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E-raamat: Genome Informatics: Proceedings of the 20th International Conference [World Scientific e-raamat]

Edited by (Keio Univ, Japan), Edited by (Korea Advanced Inst Of Science & Technology, Korea), Edited by (Univ Of Tokyo, Japan)
  • Formaat: 240 pages
  • Sari: Genome Informatics Series
  • Ilmumisaeg: 27-Oct-2009
  • Kirjastus: Imperial College Press
  • ISBN-13: 9781848165632
Teised raamatud teemal:
  • World Scientific e-raamat
  • Raamatu hind pole hetkel teada
  • Formaat: 240 pages
  • Sari: Genome Informatics Series
  • Ilmumisaeg: 27-Oct-2009
  • Kirjastus: Imperial College Press
  • ISBN-13: 9781848165632
Teised raamatud teemal:
This volume contains papers presented at the 20th International Conference on Genome Informatics (GIW2009) held at the Pacifico Yokohama, Japan from December 14 to 16, 2009.The GIW Series provides an international forum for the presentation and discussion of original research papers on all aspects of bioinformatics, computational biology and systems biology. Its scope includes biological sequence analysis, protein structure prediction, genetic regulatory networks, bioinformatic algorithms, comparative genomics, and biomolecular data integration and analysis. Boasting a history of 20 years, GIW is the longest-running international bioinformatics conference.
A total of 18 contributed papers were selected for presentation at GIW 2009 and for inclusion in this book. In addition, this book contains abstracts from the five invited speakers: Sean Eddy (HHMI's Janelia Farm, USA), Minoru Kanehisa (Kyoto University, Japan), Sang Yup Lee (KAIST, Korea), Hideyuki Okano (Keio University, Japan), and Mark Ragan (University of Queensland, Australia).

This volume contains papers presented at the 20th International Conference on Genome Informatics (GIW 2009) held at the Pacifico Yokohama, Japan from December 14 to 16, 2009. The GIW Series provides an international forum for the presentation and discussion of original research papers on all aspects of bioinformatics, computational biology and systems biology. Its scope includes biological sequence analysis, protein structure prediction, genetic regulatory networks, bioinformatic algorithms, comparative genomics, and biomolecular data integration and analysis. Boasting a history of 20 years, GIW is the longest-running international bioinformatics conference.A total of 18 contributed papers were selected for presentation at GIW 2009 and for inclusion in this book. In addition, this book contains abstracts from the five invited speakers: Sean Eddy (HHMI's Janelia Farm, USA), Minoru Kanehisa (Kyoto University, Japan), Sang Yup Lee (KAIST, Korea), Hideyuki Okano (Keio University, Japan) and Mark Ragan (University of Queensland, Australia).
Preface v
Acknowledgments vi
Committees vii
Part A Full Papers
1(202)
Predicting Protein-Protein Relationships from Literature Using Latent Topics
3(10)
T. Aso
K. Eguchi
Evaluation of DNA Intramolecular Interactions for Nucleosome Positioning in Yeast
13(8)
M. Fernandez
S. Fujii
H. Kono
A. Sarai
Quality Control and Reproducibility in DNA Microarray Experiments
21(11)
A. Fujita
J. R. Sato
F. H. L. da Silva
M. C. Galvao
M. C. Sogayar
S. Miyano
Comparative Analysis of Topological Patterns in Different Mammalian Networks
32(14)
B. Goemann
A. P. Potapov
M. Ante
E. Wingender
Tools for Investigating Mechanisms of Antigenic Variation: New Extensions to varDB
46(14)
C. N. Hayes
D. Diez
N. Joannin
M. Kanehisa
M. Wahlgren
C. E. Wheelock
S. Goto
Localized Suffix Array and Its Application to Genome Mapping Problems for Paired-End Short Reads
60(12)
K. Kimura
A. Koike
Comparative Analysis of Aerobic and Anaerobic Prokaryotes to Identify Correlation between Oxygen Requirement and Gene-Gene Functional Association Patterns
72(13)
Y. Lin
H. Wu
Calculation of Protein-Ligand Binding Free Energy Using Smooth Reaction Path Generation (SRPG) Method: A Comparison of the Explicit Water Model, GB/SA Model and Docking Score Function
85(13)
D. Mitomo
Y. Fukunishi
J. Higo
H. Nakamura
Structural Insights into the Enzyme Mechanism of a New Family of D-2-Hydroxyacid Dehydrogenases, a Close Homolog of 2-Ketopantoate Reductase
98(8)
S. Mondal
K. Mizuguchi
Comprehensive Analysis of Sequence-Structure Relationships in the Loop Regions of Proteins
106(11)
S. Nakamura
K. Shimizu
The Prediction of Local Modular Structures in a Co-Expression Network Based on Gene Expression Datasets
117(11)
Y. Ogata
N. Sakurai
H. Suzuki
K. Aoki
K. Saito
D. Shibata
Gradient-Based Optimization of Hyperparameters for Base-Pairing Profile Local Alignment Kernels
128(11)
K. Sato
Y. Saito
Y. Sakakibara
A Method for Efficient Execution of Bioinformatics Workflows
139(10)
J. Seo
Y. Kido
S. Seno
Y. Takenaka
H. Matsuda
Development of a New Meta-Score for Protein Structure Prediction from Seven All-Atom Distance Dependent Potentials Using Support Vector Regression
149(10)
M. Shirota
T. Ishida
K. Kinoshita
Refining Markov Clustering for Protein Complex Prediction by Incorporating Core-Attachment Structure
159(10)
S. Srihari
K. Ning
H. W. Leong
An Assessment of Prediction Algorithms for Nucleosome Positioning
169(10)
Y. Tanaka
K. Nakai
Cancer Classification Using Single Genes
179(10)
X. Wang
O. Gotoh
RECOUNT: Expectation Maximization Based Error Correction Tool for Next Generation Sequencing Data
189(14)
E. Wijaya
M. C. Frith
Y. Suzuki
P. Horton
Part B Keynote Addresses
203(20)
A New Generation of Homology Search Tools Based on Probabilistic Inference
205(7)
S. R. Eddy
Representation and Analysis of Molecular Networks Involving Diseases and Drugs
212(2)
M. Kanehisa
Systems Biotechnology
214(3)
S. Y. Lee
Strategies Toward CNS-Regeneration Using Induced Pluripotent Stem Cells
217(4)
H. Okano
Thinking Laterally About Genomes
221(2)
M. A. Ragan
Author Index 223