Genome Informatics 2010: The 10th Annual International Workshop on Bioinformatics and Systems Biology (IBSB 2010)

by Akutsu, Tatsuya; Kanehisa, Minoru; Klipp, Edda; Miyano, Satoru; Mohr, Scott

• ISBN13: 9781848166578
• ISBN10: 1848166575
• Format: Hardcover
• Copyright: 2010-07-30
• Publisher: World Scientific Pub Co Inc

Summary

This volume contains 18 peer-reviewed papers based on the presentations at the 10th Annual International Workshop on Bioinformatics and Systems Biology (IBSB 2010) held at Kyoto University from July 26 to July 28, 2010. This workshop started in 2001 as an event for doctoral students and young researchers to present and discuss their research results and approaches in bioinformatics and systems biology. It is part of a collaborative educational program involving leading institutions and leaders committed to the following programs: bull; Boston - Graduate Program in Bioinformatics, Boston University bull; Berlin - The International Research Training Group (IRTG) "Genomics and Systems Biology of Molecular Networks" bull; Kyoto - The JSPS International Training Program (ITP) "International Research and Training Program of Bioinformatics and Systems Biology" bull; Tokyo - Global COE Program "Center of Education and Research for Advanced Genome-Based Medicine"

Table of Contents

Preface	p. vii
Program Committee	p. ix
Kinetic Modelling of DNA Replication Initiation in Budding Yeast	p. 1
Predicting Protein Complex Geometries with Linear Scoring Functions	p. 21
Characterizing Common Substructures of Ligands for GPCR Protein Subfamilies	p. 31
A Systems Biology Approach: Modelling of Aquaporin-2 Trafficking	p. 42
Comparison of Gene Expression Profiles Produced by Cage, Illumina Microarray and Real Time RT-PCR	p. 56
On the Performance of Methods for Finding a Switching Mechanism in Gene Expression	p. 69
Gene Regulatory Network Clustering for Graph Layout Based on Microarray Gene Expression Data	p. 84
FluxViz - Cytoscape Plug-In for Visualization of Flux Distributions in Networks	p. 96
Comprehensive Genomic Analysis of Sulfur-Relay Pathway Genes	p. 104
Phylogenetic Analysis of Lipid Mediator GPCRs	p. 116
Genome-Wide Analysis of Plant UGT Family Based on Sequence and Substrate Information	p. 127
Robust Gene Network Analysis Reveals Alteration of the STAT5a Network as a Hallmark of Prostate Cancer	p. 139
Analyzing Gene Coexpression Data by an Evolutionary Model	p. 154
Collocation-Based Sparse Estimation for Constructing Dynamic Gene Networks	p. 164
Different Groups of Metabolic Genes Cluster Around Early and Late Firing Origins of Replication in Budding Yeast	p. 179
Integer Programming-Based Method for Completing Signaling Pathways and Its Application to Analysis of Colorectal Cancer	p. 193
G1 and G2 Arrests in Response to Osmotic Shock are Robust Properties of the Budding Yeast Cell Cycle	p. 204
A Dynamic Programming Algorithm to Predict Synthesis Processes of Tree-Structured Compounds with Graph Grammar	p. 218
Author Index	p. 231
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