Proceedings Of The 4th Asia-pacific Bioinformatics Conference

by Limsoon Wong (Editor), Phoebe Yi-ping Chen (Editor), Ueng-cheng Yang (Editor), Tao Jiang (Editor)

Overview

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.

Product Details

ISBN-13:	9781860946233
Publisher:	Imperial College Press
Publication date:	12/14/2005
Series:	Series On Advances In Bioinformatics And Computational Biology , #3
Pages:	380
Product dimensions:	6.40(w) x 9.70(h) x 1.10(d)

Table of Contents

	Preface	v
	APBC 2006 Organization	vii
	Keynote Papers
	On the Inference of Regulatory Elements, Circuits and Modules	1
	Automating the Search for Lateral Gene Transfer	3
	Whole Genome Optical Mapping	5
	Contributed Papers
	Accuracy of Four Heuristics for the Full Sibship Reconstruction Problem in the Presence of Genotype Errors	7
	Inference of Gene Regulatory Networks from Microarray Data: A Fuzzy Logic Approach	17
	System Identification and Robustness Analysis of the Circadian Regulatory Network via Microarray Data in Arabidopsis Thaliana	27
	Protein Subcellular Localization Prediction with WoLF PSORT	39
	Predicting Ranked SCOP Domains by Mining Associations of Visual Contents in Distance Matrices	49
	RECOMP: A Parsimony-Based Method for Detecting Recombination	59
	AlignScope: A Visual Mining Tool for Gene Team Finding with Whole Genome Alignment	69
	An Efficient Algorithm for String Motif Discovery	79
	Discriminative Detection of Cis-Acting Regulatory Variation from Location Data	89
	On the Complexity of Finding Control Strategies for Boolean Networks	99
	Characterization of Multi-Charge Mass Spectra for Peptide Sequencing	109
	EDAM: An Efficient Clique Discovery Algorithm with Frequency Transformation for Finding Motifs	119
	A Recursive Method for Solving Haplotype Frequencies in Multiple Loci Linkage Analysis	129
	Trends in Codon and Amino Acid Usage in Human Pathogen Tropheryma Whipplei, the Only Known Actinobacteria with Reduced Genome	139
	Consequences of Mutation, Selection and Physico-Chemical Properties of Encoded Proteins on Synonymous Codon Usage in Adenoviruses	149
	Microarray Missing Value Imputation by Iterated Local Least Squares	159
	Property-Dependent Analysis of Aligned Proteins from Two Or More Populations	169
	A Generalized Output-Coding Scheme with SVM for Multiclass Microarray Classification	179
	Techniques for Assessing Phylogenetic Branch Support: A Performance Study	187
	Analyzing Inconsistency Toward Enhancing Integration of Biological Molecular Databases	197
	A Novel Approach for Structured Consensus Motif Inference Under Specificity and Quorum Constraints	207
	A Randomized Algorithm for Learning Mahalanobis Metrics: Application to Classification and Regression of Biological Data	217
	Disentangling the Role of Tetranucleotides in the Sequence-Dependence of DNA Conformation: A Molecular Dynamics Approach	227
	A New Neural Network for B-Turn Prediction: The Effect of Site-Specific Amino Acid Preference	237
	Identification of Over-Represented Combinations of Transcription Factor Binding Sites in Sets of Co-Expressed Genes	247
	A Knowledge-Based Approach to Protein Local Structure Prediction	257
	Identification of MicroRNA Precursors via SVM	267
	Genome-Wide Computational Analysis of Small Nuclear RNA Genes of Oryza Sativa (Indica and Japonica)	277
	Resolving the Gene Tree and Species Tree Problem by Phylogenetic Mining	287
	Characterization of the Existence of Galled-Tree Networks (Extended Abstract)	297
	Semi-Supervised Threshold Queries on Pharmacogenomics Time Sequences	307
	Structure Based Chemical Shift Prediction Using Random Forests Non-Linear Regression	317
	ONBIRES: Ontology-Based Biological Relation Extraction System	327
	A More Accurate and Efficient Whole Genome Phylogeny	337
	Gene Expression Data Clustering Based on Local Similarity Combination	353
	Author Index	363