Bioinformatics Research and Application: 7th International Symposium, Isbra 2011, Changsha, China, May 27-29, 2011, Proceedings - Lecture Notes in Computer Science

Jacket Description/Back: This volume constitutes the refereed proceedings of the 7th International Symposium on Bioinformatics Research and Applications, ISBRA 2011, held in Changsha, China, in May 2011. The 36 revised full papers presented together with 4 invited talks were carefully reviewed and selected from 92 submissions. Topics presented span all areas of bioinformatics and computational biology, including the development of experimental or commercial systems. Table of Contents: Phylogenetics of Heterogeneous Samples / Russell Schwartz -- OMG! Orthologs for Multiple Genomes - Competing Formulations / David Sankoff -- Phylogenetic Analysis of Whole Genomes / Bernard M. E. Moret -- Genetic and Pharmacogenetic Studies of Neuropsychiatric Disorders: Increasingly Critical Roles of Bioinformatics Research and Applications / Liping Wei -- Genome-Phenome Association Analysis of Complex Diseases a Structured Sparse Regression Approach / Eric Xing -- Prediction of Essential Proteins by Integration of PPI Network Topology and Protein Complexes Information / Jun Ren, Jianxin Wang, Min Li, Euan Wang, Binbin Liu -- Computing the Protein Binding Sites / Fei Guo, Lusheng Wang -- SETTER - RNA SEcondary sTructure-based TERtiary Structure Similarity Algorithm / David Hoksza, Daniel Svozil -- Prediction of Essential Genes by Mining Gene Ontology Semantics / Yu-Cheng Liu, Po-I Chiu, Hsuan-Cheng Huang, Vincent S. Tseng -- High-Performance Blob-Based Iterative Reconstruction of Electron Tomography on Multi-GPUs / Xiaohua Wan, Pa Zhang, Qi Chu, Zhiyong Liu -- Component-Based Matching for Multiple Interacting RNA Sequences / Ghada Badr, Marcel Turcotte -- A New Method for Identifying Essential Proteins Based on Edge Clustering Coefficient / Huan Wang, Min Li, Jianxin Wang, Yi Pan -- Gene Order in Rosid Phylogeny, Inferred from Pairwise Syntenies among Extant Genomes / Chunfang Zheng, David Sankoff -- Algorithms to Detect Multiprotein Modularity Conserved during Evolution / Luqman Hodgkinson, Richard M. Karp -- The Kernel of Maximum Agreement Subtrees / Krister M. Swenson, Eric Chen, Nicholas D. Pattengale, David Sankoff -- A Consensus Approach to Predicting Protein Contact Map via Logistic Regression / Jian-Yi Yang, Xin Chen -- A Linear Time Algorithm for Error-Corrected Reconciliation of Unrooted Gene Trees / Pawel GOrecki, Oliver Eulenstein -- Comprehensive Pharmacogenomic Pathway Screening by Data Assimilation / Takanori Hasegawa, Rui Yamaguchi, Masao Nagasaki, Seith Imoto, Satoru Miyano -- The Deep Coalescence Consensus Tree Problem is Pareto on Clusters / Harris T. Lin, J. Gordon Burleigh, Oliver Eulenstein -- Fast Local Search for Unrooted Robinson-Foulds Supertrees / Ruchi Chaudhary, J. Gordon Burleigh, David FernAndez-Baca -- A Metric for Phylogenetic Trees Based on Matching / Yu Lin, Vaibhav Rajan, Bernard M. E. Moret -- Describing the Orthology Signal in a PPI Network at a Functional, Complex Level / Pavol Jancura, Eleftheria Mavridou, Beatriz Pontes, Elena Marchiori -- Algorithms for Rapid Error Correction for the Gene Duplication Problem / Ruchi Chaudhary, J. Gordon Burleigh, Oliver Eulenstein -- TransDomain: A Transitive Domain-Based Method in Protein-Protein Interaction Prediction / Yi-Tsung Tang, Hung-Yu Kao -- Rapid and Accurate Generation of Peptide Sequence Tags with a Graph Search Approach / Hui Li, Lauren Scott, Chunmei Liu, Mugizi Rwebangira, Legand Burge, William Southerland -- In Silico Evolution of Multi-scale Microbial systems in the Presence of Mobile Genetic Elements and Horizontal Gene Transfer / Vadim Mozhayskiy, Ilias Tagkopoulos -- Comparative Evalutaion of Set-Level Techniques in Microarray Classification / Jiri Klema, Matej Holec, Filip Zelezny, Jakub Tolar -- Gene Network Modules-Based Liner Discriminant Analysis of Microarray Gene Expression Data / Pingzhao Hu, Shelley Bull, Hui Jiang, 286 -- A Polynomial Algebra Method for Computing Exemplar Breakpoint Distance / Bin Fu, Louxin Zhang -- The Maximum Clique Enumeration Problem: Algorithms, Applications and Implementations / John D. Eblen, Charles A. Phillips, Gary L. Rogers, Michael A. Langston -- Query-Adaptive Ranking with Support Vector Machines for Protein Homology Prediction / Yan Fu, Rong Pan, Qiang Yang, Wen Gao -- A Novel Core-Attachment Based Greedy Search Method for Mining Functional Modules in Protein Interaction Networks / Chaojun Li, Jieyue He, Baoliu Ye, Wei Zhong -- ProPhyC: A Probabilistic Phylogenetic Model for Refining Regulatory Networks / Xiuwei Zhang, Bernard M. E. Moret -- Prediction of DNA-Binding Propensity of Proteins by the Ball-Histogram Method / Andrea SzabOovA, Ondrej Kuzelka, Sergio Morales E., Filip ZeleznY, Jakub Tolar -- Multi-label Correlated Semi-supervised Learning for Protein Function Prediction / Jonathan Q. Jiang -- Regene: Automatic Construction of a Multiple Component Dirichlet Mixture Priors Covariance Model to Identify Non-coding RNA / Felipe Lessa, Daniele Martins Neto, KAtia GuimarAes, Marcelo Brigido, Maria Emilia Walter -- Accurate Estimation of Gene Expression Levels from DGE Sequencing Data / Marius Nicolae, Ion Mandoiu -- An Integrative Approach for Genomic Island Prediction in Prokaryotic Genomes / Han Wang, John Fazekas, Matthew Booth, Qi Liu, Dongsheng Che -- A Systematic Comparison of Genome Scale Clustering Algorithms / Jeremy J. Jay, John D. Eblen, Yun Zhang, Mikael Benson, Andy D. Perkins, Arnold M. Saxton, Brynn H. Voy, Elissa J. Chester, Michael A. Langston -- Mining Biological Interaction Networks Using Weighted Quasi-Bicliques / Wen-Chieh Chang, Sudheer Vakati, Roland Krause, Oliver Eulenstein -- Towards a Characterisation of the Generalised Cladistic Character Compatibility Problem for Non-branching Character Trees / JAn Manuch, Murray Patterson, Arvind Gupta -- Author Index.

Contributor Bio:  Zelikovsky, Alexander Alexander Zelikovsky, PhD, is Associate Professor in the Computer Science Department at Georgia State University. His research focuses on discrete algorithms and their applications in bio-technology, bioinformatics, VLSI computer-aided design, and wireless networ