Proceedings Of The 6th Asia Pacific Bioinformatics Conference

High-throughput sequencing and functional genomics technologies have given us the human genome sequence as well as those of other experimentally, medically, and agriculturally important species, thus enabling large-scale genotyping and gene expression profiling of human populations. Databases containing large numbers of sequences, polymorphisms, structures, metabolic pathways, and gene expression profiles of normal and diseased tissues are rapidly being generated for human and model organisms. Bioinformatics is therefore gaining importance in the annotation of genomic sequences; the understanding of the interplay among and between genes and proteins; the analysis of the genetic variability of species; the identification of pharmacological targets; and the inference of evolutionary origins, mechanisms, and relationships. This proceedings volume contains an up-to-date exchange of knowledge, ideas, and solutions to conceptual and practical issues of bioinformatics by researchers, professionals, and industry practitioners at the 6th Asia-Pacific Bioinformatics Conference held in Kyoto, Japan, in January 2008. Contents:Recent Progress in Phylogenetic Combinatorics (A Dress)Predicting Nucleolar Proteins Using Support-Vector Machines (M Bodén)Structure-Approximating Design of Stable Proteins in 2D HP Model Fortified by Cysteine Monomers (A H Khodabakhshi et al.)Seed Optimization Is No Easier than Optimal Golomb Ruler Design (B Ma & H Yao)Analysis of Structural Strand Asymmetry in Non-coding RNAs (J Wen et al.)Genome Halving with Double Cut and Join (R Warren & D Sankoff)Symbolic Approaches for Finding Control Strategies in Boolean Networks (C J Langmead & S K Jha)Optimal Algorithm for Finding DNA Motifs with Nucleotide Adjacent Dependency (F Y L Chin et al.)and other papers Readership: Academics, researchers, and graduate students in bioinformatics and computer science. Keywords:Bioinformatics;Computational Biology;Systems Biology;Statistical Modeling;Comparative Genomics;Evolutionary Biology;Data Mining;Structural Bioinformatics;Statistical Genetics;Algorithms

High-throughput sequencing and functional genomics technologies have given us the human genome sequence as well as those of other experimentally, medically, and agriculturally important species, thus enabling large-scale genotyping and gene expression profiling of human populations. Databases containing large numbers of sequences, polymorphisms, structures, metabolic pathways, and gene expression profiles of normal and diseased tissues are rapidly being generated for human and model organisms. Bioinformatics is therefore gaining importance in the annotation of genomic sequences; the understanding of the interplay among and between genes and proteins; the analysis of the genetic variability of species; the identification of pharmacological targets; and the inference of evolutionary origins, mechanisms, and relationships. This proceedings volume contains an up-to-date exchange of knowledge, ideas, and solutions to conceptual and practical issues of bioinformatics by researchers, professionals, and industry practitioners at the 6th Asia-Pacific Bioinformatics Conference held in Kyoto, Japan, in January 2008.

High-throughput sequencing and functional genomics technologies have given us a draft human genome sequence and have enabled large-scale genotyping and gene expression profiling of human populations. Databases containing large numbers of sequences, polymorphisms, and gene expression profiles of normal and diseased tissues in different clinical states are rapidly being generated for human and model organisms. Bioinformatics is thus rapidly growing in importance in the annotation of genomic sequences, in the understanding of the interplay between genes and proteins, in the analysis of the genetic variability of species, and so on. This proceedings contains an up-to-date exchange of knowledge, ideas, and solutions to conceptual and practical issues of bioinformatics, by researchers, professionals, and industrial practitioners at the 4th Asia-Pacific Bioinformatics Conference held in Taipei in February 2006. Contents:Accuracy of Four Heuristics for the Full Sibship Reconstruction Problem in the Presence of Genotype Errors (D A Konovalov)Predicting Ranked SCOP Domains by Mining Asociations of Visual Contents in Distance Matrices (P-H Chi & C-R Shyu)An Efficient Algorithm for String Motif Discovery (F Y L Chin & H C M Leung)On the Complexity of Finding Control Strategies for Boolean Networks (T Akutsu et al.)Microarray Missing Value Imputation by Iterated Local Least Squares (Z Cai et al.)Techniques for Assessing Phylogenetic Branch Support: A Performance Study (D Ruths & L Nakhleh)Identification of Over-Represented Combinations of Transcription Factor Binding Sites in Sets of Co-Expressed Genes (S-S Huang et al.)A Knowledge-Based Approach to Protein Local Structure Prediction (C-T Chen et al.)Resolving the Gene Tree and Species Tree Problem by Phylogenetic Mining (X Han)Gene Expression Data Clustering Based on Local Similarity Combination (D Pan & F Wang)and other papers Readership: Academics, researchers, graduate students in bioinformatics and computer science. Keywords:Bioinformatics;Computational Biology;Systems Biology;Statistical Modeling;Comparative Genomics;Evolutionary Biology;Data Mining;Structural Bioinformatics;Statistical Genetics

High-throughput sequencing and functional genomics technologies have given us the human genome sequence as well as those of other experimentally, medically, and agriculturally important species, and have enabled large-scale genotyping and gene expression profiling of human populations. Databases containing large numbers of sequences, polymorphisms, structures, and gene expression profiles of normal and diseased tissues are being rapidly generated for human and model organisms. Bioinformatics is thus rapidly growing in importance in the annotation of genomic sequences; the understanding of the interplay among and between genes and proteins; the analysis of genetic variability of species; the identification of pharmacological targets; and the inference of evolutionary origins, mechanisms, and relationships. This proceedings volume contains an up-to-date exchange of knowledge, ideas, and solutions to conceptual and practical issues of bioinformatics by researchers, professionals, and industrial practitioners at the 5th Asia-Pacific Bioinformatics Conference held in Hong Kong in January 2007.

High-throughput sequencing and functional genomics technologies have given us a draft human genome sequence and have enabled large-scale genotyping and gene expression profiling of human populations. Databases containing large number of sequences, polymorphisms, and gene expression profiles of normal and diseased tissues in different clinical states are rapidly being generated for human and model organisms. Bioinformatics is thus rapidly growing in importance in the annotation of genomic sequences, in the understanding of the interplay between genes and proteins, in the analysis the genetic variability of species, etc. The 3rd APBC brings together researchers, professionals, and industrial practitioners for interaction and exchange of knowledge and ideas. The proceedings contains the latest results that address conceptual and practical issues of bioinformatics. Papers presented at APBC'05 and included in this proceedings volume span the following: Novel Applications in Bioinformatics, Computational Analysis of Biological Data, Data Mining & Statistical Modeling of Biological Data, Modeling and Simulation of Biological Processes, Visualization of Biological Processes and Data, Management, Migration, and Integration of Biological Databases, Access, Indexing, and Search in Biological Databases. Contents:A Better Gap Penalty for Pairwise-SVM (H N Chua & W-K Sung)A Graph Database with Visual Queries for Genomics (G Butler et al.)Consensus Fold Recognition by Predicted Model Quality (J Xu et al.)Toward Discovering Disease-Specific Gene Networks from Online Literature (Z Zhang et al.)Hybrid Registration for Two-Dimensional Gel Protein Images (X Wang & D D Feng)Exact Algorithms for Motif Search (S Rajasekaran et al.)Voting Algorithms for Discovering Long Motifs (F Y L Chin & H C M Leung)A Highly Scalable Algorithm for the Extraction of Cis-Regulatory Regions (A M Carvalho et al.)A Support Vector Machine Approach for Prediction of T Cell Epitopes (L Huang & Y Dai)Protein Informations Towards Integration of Data Grid and Computing Grid (H Nakamura)Computing the Assignment of Orthologous Genes via Genome Rearrangement (X Chen et al.)and other papers Readership: Computational biologists, bioinformaticists, computer scientists, biologists. Keywords:Bioinformatics;Computational Biology;Datamining;Biological Data;Modeling;Visualization;Database Management;Database Integration;Biological Database Indexing;Biological Database Search

High-throughput sequencing and functional genomics technologies have given us a draft human genome sequence and have enabled large-scale genotyping and gene expression profiling of human populations. Databases containing large numbers of sequences, polymorphisms, and gene expression profiles of normal and diseased tissues in different clinical states are rapidly being generated for human and model organisms. Bioinformatics is thus rapidly growing in importance in the annotation of genornic sequences, in the understanding of the interplay between genes and proteins, in the analysis of the genetic variability of species, and so on. This proceedings contains an up-to-date exchange of knowledge, ideas, and solutions to conceptual and practical issues of bioinformatics, by researchers, professionals, and industrial practitioners at the 4th Asia-Pacific Bioinformatics Conference held in Taipei in February 2006.