension to the studies related to the evolution of cat.","PeriodicalId":42484,"journal":{"name":"Biomedical Engineering and Computational Biology","volume":null,"pages":null},"PeriodicalIF":2.8,"publicationDate":"2010-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.4137/BECB.S5233","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"70685951","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: 2

Design of Druglike Small Molecules for Possible Inhibition of Antiapoptotic BCL-2, BCL-W, and BFL-1 Proteins 可能抑制抗凋亡BCL-2、BCL-W和bcl -1蛋白的类药物小分子设计

IF 2.8

Biomedical Engineering and Computational Biology Pub Date : 2010-01-01 DOI: 10.4137/BECB.S5575

D. S. Dalafave

引用次数: 7