Pacific Symposium on Biocomputing 2005: Hawaii, USA, 4-8 January 2005The Pacific Symposium on Biocomputing (PSB 2005) is an international, multidisciplinary conference for the presentation and discussion of current research in the theory and application of computational methods in problems of biological significance. This latest volume in the prestigious conference series contains the contributions of top researchers from the US, the Asia-Pacific region and around the world. Sections are devoted to databases, algorithms, interfaces, visualization, modeling and other computational methods, as applied to biological problems, with emphasis on applications in data-rich areas of molecular biology. The book is an essential source of ideas, discoveries and references for academics in biocomputing, bioinformatics researchers and computer scientists. |
Contents
Preface | 1 |
An Adaptive Dynamic Programming Algorithm for the Side | 16 |
Exploring Protein Folding Trajectories Using Geometric Spanners | 40 |
Coarse and Reliable Geometric Alignment for Protein Docking | 64 |
Ontology Driven Dynamic Linking of Biology Resources | 79 |
Phenomic Knowledge Discovery via Structured Terminology | 103 |
Predicting GO Associations from Protein Domain | 127 |
GO Molecular Function Terms Are Predictive of Subcellular Localization | 151 |
Threshold Gradient Descent Method for Censored Data Regression | 272 |
Exploratory Visual Analysis of Pharmacogenomic Results | 296 |
Study of Effect of Drug Lexicons on Medication Extraction from | 308 |
Algorithms for Structural Comparison and Statistical Analysis of | 334 |
TwoStage MultiClass Support Vector Machines to Protein Secondary | 346 |
Representing StructureFunction Relationships in Mechanistically | 358 |
Discovering SequenceStructure Motifs from Protein Segments and | 370 |
INFERRING SNP FUNCTION USING EVOLUTIONARY | 382 |
Implications of Compositionality in the Gene Ontology for Its | 174 |
A Flexible Measure of Contextual Similarity for Biomedical Terms | 197 |
Understanding the Global Properties of FunctionallyRelated Gene | 209 |
MultiAspect Gene Relation Analysis | 233 |
Identification of Genomic Signatures for the Design of Assays | 248 |
Improving Functional Annotation of NonSynonomous SNPs with | 397 |
A Bayesian Framework for SNP Identification | 421 |
JOINT LEARNING FROM MULTIPLE TYPES | 445 |
Joint Learning of Dynamic | 459 |
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Common terms and phrases
activity algorithm alignment amino acid analysis annotation applied approach assignment associated Bayesian binding Bioinformatics Biol biological process biomedical cell cycle cellular ChainTweak classifier clinical clusters codon computational concepts correlation database dataset described domain drug edges enzyme evolutionary example exons experimental expression data extracted Figure frequency gene expression Gene Ontology gene products genetic genome GO terms graph HMMs human hyperclique pattern identified input interaction lexicon location data maps match method microarray modules molecular function motif MSVM multiple mutation name strings node optimal p-value pairs parameters peptide pharmacogenomics phenotypes positive prediction probability problem profiles protein complexes proteomics random random forest RefSeq regulation relationships represented residue RMSD score secondary structure selected sequence sigma factor significant similarity SNPs spanner specific statistical subfamily subset superfamily support vector machine Table target threshold transcription factor UMLS values vector yeast