Proceedings of the 9th International Conference on Computational Systems-Biology and Bioinformatics最新文献

筛选

英文中文

Inference of Sequence Homology by BLAST visualization of Influenza Genome set 基于BLAST可视化的流感病毒基因组序列同源性推断

Proceedings of the 9th International Conference on Computational Systems-Biology and Bioinformatics Pub Date : 2018-12-10 DOI: 10.1145/3291757.3291769

Rui Yin, J. Tan, D. Akhila, Xinrui Zhou, C. Kwoh

{"title":"Inference of Sequence Homology by BLAST visualization of Influenza Genome set","authors":"Rui Yin, J. Tan, D. Akhila, Xinrui Zhou, C. Kwoh","doi":"10.1145/3291757.3291769","DOIUrl":"https://doi.org/10.1145/3291757.3291769","url":null,"abstract":"Influenza viruses are known to cause annual epidemics and occasional pandemics which have severely impacted on public safety and economy. Understanding the origins of the novel strains of influenza can better predict the lethality of the new strain and prepare appropriate countermeasures to reduce the economic impact of potential pandemics. Researchers are usually overwhelmed with too much data. This paper aims to ease preliminary investigation task of data exploration, enabling domain expert to gain a better understand its specific characteristics. We developed a webbased application to explore the genomic sequence homology that improves upon current BLAST visualizations by summarizing additional supplementary data from BLAST hits into insightful charts. The application requires the influenza genome dataset as the input. The visualized results would provide users comprehensive knowledge to make inferences about the sequence homology of the queried influenza genome set, and hopefully to inspire some insightful hypotheses. The web application is publicly available at http://blastviz.scse.ntu.edu.sg.","PeriodicalId":307264,"journal":{"name":"Proceedings of the 9th International Conference on Computational Systems-Biology and Bioinformatics","volume":"51 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-12-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"127288778","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

Effect of dissipative coupling parameter in a computational model on the inclination angle of red blood cells in a shear flow 计算模型中耗散耦合参数对剪切流动中红细胞倾角的影响

Proceedings of the 9th International Conference on Computational Systems-Biology and Bioinformatics Pub Date : 2018-12-10 DOI: 10.1145/3291757.3291764

I. Cimrák

{"title":"Effect of dissipative coupling parameter in a computational model on the inclination angle of red blood cells in a shear flow","authors":"I. Cimrák","doi":"10.1145/3291757.3291764","DOIUrl":"https://doi.org/10.1145/3291757.3291764","url":null,"abstract":"Red blood cells immersed in a shear flow exhibit several stable states including tumbling, swinging and tank treading. With higher values of shear rate above a certain threshold, the cells undergo purely tank treading motion characterised by the motion of the cell membrane around the inner fluid of the cell. In this state of motion, the cells appear to be slender bodies, similar to ellipsoids. Their orientation can be quantified by an angle of inclination φ of the major axis with respect to the flow direction. Experimental studies measured this angle and computational models may be validated against this data. We consider a computational model of red blood cell immersed in a flow composed of two parts: fluid is discretised by a fixed grid with underlying evolution equations known as the lattice-Boltzmann method, while the cell membrane is approximated by a triangular spring network. Both meshes are coupled via dissipative coupling mimicking the natural no-slip boundary conditions on the interface between the fluid and the structure. The strength of this coupling is determined by the friction coefficient ξ. In this work we focus on validating the correct values of friction coefficient against the biological experiments involving the measurements of inclination angle of red blood cells immersed in a shear flow. We validate the previously derived relation for computation of ξ. Furthermore we provide analysis of the inclination angles for simulated cells for different values of shear rate.","PeriodicalId":307264,"journal":{"name":"Proceedings of the 9th International Conference on Computational Systems-Biology and Bioinformatics","volume":"27 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-12-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"133434990","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

Importance of Regional Differences in Brain Throughout Aging for Down Syndrome 唐氏综合症在整个衰老过程中大脑区域差异的重要性

Proceedings of the 9th International Conference on Computational Systems-Biology and Bioinformatics Pub Date : 2018-12-10 DOI: 10.1145/3291757.3291766

Handan Kulan, T. Dag

{"title":"Importance of Regional Differences in Brain Throughout Aging for Down Syndrome","authors":"Handan Kulan, T. Dag","doi":"10.1145/3291757.3291766","DOIUrl":"https://doi.org/10.1145/3291757.3291766","url":null,"abstract":"Down syndrome (DS) which affects approximately one in 700 live births is caused by an extra copy of the long arm of human chromosome 21 (HSA21). Statistical analysis has been done for understanding the protein expression profiles based on age and sex differences in DS. In addition, there are ongoing research efforts for comprehending expression patterns based on different brain regions. However, little is known about the mechanisms of expression differences in brain regions throughout aging. Insights into these mechanisms are required to understand the susceptibility of distinct brain regions to neuronal insults with aging. Dissection of this selective vulnerability will be critical to our understanding of DS. By extracting information from the critical proteins which take part in the mechanism of the molecular pathways, the diagnosis of DS can become easier. Also, understanding the molecular pathways can contribute to develop effective drugs for the treatment of DS. In this work, forward feature selection technique is applied for determining the protein subsets for old and young mice datasets which consist of the expression profiles across different brain regions. When these subsets are analyzed, it is observed that selected proteins play important roles in the processes, such as mTOR signaling pathway, AD, MAPK signaling pathway and apoptosis. We believe that the subsets of protein selected in our work can be utilized to understand the process of DS and can be used to develop age-related effective drugs.","PeriodicalId":307264,"journal":{"name":"Proceedings of the 9th International Conference on Computational Systems-Biology and Bioinformatics","volume":"128 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-12-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122880205","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: 0

首页上一页