| |
| Program ver.1108 | |
|
--------------------- Monday, December 13, 2004 ---------------------
| Opening Address | |
| 09:00 - 09:10 | Tatsuya Akutsu and Vladimir Brusic |
| Paper Session 1 --- Chair: Limsoon Wong | |
| 09:10 - 09:35 | Architecture of A Grid-Enabled Research Platform with Location-Transparency
for Bioinformatics Yoshiyuki Kido, Susumu Date, Shingo Takeda, Shoji Hatano, Juncai Ma, Shinji Shimojo, Hideo Matsuda |
| 09:35 - 10:00 | Splicing Profile Based Protein Categorization between Human and Mouse
Genomes by Use of the DDBJ Web Services Åke Västermark, Yasumasa Shigemoto, Takashi Abe, Hideaki Sugawara |
| 10:00 - 10:25 | Computational Methods for the Analysis of Differential Conservation
in Groups of Similar DNA Sequences Nikola Stojanovic |
| 10:25 - 10:50 | Comprehensive Identification of gDruggableh Protein Ligand Binding
Sites Jianghong An, Maxim Totrov, Ruben Abagyan |
| 10:50 - 11:10 | Break |
| Keynote Address --- Chair: Vladimir Brusic | |
| 11:10 - 12:10 | The Immune Epitope Database and Analysis Resource: From Vision to
Blueprint Alessandro Sette |
| 12:10 - 13:30 | Lunch |
| 13:30 - 14:30 | Posters and Software Demonstrations Session 1 |
| Paper Session 2 --- Chair: Yixue Li | |
| 14:30 - 14:55 | General-purpose Search Techniques for Genomic Text Abhijit Chattaraj, Hugh E. Williams, Adam Cannane |
| 14:55 - 15:20 | Graphical Approach to Weak Motif Recognition Xiao Yang, Jagath C. Rajapakse |
| 15:20 - 15:45 | An Extension and Novel Solution to the ( l,d ) -Motif Challenge
Problem Mark P Styczynski, Kyle L Jensen, Isidore Rigoutsos, Gregory N Stephanopoulos |
| 15:45 - 16:10 | Domain Discovery Method for Topological Profile Searches in Protein
Structures Juris Viksna, David Gilbert, Gilleain Torrance |
| 16:10 - 16:30 | Break |
| Paper Session 3 --- Chair: Christian Schönbach | |
| 16:30 - 16:55 | A Novel Graph-Based Similarity Measure for 2D Chemical Structures Si Quang Le, Tu Bao Ho, T.T Hang Phan |
| 16:55 - 17:20 | IRIS: Intermolecular RNA Interaction Search Dmitri D. Pervouchine |
| 17:20 - 17:45 | StructMiner: A Tool for Alignment and Detection of Conserved
Secondary Structure Qian Yang, Mathieu Blanchette |
| 17:45 - 18:10 | RNA 3D Structure Prediction: (1) Assessing RNA 3D Structure
Similarity from 2D Structure Similarity Jaime E. Barreda DC, Yoshimitsu Shigenobu, Eiichiro Ichiishi, Carlos A. Del Carpio M. |
--------------------- Tuesday, December 14, 2004 ---------------------
| Paper Session 4 --- Chair: Tetsuo Shibuya | |
| 09:00 - 09:25 | Inference of Gene Regulatory Networks by Means of Dynamic
Differential Bayesian Networks and Nonparametric Regression Naoya Sugimoto, Hitoshi Iba |
| 09:25 - 09:50 | Recovering Genetic Regulatory Networks from Micro-Array
Data and Location Analysis Data Fan Li, Yiming Yang |
| 09:50 - 10:15 | Increasing Feasibility of Optimal Gene Network Estimation Annika Hansen, Sascha Ott, Georgy Koentges |
| 10:15 - 10:35 | Break |
| Paper Session 5 --- Chair: Sang Yup Lee | |
| 10:35 - 11:00 | A Method for Clustering Gene Expression Data Based on
Graph Structure Shigeto Seno, Reiji Teramoto, Yoichi Takenaka, Hideo Matsuda |
| 11:00 - 11:25 | Statistical and Integrative Approach for Constructing
Biological Network Maps Hiroyuki Kurata, Natsumi Shimizu, Kanako Misumi |
| 11:25 - 11:50 | PreSPI: Design and Implementation of Protein-Protein
Interaction Prediction Service System Dong-Soo Han, Hong-Soog Kim, Woo-Hyuk Jang, Sung-Doke Lee, Jung Keun Suh |
| 11:50 - 13:30 | Lunch |
| Keynote Address --- Chair: Satoru Miyano | |
| 13:30 - 14:30 | Revealing the Structure and Dynamics of Cis-Regulation
Using Heterogeneous, Genome-Wide, Multi-Species Data Ron Shamir |
| Paper Session 6 --- Hiroshi Mamitsuka | |
| 14:30 - 14:55 | Predicting Protein Secondary Structure by a Support Vector
Machine Based on a New Coding Scheme Long-Hui Wang, Juan Liu, Yan-Fu Li, Huai-Bei Zhou |
| 14:55 - 15:20 | Support Vector Machines with Profile-Based Kernels for
Remote Protein Homology Detection Steven Busuttil, John Abela, Gordon J. Pace |
| 15:20 - 15:45 | Kernel Mixture Survival Models for Identifying Cancer
Subtypes, Predicting Patient's Cancer Types and Survival Probabilities Tomohiro Ando, Seiya Imoto, Satoru Miyano |
| 16:00 - 16:30 | JSBi Annual Meeting |
| 16:30 - 18:00 | Posters and Software Demonstrations Session 2 |
| 18:30 - 21:00 | Banquet |
--------------------- Wednesday, December 15, 2004 ---------------------
| Paper Session 7 --- Kenji Satou | |
| 09:00 - 09:25 | Computational Prediction of Operons in Synechococcus
sp. WH8102 Xin Chen, Zhengchang Su, Ying Xu, Tao Jiang |
| 09:25 - 09:50 | Intercellular Communications Induced by Random Fluctuations Tianshou Zhou, Luonan Chen, Ruiqi Wang, Kazuyuki Aihara |
| 09:50 - 10:15 | Knowledge Representation Model for Systems-Level Analysis
of Signal Transduction Networks Dong-Yup Lee, Ralf Zimmer, Sang-Yup Lee, Daniel Hanisch, Sunwon Park |
| 10:15 - 10:40 | Consistent Re-Modeling of Signaling Pathways and Its
Implementation in the TRANSPATH Database Claudia Choi, Torsten Crass, Alexander Kel, Olga Kel-Margoulis, Mathias Krull, Susanne Pistor, Anatolij Potapov, Nico Voss, Edgar Wingender |
| 10:40 - 11:05 | Ontological Integration of Data Models for Cell Signaling
Pathways by Defining a Factor of Causality Called 'Signal' Takako Takai-Igarashi, Riichiro Mizoguchi |
| 11:05 - 12:15 | Posters and Software Demonstrations Session 3 |
| 12:15 - 13:30 | Lunch |
| Keynote Address --- Chair: Tatsuya Akutsu | |
| 13:30 - 14:30 | Complex Systems Biology: Exploring Universal Statistical
and Dynamical Features in Cellular Processes Kunihiko Kaneko |
| 14:30 - 14:50 | Break |
| Paper Session 8 --- Chair: Kenta Nakai | |
| 14:50 - 15:15 | Using Protein Motif Combinations to Update KEGG Pathway
Maps and Orthologue Tables Frédéric Nikitin, Bastien Rance, Masumi Itoh, Minoru Kanehisa, Frédérique Lisacek |
| 15:15 - 15:40 | Systematic DNA-Binding Domain Classification of Transcription
Factors Philip Stegmaier, Alexander E. Kel, Edgar Wingender |
| 15:40 - 16:05 | Mining Yeast Transcriptional Regulatory Modules from
Factor DNA-Binding Sites and Gene Expression Data Tho Hoan Pham, Kenji Satou, Tu Bao Ho |
| Closing and Award Ceremony | |
| 16:05 - 16:20 | @ |
E-mail: giw2004@ims.u-tokyo.ac.jp