Genome Informatics Workshop 1995

December 11-12, 1995
Pacific Convention Plaza, Yokohama, Japan

Published as: Hagiya, M., Suyama, A., Takagi, T., Nakai, K., Miyano, S., and Yokomori, T. (eds.); "Proceedings of Genome Informatics Workshop 1995," Universal Academy Press, Tokyo, 1995.

Preface by Masami Hagiya


Oral Session

[GIW95O01] Tatsuya Akutsu: "Protein Structure Alignment Using a Graph Matching Technique" [ps] [pdf]

[GIW95O02] Hiroshi Imai, Takahiro Ikeda: "K-Group Multiple Alignment Based on A* Search" [ps] [pdf]

[GIW95O03] Hideo Matsuda: "Construction of Phylogenetic Trees from Amino Acid Sequences Using a Genetic Algorithm" [ps] [pdf]

[GIW95O04] Masanori Arita: "SIMFLY2: The Simulation of a Fly Embryo" [ps] [pdf]

[GIW95O05] Takashi Ishikawa, Shigeki Mitaku, Takao Terano, Takatsugu Hirokawa, Makiko Suwa, Seah Boon Ching: "Building a Knowledge-Base for Protein Function Prediction Using Multistrategy Learning" [ps] [pdf]

[GIW95O06] Takako Igarashi, Yoko Nadaoka, Tsuguchika Kamimura: A Data and Knowledge Base for Cell Signaling Networks" [ps] [pdf]

[GIW95O07] Shusaku Tsumoto, Hiroshi Tanaka, Kohei Tsumoto, Izumi Kumagai: "Automated Discovery of Protein Functional Units from Amino-Acid Sequences Using Rough-Sets-Based Comparative Analysis" [ps] [pdf]

[GIW95O08] Yasuo Uemura, Aki Hasegawa, Satoshi Kobayashi, Takashi Yokomori: "Grammatically Modeling and Predicting RNA Secondary Structures" [ps]

[GIW95O09] Yukiko Fujiwara, Minoru Asogawa, Akihiko Konagaya: "Hidden Markov Model to Extract Leucine Zipper Motif" [ps]

Poster Session

[GIW95P01] Shigehiko Kanaya, Yoshihiro Kudo, Yasukazu Nakamura, Toshimichi Ikemura: "Assessment of Species-Specific Diversity of Genes in Codon Usage" [ps] [pdf]

[GIW95P02] Shigehiko Kanaya, Yoshihiro Kudo, Yasukazu Nakamura, Toshimichi Ikemura: "Estimation of Protein-Production Levels in Escherichia coli Genes on the Basis of Multivariate Diversity in Codon Usage" [ps] [pdf]

[GIW95P03] Yoshihiro Kudo, Shigehiko Kanaya: "Consensus Genic Sequences in Bacterial rRNA-tRNA Gene Clusters" [ps] [pdf]

[GIW95P04] Fengrong Ren, Hiroshi Tanaka, Norio Fukuda: "MDL Method: An Inductive Inference Method for Reconstructing Phylogenetic Trees" [ps] [pdf]

[GIW95P05] Takeshi Itoh, Minoru Yano, Keiko Takemoto, Miwako Kajihara, Hirotada Mori: "Clustering of All Known and Predicted Open Reading Frames of Esherichia coli K12" [ps] [pdf]

[GIW95P06] Hiroyuki Ogata, Wataru Fujibuchi, Minoru Kanehisa: "Statistical Features Identified from Comparison of Homologous Introns" [ps] [pdf]

[GIW95P07] Katsuhiko Murakami, Shiho Tsukuni, Toshihisa Takagi, Masahira Hattori: "Evaluation of Exon Prediction Tools Using a Long DNA Sequence Data" [ps] [pdf]

[GIW95P08] Yukiyasu Ogawa, Tomomasa Nagashima, Sirajuddin Khawaja: "Comparison of Statistical Algolithms for Predicting Splice Junctions in mRNA Pre cursors of Mammalian Genes" [ps] [pdf]

[GIW95P09] Makoto Hirosawa, Takakazu Kaneko, Satoshi Tabata: "CyanoBase: Visual Presentation of Information on the Genome of Cyanobacterium Sy nechocystis sp. Strain PCC6803 through WWW" [ps] [pdf]

[GIW95P10] Tetsuo Nishikawa, Keiichi Nagai: "A Large-Scale GenBank Search of Expressed Sequence Tags Using Rapid Identity Searching Program for DNA Sequencs" [ps] [pdf]

[GIW95P11] Wataru Fujibuchi, Minoru Kanehisa: "Prediction of Promoter Expression Specificity by Conserved Sequence Patterns" [ps] [pdf]

[GIW95P12] Gen Shibayama, Kenji Satou, Toshihisa Takagi: "Mining Association Rules from Signals found in Mammalian Promoter Sequences" [ps] [pdf]

[GIW95P13] Naohiro Furukawa, Takayoshi Shoudai, Ayumi Shinohara, Satoru Miyano: "HAKKE: Automatic Predictor Generator for Sequences" [ps] [pdf]

[GIW95P14] Hiroshi Mamitsuka: "Learning Hidden Markov Models Using Back-Propagation through Time" [ps] [pdf]

[GIW95P15] Paul Horton, Kenta Nakai: "A Probabilistic Inference System for the Prediciton of Subcellular Localization Sites of Proteins: Application to E. coli Data" [ps] [pdf]

[GIW95P16] Ikuo Uchiyama, Atsushi Ogiwara, Toshihisa Takagi, Minoru Kanehisa: "Protein Sequence Grouping by Peptide Word Motifs" [ps] [pdf]

[GIW95P17] Lajos Baranyi, William Campbell, Hidechika Okada: Antisense Homology Boxes in Proteins" [ps] [pdf]

[GIW95P18] Kenji Suzuki, Yutaka Akiyama, Minoru Kanehisa: "Multiple Sequence Alignment by Combining Incomplete Blocks of Similar Segments" [ps] [pdf]

[GIW95P19] Masato Wayama, Katsutoshi Takahashi, Toshio Shimizu: "An Approach to Amino Acid Sequence Alignment Using a Genetic Algorithm" [ps] [pdf]

[GIW95P20] Osamu Gotoh: "Accuracy of Multiple Sequence Alignments as Assessed by Reference to Structural Alignments" [ps] [pdf]

[GIW95P21] Tsuyoshi Kato, Makoto Taiji, Toshikazu Ebisuzaki, Akira Suyama: "Design of a Hardware Board for Sequence Alignment" [ps] [pdf]

[GIW95P22] Takatsugu Hirokawa, Makiko Suwa, Shigeki Mitaku: "Theoretical Prediction of Positioning, Orientation and Tilt Angles of Helices of a Small Membrane Protein without Structural Template" [ps] [pdf]

[GIW95P23] Carlos A. Del Carpio, Shin-ichi Sasaki, Lajos Baranyi, Hidechika Okada: "A Parallel Hybrid GA for Peptide 3-D Structure Prediction" [ps] [pdf]

[GIW95P24] Hiroaki Kato, Yoshimasa Takahashi: "Three-Dimensional Motif Search of Proteins Using Abstract Representation of Secondary Structure Segment" [ps] [pdf]

[GIW95P25] Minoru Asogawa: "Beta-sheet Prediction Using Inter-Strand Residue Pair Propensities" [ps] [pdf]

[GIW95P26] Nobuhiro Fukushima, Minoru Kanehisa: "A Study of Molecular Recognition between DNA and Metal Ions" [ps] [pdf]

[GIW95P27] Takaaki Nishioka, Mikita Suyama, Susumu Goto, Yutaka Akiyama, Minoru Kanehisa: "LIGAND Chemical Database for Enzymatic Reactions: A Link between Enzyme Structures and Chemical Reactions" [ps] [pdf]

[GIW95P28] Kotoko Nakata, Masataka Hayakawa, Tatsuya Nakano, Tsuguchika Kamimura: "Receptor Database Representation" [ps] [pdf]

[GIW95P29] Kentaro Tomii, Minoru Kanehisa: "AAindex: A Database of Amino Acid Indices and Mutation Matrices" [ps] [pdf]

Workstation Session

[GIW95W01] Akira Ohyama, Tatsuya Akutsu, Asao Fujiyama: "Software Tool for Mapping Human Genome by Chromosome-Specific Two-Dimensional Electrophoresis Method" [ps]

[GIW95W02] Shinsei Minoshima, Susumu Mitsuyama, Kazuhiko Kawasaki, Nobuyoshi Shimizu: "GeneView(PLUS), Locus-in and Physical Mapper: The GUI-Softwares for Genome Mapping Data Management" [ps] [pdf]

[GIW95W03] Yasuhiko Wada, Kengo Inoue, Hiroshi Ohga, Hiroshi Yasue: "gRanch: Gene Mapping Workbench" [ps] [pdf]

[GIW95W04] Zhongqing Wang, Akira Ohyama, Nobuyuki Miyajima: "An Integrated System for Large-Scale Sequencing: Dr AGCT" [ps] [pdf]

[GIW95W05] Susumu Hiraoka, Keiichi Nagai: "DNA Sequence Comparison Based on Amino Acid Similarity" [ps] [pdf]

[GIW95W06] Seah Boon-Chieng, Shigeki Mitaku: "Prediction of Transmembrane Helical Regions by Three-Stage Model" [ps] [pdf]

[GIW95W07] Naohiro Furukawa, Erika Tateishi, Takayoshi Shoudai, Satoru Miyano: Experiments by BONSAI Garden" [ps] [pdf]

[GIW95W08] Nobuo Tsukamoto, Minoru Kanehisa: "A WWW Tool for Organizing Knowledge of Biomolecular Reaction Pathways" [ps] [pdf]

[GIW95W09] Naoko Tateishi, Haruki Shiotari, Satoru Kuhara, Toshihisa Takagi, Minoru Kanehisa: "An Integrated Database SPAD (Signaling Pathway Database) for Signal Transduction and Genetic Information" [ps] [pdf]

[GIW95W10] Atsushi Ogiwara, Toshihisa Takagi, Naotake Ogasawara: "A WWW Database of Bacillus Subtilis ORFs determined by the International Project of Sequencing B. Subtilis Genome" [ps] [pdf]

[GIW95W11] Teruo Yasunaga, Tatsuya Takagi, Atsushi Takeuchi, Toshiyuki Niiyama: "Developing Sequence Analysis Tools on Web Server" [ps] [pdf]

[GIW95W12] Yasukazu Nakamura, Toshimichi Ikemura: "FOP (Frequency of Optimal Codon Usage): WWW service with Its Distribution Analysis" [ps] [pdf]

Invited Lectures

[GIW95I01] Richard Karp: "Combinatorial Problems in Physical Mapping" [ps] [pdf]

[GIW95I02] David Lipman: "From Genotype to Phenotype: Navigating Nature's Information Landscape at NCBI" [ps] [pdf]

[GIW95I03] Michael Ashburner: "The Computer and the Fly - FlyBase" [ps] [pdf]

[GIW95I04] Yoshiki Hotta: "Synaptic Specificity between Embryonic Motoneurons and Muscles Are Mediated by "Boolean"" [ps] [pdf]

[GIW95I05] Yuzuru Tanaka: "From Augmentation Media to Meme Media: Towards a New Knowledge Media Architecture" [ps] [pdf]