| |
| Program ver.1205 | |
|
--------------------- Monday, December 18, 2006 ---------------------
| Opening Address | |
| 09:00 - 09:10 | Yasubumi Sakakibara and Temple F. Smith |
| Paper Session 1 --- Chair: Byoung-Tak Zhang | |
| 09:10 - 09:35 | Hybrid Gibbs-Sampling Algorithm for Challenging Motif Discovery: GibbsDST Kazuhito Shida |
| 09:35 - 10:00 | Computational Annotation of Transcription Factor Binding Sites in D. Melanogaster Developmental Genes Vipin Narang, Wing-Kin Sung and Ankush Mittal |
| 10:00 - 10:25 |
A Gram Distribution Kernel Applied to Glycan Classification and Motif Extraction Tetsuji Kuboyama, Kouichi Hirata, Kiyoko F. Aoki-Kinoshita, Hisashi Kashima and Hiroshi Yasuda |
| 10:25 - 11:00 | Break |
| Keynote Address --- Chair: Yasubumi Sakakibara | |
| 11:00 - 12:00 | RNAs Everywhere: Genome-Wide Annotation of Structured RNAs
Ivo Hofacker |
| 12:00 - 13:30 | Lunch |
| 13:30 - 14:30 | Posters (odd number) and Software Demonstrations Session 1 |
| Paper Session 2 --- Chair: Masanori Arita | |
| 14:30 - 14:55 change 
| Discovering Signal Transduction Networks Using Signaling Domain-Domain Interactions Thanh Phuong Nguyen and Tu Bao Ho |
| 14:55 - 15:20 | Finding Conserved and Non-Conserved Reactions Using a Metabolic Pathway Alignment Algorithm José C. Clemente, Kenji Satou and Gabriel Valiente |
| 15:20 - 15:45 | A Function-Centric Approach to the Biological Interpretation of Microarray Time-Series Pablo Minguez, Fátima Al-Shahrour and Joaquin Dopazo |
| 15:45 - 16:15 | Break |
| Paper Session 3 --- Chair: Katsuhisa Horimoto | |
| 16:15 - 16:40 | RaPiDS: An Algorithm for Rapid Expression Profile Database Search Paul B. Horton, Larisa Kiseleva and Wataru Fujibuchi |
| 16:40 - 17:05 | Development of an Approach for Ab Initio Estimation of Compound-Induced Liver Injury Based on Global Gene Transcriptional Profiles Xudong Dai, Yudong D. He, Hongyue Dai, Pek Y. Lum, Christopher J. Roberts, Jeffrey F. Waring and Roger G. Ulrich |
| 17:05 - 17:30 | The Distribution and Deposition Algorithm for the Multiple Oligo Nucleotide Arrays Kang Ning and Hon Wai Leong |
| 17:30 - 17:55 | Detection and Restoration of Hybridization Problems in Affymetrix GeneChip Data by Parametric Scanning Tomokazu Konishi |
--------------------- Tuesday, December 19, 2006 ---------------------
| Paper Session 4 --- Chair: Kenji Satou | |
| 09:00 - 09:25 | Gene Ontology Annotation by Density and Gravitation Models Wen-Juan Hou, KevinHsin-Yih Lin and Hsin-Hsi Chen |
| 09:25 - 09:50 | Text Mining and Protein Annotations: the Construction and Use of Protein Description Sentences Martin Krallinger, Rainer Malik and Alfonso Valencia |
| 09:50 - 10:15 | Assessing Clustering Results with Reference Taxonomies Gabriel Valiente |
| 10:15 - 10:45 | Break |
| Paper Session 5 --- Chair: Tetsuo Shibuya | |
| 10:45 - 11:10 | Pairwise Alignment with Rearrangements Vinh Le, Andrés Varón and Ward C. Wheeler |
| 11:10 - 11:35 | Techniques for Multi-Genome Synteny Analysis to Overcome Assembly Limitations Arjun Bhutkar, Susan Russo, Temple F. Smith and William M. Gelbart |
| 11:35 - 12:00 | A Markov Chain Model for Haplotype Assembly from SNP Fragments Rui-Sheng Wang, Ling-Yun Wu, Xiang-Sun Zhang and Luonan Chen |
| 12:00 - 13:30 | Lunch |
| Keynote Address --- Chair: Temple F. Smith | |
| 13:30 - 14:30 | The New Phase of Transcriptome Analysis Yoshihide Hayashizaki |
| Paper Session 6 --- Chair: Hiroyuki Toh | |
| 14:30 - 14:55 | MetaClustering: Discovery of the Different Sample Clusterings in Gene Expression Data David Venet, Hugues Bersini and Hitoshi Iba |
| 14:55 - 15:20 | Biomarkers for Epithelial Ovarian Cancers Pritha Mahata |
| 15:20 - 15:45 | PepSOM: An Algorithm for Peptide Identification by Tandem Mass Spectrometry Based on SOM Kang Ning, Hoong Kee Ng and Hon Wai Leong |
| 15:45 - 16:00 | Break |
| 16:00 - 16:30 | JSBi Annual Meeting |
| 16:30 - 18:00 | Posters (even number) and Software Demonstrations Session 2 |
| 18:30 - 20:30 | Banquet (at: Ball room "Pacific", Inter Continental THE GRAND YOKOHAMA) |
--------------------- Wednesday, December 20, 2006 ---------------------
| Paper Session 7 --- Chair: Gabriel Valiente | |
| 9:00 - 9:25 |
DAPID: A 3D-Domain Annotated Protein-Protein Interaction Database Yung-Chiang Chen, Heng-Chu Chen and Jinn-Moon Yang |
| 9:25 - 9:50 | A Method to Detect Important Residues Using Protein Binding Site Comparison Keunwan Park and Dongsup Kim |
| 9:50 - 10:15 change
| Modeling and Estimation of Dynamic EGFR Pathway by Data Assimilation Approach Using Time Series Proteomic Data Shinya Tasaki, Masao Nagasaki, Masaaki Oyama, Hiroko Hata, Kazuko Ueno, Ryo Yoshida, Tomoyuki Higuchi, Sumio Sugano and Satoru Miyano |
| 10:15 - 10:40 | A Large-Scale Computational Approach to Drug Repositioning Yvonne Y. Li, Jianghong An and Steven J.M. Jones |
| 10:40 - 12:00 | Posters (even and odd number) and Software Demonstrations Session 3 |
| 12:00 - 13:30 | Lunch |
| Keynote Address --- Chair: Hiroshi Mamitsuka | |
| 13:30 - 14:30 | Increasing Confidence of Protein-Ptotein Interactomes Limsoon Wong |
| Paper Session 8 --- Chair: Tatsuya Akutsu | |
| 14:30 - 14:55 | A Generalized Threading Model Using Integer Programming that Allows for Secondary Structure Element Deletion Kyle Ellrott, Jun-tao Guo, Victor Olman and Ying Xu |
| 14:55 - 15:20 | Protein Topology Classification Using Two-Stage Support Vector Machines Jayavardhana Gubbi, Alistair Shilton, Michael Parker and Marimuthu Palaniswami |
| 15:20 - 15:45 | Robotic Path Planning and Protein Complex Modeling Considering Low Frequency Intra-Molecular Loop and Domain Motions Carlos A. Del Carpio, Pei Qiang, Eichiro Ichiishi, Hideyuki Tsuboi, Michihisa Koyama, Nozomu Hatakeyama, Akira Endou, Hiromitsu Takaba, Momoji Kubo and Akira Miyamoto |
| Closing and Award Ceremony | |
| 15:45 - 16:00 | Kenta Nakai, JSBi President |
E-mail: giw2006 AT ims.u-tokyo.ac.jp