GIW 2002 Advanced Program
Registration The Garden Hall entrance
December 16, 2002 : 13:00 - 17:20
December 17, 2002 : 09:00 - 18:30
December 18, 2002 : 09:00 - 16:45
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Monday, December
16, 2002 The Garden Hall
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Opening Address
14:00 - 14:10 |
Richard H. Lathrop (UC Irvine) |
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Paper Session 1
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Data Mining from Genomes Chair: Limsoon Wong (LIT) |
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14:10 - 14:35
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A String Pattern Regression Algorithm and Its Application to Pattern Discovery in Long Intron, Hideo Bannai1, Shunsuke Inenaga2, Ayumi Shinohara2,3, Masayuki Takeda2,3, Satoru Miyano1 (1U. Tokyo, 2Kyushu U., 3JST) |
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14:35 - 15:00
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A Novel Bioinformatic Strategy for Unveiling Hidden Genome Signatures of Eukaryotes: Self-Organizing Map of Oligonucleotide Frequency, Takashi Abe1,2,3, Shigehiko Kanaya3,4,5, Makoto Kinouchi3,5,6, Yuta Ichiba1,3, Tokio Kozuki2,3, Toshimichi Ikemura1,3 (1NIG, 2Xanagen, 3ACT-JST, 4NAIST, 5CREST JST, 6Yamagata U.) |
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15:00 - 15:25
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Detection of Periodicity in Eukaryotic Genomes on the Basis of Power Spectrum Analysis, Atsushi Fukushima1, Toshimichi Ikemura2, Taku Oshima1, Hirotada Mori1, Shigehiko Kanaya1 (1NAIST, 2SOKEN) |
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15:25 - 15:50
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Analysis of Common k-mers for Whole Genome Sequences Using SSB-Tree, Jeong-Hyeon Choi, Hwan-Gue Cho (Pusan Nat'l U.) |
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Break
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15:50-16:05 |
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Paper Session 2
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Functional Genomics Chair: Takatoshi Kawai (Eizai Co., Ltd.) |
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16:05 - 16:30
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Large Scale Statistical Prediction of Protein-Protein Interaction by Potentially Interacting Domain (PID) Pair, Wan Kyu Kim (Object Interaction Tech. Inc.), Jong Park (Cambridge U.), Jung Keun Suh (LG Life Sci., Ltd.) |
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16:30 - 16:55
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A Comparative Study on Feature Selection and Classification Methods Using Gene Expression Profiles and Proteomic Patterns, Huiqing Liu , Jinyan Li, Limsoon Wong (LIT) |
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16:55 - 17:20
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Extraction of Organism Groups from Phylogenetic Profiles Using Independent Component Analysis, Yoshihiro Yamanishi, Masumi Itoh, Minoru Kanehisa (Kyoto U.) |
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Tuesday, December
17, 2002 The Garden Hall
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Paper Session 3
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Evolution Chair:Sang Yup Lee (KAIST) |
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09:00 - 09:25
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Origin of Most Primitive mRNAs and Genetic Codes via Interactions between Primitive tRNA Ribozymes, Koji Ohnishi, Shouken Hokari, Hiroshi Shutou, Madoka Ohshima, Naotaka Furuichi, Masaki Goda (Niigata U.) |
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09:25 - 09:50
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Very Fast Algorithms for Evaluating the Stability of ML and Bayesian Phylogenetic Trees from Sequence Data, Peter J. Waddell (U. South Carolina), Hirohisa Kishino (U. Tokyo), Rissa Ota (Massey U.) |
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09:50 - 10:15
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An Algorithmic Analysis of the Role of Unequal Crossover in Alpha Satellite DNA Evolution, Can Alkan, Jeffrey A. Bailey, Evan E. Eichler, S. Cenk Sahinalp, Eray Tuzun (Case West. Reserve U.) |
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10:15 - 10:40
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Genomic Sorting with Length-Weighted Reversals, Ron Y. Pinter (Israel Inst. Tech.), Steven Skiena (State U. NY) |
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Break
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10:40 - 10:55 |
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Keynote Address
10:55 - 11:55 |
Chair: Tetsuo Nishikawa (Hitachi, Ltd.) Comparative Genomics for Understanding Ourselves Yoshiyuki Sakaki (RIKEN) |
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Lunch Break
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11:55 -13:25 |
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Keynote Address
13:25 - 14:25 |
Chair: Kiyoshi Asai (CBRC) Inferring Gene Transcription Networks: The Davidson Model Sorin Istrail (Celera Genomics) |
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Paper Session 4
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Algorithms Chair: Tatsuya Akutsu (Kyoto U.) |
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14:35 - 15:00
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Marginalized Kernels for RNA Sequence Data Analysis, Taishin Kin, Koji Tsuda, Kiyoshi Asai (CBRC) |
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15:00 - 15:25
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Aligning Multiple Protein Sequences by Parallel Hybrid Genetic Algorithm, Hung Dinh Nguyen1, Ikuo Yoshihara1, Kunihito Yamamori1, Moritoshi Yasunaga2 (1Miyazaki U., 2U. Tsukuba) |
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15:25 - 15:50
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Inference of Euler Angles for Single Particle Analysis by Using Genetic Algorithms, Shusuke Saeki1, Kiyoshi Asai2, Katsutoshi Takahashi2, Yutaka Ueno2, Katsunori Isono3, Hitoshi Iba1 (1U. Tokyo, 2CBRC, 3INTEC W&G Informatics Corp.) |
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Break
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15:50- |
| JSBi Annual Meeting 16:00 - 16:30 General Meeting |
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| Poster and Software Demonstrations Session 1 16:30 - 18:30 (JSBi Session, The Garden Hall Foyer) |
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| Social Events Award Ceremony & Banquet 18:30 - 21:00 (The Garden Room) |
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Wednesday,
December 18, 2002 The Garden Hall
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Paper Session 5
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Structural Biology Chair: Alfonso Valencia (CNB-CSIC) |
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09:00 - 09:25
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Point Matching Under Non-Uniform Distortions and Protein Side Chain Packing Based on an Efficient Maximum Clique Algorithm, Dukka Bahadur K. C.1, Tatsuya Akutsu1, Etsuji Tomita2, Tomokazu Seki2, Asao Fujiyama3 (1Kyoto U., 2U. Electro-Comm, 3NII) |
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09:25 - 09:50
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The Role of DNA Deformation Energy at Individual Base Steps for the Identification of DNA-Protein Binding Sites, Nicholas R. Steffen, Scott D. Murphy, Richard H. Lathrop, Michael L. Opel, Lorenzo Tolleri, G. Wesley Hatfield (UC Irvine.) |
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09:50 - 10:15
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Folding Pattern Recognition in Proteins Using Spectral Analysis Methods, Carlos A. Del Carpio Munoz, Julio Cesar Carbajal L. (Toyohashi U. Tech.) |
| Poster and Software Demonstrations Session 2 10:15 - 12:15 (JSBi Session, The Garden Hall Foyer) |
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Lunch Break
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12:15 -14:00 |
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Paper Session 6
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Sequence Analysis Chair: Makiko Suwa (CBRC) |
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14:00 - 14:25
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Comparative Analysis of the Genomes of Cyanobacteria and Plants, Naoki Sato (Saitama U.) |
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14:25 - 14:50
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A Novel Index which Precisely Derives Protein Coding Regions from Cross-Species Genome Alignments, Hideki Noguchi1, Tetsushi Yada1, Yoshiyuki Sakaki1,2 (1RIKEN, 2U. Tokyo) |
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14:50 - 15:15
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Using Feature Generation and Feature Selection for Accurate Prediction of Translation Initiation Sites, Fanfan Zeng1, Roland H.C. Yap1, Limsoon Wong2 (1Nat'l U. Singapore, 2LIT |
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Break
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15:15 -15:30 |
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Paper Session 7
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Systems Biology / Ontology Chair: Takako Takai (U. Tokyo) |
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15:30 - 15:55
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Automatic Ontology Construction from the Literature, Christian Blaschke, Alfonso Valencia (CNB/CSIC) |
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15:55 - 16:20
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In Silico Metabolic Pathway Analysis and Design: Succinic Acid Production by Metabolically Engineered Escherichia coli as an Example, Sang Yup Lee, Soon Ho Hong, Soo Yun Moon (KAIST) |
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16:20 - 16:45
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Physical Modeling of the Cellular Arrangement in C. elegans Early Embryo: Effect of Rounding and Stiffening of the Cells, Atsushi Kajita1,2, Masayuki Yamamura2, Yuji Kohara1 (1NIG, 2Tokyo Inst. Tech.) |
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Closing
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16:45 -16:55 |