Genome Informatics 2005

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Genome Informatics 2005

Presented at the 16th International Conference on Genome Informatics
December 19-21, 2005, Yokohama Pacifico, Japan

Poster and Software Demonstrations

 


 

  • Software Demonstration Abstracts
  • Poster Abstracts
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    Software Demonstration Abstracts

    Using the Approach of Comparative Proteomics and Systems Biology to Decipher the Human Protein Network
    Chung-Yen Lin, Fan-Kai Lin, Chi-Shyang Cho, Chieh-Hwa Lin, Li-Wei Lai, Chao A. Hsiung
    GIW 2005 Poster Abstract: S01 [PDF file]

    b-Src: A Source-Code Search Engine for Bioinformatics Open-Source Packages
    Mitsuteru Nakao, Paul Horton
    GIW 2005 Poster Abstract: S02 [PDF file]

    INOH: Pathways and Ontologies
    Noriko Sakai, Tatsuya Kushida, Satoko Yamamoto, Emi Hattori, Hiromi Nakamura, Yuki Yamagata, Yukiko Nakanishi, Toshihisa Takagi, Ken Ichiro Fukuda
    GIW 2005 Poster Abstract: S03 [PDF file]

    Fast Retrieval of Useful Information from Literature Database
    Hiroko Matsui, Shigeki Tanishima, Norihiro Akasaka, Takafumi Hayashi, Keiko Oketa, Keizoh Uehara
    GIW 2005 Poster Abstract: S04 [PDF file]

    VECT: The Visual Extraction and Conversion Tool
    Hui-Hsien Chou
    GIW 2005 Poster Abstract: S05 [PDF file]

    Toxicogenomics: Novel Computational Strategies for Prediction of Long Term Carcinogenicity
    Jochen Koenig, Claire Pallez, Hans Gmuender, Reinhard Doelz, Deepak Thakkar, Frank Staubli
    GIW 2005 Poster Abstract: S06 [PDF file]

    AlignScope : A System for Visualization and Analysis of Whole Genome Alignments
    Hee-Jeong Jin, Hye-Jung Kim, Hwan-Gue Cho
    GIW 2005 Poster Abstract: S07 [PDF file]

    KeyMolnet: An Integrated Platform for Analysis of Molecular Networks
    Atsushi Nogi, Hiromi Sato, Miki Fukuda, Makoto Shigetaka, Yohei Ozeki, Misa Ogura, Kyoko Nakanishi, Rie Taniguchi, Hisako Kuriki, Nakako Iwasaki, Yoko Inoue, Yoko Wakamatsu, Shizuka Homma, Mikiko Izumi, Yoshinobu Mizoguchi, Yuichi Kikushima, Takeshi Namba, Keiichi Ayabe, Nobuo Tomioka, Akiko Itai
    GIW 2005 Poster Abstract: S08 [PDF file]

    BioRuby+ChemRuby: An Exploratory Software Project
    Toshiaki Katayama, Mitsuteru C. Nakao, Naohisa Goto, Nobuya Tanaka
    GIW 2005 Poster Abstract: S09 [PDF file]

    Cell Illustrator 2.0: A Platform for Biopathway Modeling and Simulation
    Masao Nagasaki, Atsushi Doi, Satoru Miyano
    GIW 2005 Poster Abstract: S10 [PDF file]

    Tools for Supporting Computational Experiments on Genomic Object Net
    Toshinori Tanaka, Katsuyuki Harada, Hironori Kitakaze, Junkichi Yamanaka, Hiroshi Matsuno, Satoru Miyano
    GIW 2005 Poster Abstract: S11 [PDF file]

    Poster Abstracts

    Systematic Analysis of Structure-Stability Relationship for Proteins and Mutants
    Noboru Furukawa, Yuko Takeno, Goran Neshich, Akinori Sarai
    GIW 2005 Poster Abstract: P001 [PDF file]

    Hierarchy of Metabolic Compounds Based on Their Synthesizing Capacity
    Thomas Handorf, Oliver Ebenhöh, Daniel Kahn, Reinhart Heinrich
    GIW 2005 Poster Abstract: P002 [PDF file]

    IBTS: An Extensible System for Integration of Bioinformatics Tools Allowing Cluster Computing
    Youngmahn Hahn, Yongseong Cho, Sang Joo Lee
    GIW 2005 Poster Abstract: P003 [PDF file]

    Virtual Drug Screening of Endothelin Receptor Ligands Using Active Learning
    Yukiko Fujiwara, Yoshiko Yamashita, Minoru Asogawa, Chiaki Fukushima, Masaaki Asao, Hideshi Shimadzu, Kazuya Nakao, Ryo Shimizu
    GIW 2005 Poster Abstract: P004 [PDF file]

    KAAS: KEGG Automatic Annotation Server
    Yuki Moriya, Masumi Itoh, Sujiro Okuda, Minoru Kanehisa
    GIW 2005 Poster Abstract: P005 [PDF file]

    Mining Implicit Biological Realted Entities from Literature Using a Probabilistic Model
    Shanfeng Zhu, Yasushi Okuno, Gozoh Tsujimoto, Hiroshi Mamitsuka
    GIW 2005 Poster Abstract: P006 [PDF file]

    Constraints Based Dynamic Protein Interaction Network
    Dong-Soo Han, Suk-Hoon Jung, Woo-Hyuk Jang, Choon-Ho Lee
    GIW 2005 Poster Abstract: P007 [PDF file]

    New Features of MutationView : Implementation of Various Protein-Oriented Tools to Find out the Relation between Protein Function and Diseases
    Masafumi Ohtsubo, Takashi Kawamura, Susumu Mitsuyama, Nobuyoshi Shimizu, Shinsei Minoshima
    GIW 2005 Poster Abstract: P008 [PDF file]

    KEGG-Based Pathway Visualization Tool for Complex Omics Data
    Nobuaki Kono, Kazuharu Arakawa, Yohei Yamada, Hirotada Mori, Masaru Tomita
    GIW 2005 Poster Abstract: P009 [PDF file]

    Visualization of Gene Database on WEB Using Self Organizing Maps
    Yasuhiko Miyazaki, Hiroshi Dozono, Hisao Tokushima, Yoshio Noguchi
    GIW 2005 Poster Abstract: P010 [PDF file]

    Evolutionary Identifications of Functional Modules in Yeast Protein Interaction Network
    Soichi Ogishima, Yasuhiro Suzuki, Takashi Hase, So Nakagawa, Hiroshi Tanaka
    GIW 2005 Poster Abstract: P011 [PDF file]

    An Integrated Database and Knowledge-Base of Interaction between Human Proteins and Commonly Used Drugs
    Hiroyasu Shimada, Masashi Nemoto, Ken Horiuchi, Atsuko Yamaguchi, Motoi Tobita, Kenji Araki, Tetsuo Nishikawa
    GIW 2005 Poster Abstract: P012 [PDF file]

    Structural Annotation Viewer and Database for Splice-Variant Human cDNA Sequences
    Tetsuo Nishikawa, Kouichi Kimura, Jun-ichi Yamamoto, Ai Wakamatsu, Hiroshi Makita, Keiichi Nagai, Sumio Sugano, Nobuo Nomura, Takao Isogai
    GIW 2005 Poster Abstract: P013 [PDF file]

    PRIME: Platform for RIKEN Metabolomics
    Atsushi Fukushima, Miyako Kusano, Kenji Akiyama, Takeshi Obayashi, Takayuki Tohge, Masami Yokota Hirai, Shigehiko Kanaya, Masanori Arita, Yoko Shinbo, Kazuo Shinozaki, Tetsuya Sakurai, Kazuki Saito
    GIW 2005 Poster Abstract: P014 [PDF file]

    Construction of Reference Cis-Regulatory Module Database as a Tool for the Pattern Analysis of Cis-Regulatory Regions on Human Genome Sequence
    Eri Kibukawa, Yoshiaki Tanaka, Satoru Miyazaki
    GIW 2005 Poster Abstract: P015 [PDF file]

    BioTextLinker: Dynamic Informative Link Annotation for Biological Text over Heterogeneous Databases
    Hodong Lee, Jong C. Park
    GIW 2005 Poster Abstract: P016 [PDF file]

    MiDB: Mitochondrial Proteomics Database in Human Heart
    Hyun Joo, Taeho Kim, Jae Boum Youm, Nari Kim, Jin Han
    GIW 2005 Poster Abstract: P017 [PDF file]

    FAMSBASE of Human, Rat and Mouse Genomes with Model Quality Estimation
    Mitsuo Iwadate, Kazuhiko Kanou, Genki Terashi, Mayuko Takeda-Shitaka, Hideaki Umeyama
    GIW 2005 Poster Abstract: P018 [PDF file]

    Framework Approach for a Search Platform on Biological Data
    Seok Jong Yu, Dan Bi Kim, Inae Hur, Sang Joo Lee
    GIW 2005 Poster Abstract: P019 [PDF file]

    PSE: A Tool for Browsing a Large Amount of PubMed Abstracts with Gene Names and Common Words as the Keywords
    Takashi Yoneya
    GIW 2005 Poster Abstract: P020 [PDF file]

    RPAIR: A Database of Chemical Transformation Patterns in Enzymatic Reactions
    Takuji Yamada, Masahiro Hattori, Min A. Oh, Susumu Goto, Minoru Kanehisa
    GIW 2005 Poster Abstract: P021 [PDF file]

    A Resource Discovery Service for Bioinformatics Applications in a Grid-Based Environment
    Xiujun Gong, Jitender Jit Singh Cheema, Kensuke Nakamura, Kei Yura, Nobuhiro Go
    GIW 2005 Poster Abstract: P022 [PDF file]

    Gene Annotation Using Proteomic Data
    Yoko Ishino, Hisaaki Taniguchi
    GIW 2005 Poster Abstract: P023 [PDF file]

    A Database for Comparative Analysis of Tunicate Promoter Sequences
    Nicolas Sierro, Takehiro Kusakabe, Keun-Joon Park, Riu Yamashita, Kengo Kinoshita, Kenta Nakai
    GIW 2005 Poster Abstract: P024 [PDF file]

    An Existence of Cooperative (Clustered) Genes in Coliphageφk
    Eisei Takushi, Miyako Kawachi
    GIW 2005 Poster Abstract: P025 [PDF file]

    Evaluation Measures of `Marker Selection' and `Genotype Membership' in Large-Scale SNP Genotyping
    Eli Kaminuma, Hiroshi Masuya, Hiromi Motegi, K. Ryo Takahasi, Miki Nakazawa, Minami Matsui, Yoichi Gondo, Tetsuo Noda, Toshihiko Shiroishi, Shigeharu Wakana, Tetsuro Toyoda
    GIW 2005 Poster Abstract: P026 [PDF file]

    Finding Small and Resistance-Predictable Feature Sets for Bacterium Classification by Multi-Objective Optimization
    Hiroshi Yamakawa, Yoshio Nakao, Takahisa Suzuki, Yumiko Sanbongi, Takashi Ida
    GIW 2005 Poster Abstract: P027 [PDF file]

    Sensitizing GO Tools Using Multiple Ratio-Cutoffs for Gene Selection
    Kenichi Hirotani, Yoichi Yamada, Miyuki Onda, Ken-ichiro Muramoto, Kenji Satou, Takashi Ito
    GIW 2005 Poster Abstract: P028 [PDF file]

    Cell-Distance Networks: A Clue for Understanding of Cell Diversity
    Larisa Kiseleva, Paul Horton, Wataru Fujibuchi
    GIW 2005 Poster Abstract: P029 [PDF file]

    How Much We Know about Soluble Domains Existing in Loop Regions of Transmembrane Proteins?
    Syuuichi Yoshida, Masafumi Arai, Takuhiro Nishio, Toshio Shimizu
    GIW 2005 Poster Abstract: P030 [PDF file]

    Discovering Novel MicroRNAs from Small RNA Component of the Mouse Embryo Transcriptome
    Tatsuya Ando, Sachiko Okamoto, Masahiro Sato, Hiroyuki Izu, Masanori Takayama, Masanari Kitagawa, Junichi Mineno, Kiyozo Asada, Ikunoshin Kato
    GIW 2005 Poster Abstract: P031 [PDF file]

    Inferring Protein Interaction Network by Boosting Algorithm
    Yong Wang, Feng Bao, Jiadong Zhang, Luonan Chen
    GIW 2005 Poster Abstract: P032 [PDF file]

    Construction of Human Gene Catalogue by mRNA Using 1.4 Million of Full-Length cDNAs by Oligo-Capping Method
    Ai Wakamatsu, Jun-ichi Yamamoto, Kouichi Kimura, Keisuke Tsuchiya, Tetsuo Nishikawa, Sumio Sugano, Takao Isogai
    GIW 2005 Poster Abstract: P033 [PDF file]

    Genome Mapping Analysis of Splice Variant One-Pass Sequences of Human Full-Length cDNAs
    Kouichi Kimura, Tetsuo Nishikawa, Ai Wakamatsu, Jun'ichi Yamamoto, Keiichi Nagai, Nobuo Nomura, Sumio Sugano, Takao Isogai
    GIW 2005 Poster Abstract: P034 [PDF file]

    State Space Model with Markov Switching for Estimating Time-Dependent Gene Regulatory Networks from Time Series Microarray Experiments
    Ryo Yoshida, Seiya Imoto, Tomoyuki Higuchi, Satoru Miyano
    GIW 2005 Poster Abstract: P035 [PDF file]

    Knowledge Discovery Using Cross Database Search
    Asako Koike, Toshihisa Takagi
    GIW 2005 Poster Abstract: P036 [PDF file]

    Ontology Based Petri Net Modeling of Signaling Networks
    Takako Takai-Igarashi
    GIW 2005 Poster Abstract: P037 [PDF file]

    Discovering Reliable Protein Interactions Using Bayesian Networks
    Thanh Phuong Nguyen, Tu Bao Ho, Ngoc Binh Nguyen
    GIW 2005 Poster Abstract: P038 [PDF file]

    Cluster Analysis of Neutrophilic Differentiation by Using Fuzzy K-Means
    Akitsugu Suga, Kazumi Hakamada, Chinatsu Arima, Masahiro Okamoto, Hitoshi Ichikawa, Taizo Hanai
    GIW 2005 Poster Abstract: P039 [PDF file]

    Validity Index for Fuzzy K-Means Clustering Using the Gap Statistic Method
    Chinatsu Arima, Kazumi Hakamada, Masahiro Okamoto, Taizo Hanai
    GIW 2005 Poster Abstract: P040 [PDF file]

    Validation of Mathematical Model Based Clustering by Using Time-Course Data
    Kazumi Hakamada, Masahiro Okamoto, Taizo Hanai
    GIW 2005 Poster Abstract: P041 [PDF file]

    Improvement in the Accuracy of Gene Prediction in Rice cDNA Sequences
    Fusano Todokoro, Takeshi Itoh, Chisato Yamasaki, Hiroaki Kawashima, Tadashi Imanishi, Takashi Gojobori
    GIW 2005 Poster Abstract: P042 [PDF file]

    Co-Expression Analysis Tool for Large Gene Expression Datasets
    Hajime Harada, Natalia Polouliakh, Wataru Fujibuchi, Paul Horton
    GIW 2005 Poster Abstract: P043 [PDF file]

    New Reliable Cancer Diagnosis Method Using Boosting and Projective Adaptive Resonance Theory
    Hiro Takahashi, Yasuyuki Murase, Hiroyuki Honda
    GIW 2005 Poster Abstract: P044 [PDF file]

    Classification Method for Prediction of Multifactorial Disease Development by Using Genetic and Environmental Factors
    Yasuyuki Tomita, Mitsuhiro Yokota, Hiroyuki Honda
    GIW 2005 Poster Abstract: P045 [PDF file]

    Ranking Metabolic Paths with Expression Similarities
    Ichigaku Takigawa, Hiroshi Mamitsuka
    GIW 2005 Poster Abstract: P046 [PDF file]

    Classifying Microarray Data Using Pairwise Similarity between Gene Profiles
    Raymond Wan, Åsa M. Wheelock, Matthew J. Bartosiewicz, Hiroshi Mamitsuka
    GIW 2005 Poster Abstract: P047 [PDF file]

    A Selection Criterion for Robust Classifiers: Cancer Prognosis with Microarray Gene Expression
    Ikumi Suzuki, Shigeyuki Oba, Shin Ishii
    GIW 2005 Poster Abstract: P048 [PDF file]

    Memory-Efficient Clustering Algorithms for Microarray Gene Expression Data
    Kazuyuki Numata, Hideo Bannai, Yoshinori Tamada, Michiel de Hoon, Seiya Imoto, Satoru Miyano
    GIW 2005 Poster Abstract: P049 [PDF file]

    Clustering Gene Expression Data with Stepwise Data Envelopment Analysis
    Masako Hoshino, Hiroshige Inazumi
    GIW 2005 Poster Abstract: P050 [PDF file]

    Effective Nearest Neighbor Methods for Multiclass Cancer Classification Using Microarray Data
    Satoshi Niijima, Satoru Kuhara
    GIW 2005 Poster Abstract: P051 [PDF file]

    Algorithm for Predicting Co-Expression Genes by Improvement of Path Consistency Algorithm
    Shigeru Saito, Sachiyo Aburatani, Katsuhisa Horimoto
    GIW 2005 Poster Abstract: P052 [PDF file]

    A New Method for Analyzing Large-Scale Microarray Data Using Biological Knowledge
    Shingo Tsuji, Kouji Nakayama, Masaru Sekijima, Shigeo Ihara, Hiroyuki Aburatani
    GIW 2005 Poster Abstract: P053 [PDF file]

    Non-Negative Matrix Factorization of Lung Adenocarcinoma Expression Profiles
    Takeshi Fujiwara, Shumpei Ishikawa, Yujin Hoshida, Kentaro Inamura, Takayuki Isagawa, Miyuki Shimane, Hiroyuki Aburatani, Yuichi Ishikawa, Hitoshi Nomura
    GIW 2005 Poster Abstract: P054 [PDF file]

    Classification of Cancer Data with Genetic Programming
    Topon Kumar Paul, Hitoshi Iba
    GIW 2005 Poster Abstract: P055 [PDF file]

    The Application of Cell Surface Marker DNA Microarray in the Search for Molecular Targets
    Tuoya, Koichi Hirayama, Yuh Sugii, Tadahiro Nagaoka, Takayuki Fukuda, Hiroko Tada, Hidenori Yamada, Yasaburo Matsuura, Heizo Tokutaka, Masaharu Seno
    GIW 2005 Poster Abstract: P056 [PDF file]

    Detection of Cluster Boundary in Microarray Data by Reference to MIPS Functional Catalogue Database
    Yoshifumi Okada, Takehiko Sahara, Satoru Ohgiya, Tomomasa Nagashima
    GIW 2005 Poster Abstract: P057 [PDF file]

    Multiplicative Decomposition of Time- and Dose-Dependent Gene Expression Changes
    Yukitaka Tani, Takeshi Kamimura, Takeshi Nagashima, Kaori Ide, Mariko Hatakeyama, Hidetoshi Shimodaira
    GIW 2005 Poster Abstract: P058 [PDF file]

    Species-Specific Variation of Alternative Splicing and Transcriptional Initiation in Six Eukaryotes
    Hideki Nagasaki, Masanori Arita, Tatsuya Nishizawa, Makiko Suwa, Osamu Gotoh
    GIW 2005 Poster Abstract: P059 [PDF file]

    The Requirements and Problems to Use Draft Sequencing Results in Comparative Genomics of Bacteria
    Hidetoshi Yamashita, Yuki Maruyama, Ryuta Komatsu, Toru Suzuki, Seiki Kuramitsu, Kiyozo Asada, Ikunoshin Kato, Masanari Kitagawa
    GIW 2005 Poster Abstract: P060 [PDF file]

    Comparative Sequence Analysis of Human and Promoter Regions
    Hirokazu Chiba, Riu Yamashita, Kengo Kinoshita, Kenta Nakai
    GIW 2005 Poster Abstract: P061 [PDF file]

    Comprehensive Analysis of Triplet Repeats in Vertebrate Genomes
    Shigeo Okada, Riu Yamashita, Kengo Kinoshita, Kenta Nakai
    GIW 2005 Poster Abstract: P062 [PDF file]

    A Maximum Likelihood Method for Inference of Spliceosomal Intron Evolution
    Hung Dinh Nguyen, Maki Yoshihama, Naoya Kenmochi
    GIW 2005 Poster Abstract: P063 [PDF file]

    Comparative Genomic Analysis of Transcription Regulation Elements in Higher Eukaryotes
    Natalia Polouliakh, Wataru Fujibuchi, Hajime Harada, Tohru Natsume, Paul Horton
    GIW 2005 Poster Abstract: P064 [PDF file]

    Comparative Analysis of Autocorrelations of Electric Charges in Amino Acid Sequences of S. cerevisiae and E. coli
    Runcong Ke, Shigeki Mitaku
    GIW 2005 Poster Abstract: P065 [PDF file]

    Seeking Genomic Duplication in Prokaryotic Genomes by Equivalent Tandem Repeats Distributions
    Satoshi Mizuta, Michimasa Koshino, Toshio Shimizu
    GIW 2005 Poster Abstract: P066 [PDF file]

    Statistical Characterization of Transcription Start Sites in Plant Genomes
    Shigeo Fujimori, Takanori Washio, Masaru Tomita
    GIW 2005 Poster Abstract: P067 [PDF file]

    A Scale-Free Prior over Graph Structures for Bayesian Inference of Gene Networks
    Takeshi Kamimura, Hidetoshi Shimodaira
    GIW 2005 Poster Abstract: P068 [PDF file]

    Physicochemical and Structural Characterization of Nonapeptides Targeted in Autoimmune Diseases
    Wataru Honda, Shuichi Kawashima, Minoru Kanehisa
    GIW 2005 Poster Abstract: P069 [PDF file]

    Genome-Wide Protein-Protein Interaction Network Prediction for Oryza sativa
    Chen-Yu Chen, Chen-hsiung Chan, Sheng-An Lee, Cheng-Yan Kao
    GIW 2005 Poster Abstract: P070 [PDF file]

    Dependence of the Accuracy of Protein Secondary Structure Prediction on Long-Range Interactions
    Daisuke Kihara
    GIW 2005 Poster Abstract: P071 [PDF file]

    Fast Protein-Protein Docking Algorithm Using Pre-Identified Binding Site Patches
    Daisuke Kihara, Sael Lee, Karthik Ramani, Srinivasan Turuvekere, Manish Agrawal, Bin Li
    GIW 2005 Poster Abstract: P072 [PDF file]

    Ligand Binding Sites Prediction with the Visibility Criteria
    Bin Li, Srinivasan Turuvekere, Manish Agrawal, Karthik Ramani, Daisuke Kihara
    GIW 2005 Poster Abstract: P073 [PDF file]

    A Weighting Profile Method for Protein-RNA Interaction Prediction
    Euna Jeong, Satoru Miyano
    GIW 2005 Poster Abstract: P074 [PDF file]

    Protein-Protein Docking by the Benzene Clusters Fitting, Grid Scoring and the Pairwise Interaction Potential in CAPRI Rounds 3-5
    Genki Terashi, Mayuko Takeda-Shitaka, Daisuke Takaya, Katsuichiro Komatsu, Hideaki Umeyama
    GIW 2005 Poster Abstract: P075 [PDF file]

    A Software for a New Methodology of Kinetics Analyses of Protein-Ligand Interaction
    Masaki Yamamura, Takuma Shiraki, Takashi S.Kodama, Tatsuo Nakagawa, Natsuhiro Ichinose, Osamu Gotoh
    GIW 2005 Poster Abstract: P076 [PDF file]

    Identifying Cooperative Transcriptional Regulations Using Protein-Protein Interactions
    Nobuyoshi Nagamine, Yuji Kawada, Yasubumi Sakakibara
    GIW 2005 Poster Abstract: P077 [PDF file]

    WoLF PSORT: Protein Localization Prediction Software
    Paul Horton, Keun-Joon Park, Takeshi Obayashi, Kenta Nakai
    GIW 2005 Poster Abstract: P078 [PDF file]

    Online Discrimination of β-Barrel Membrane Proteins from Amino Acid Sequence
    M. Michael Gromiha, Makiko Suwa
    GIW 2005 Poster Abstract: P079 [PDF file]

    Comparison of Prediction Methods for Protein-Protein Interactions Using Co-Evolutionary Information
    Tetsuya Sato, Yoshihiro Yamanishi, Hisako Ichihara, Minoru Kanehisa, Hiroyuki Toh
    GIW 2005 Poster Abstract: P080 [PDF file]

    Characterization of Secondary Structure Elements in Riboswitches
    Ai Muto, Masahiro Hattori, Minoru Kanehisa
    GIW 2005 Poster Abstract: P081 [PDF file]

    Identification of Clinical Data Effect on Aplastic Anemia Treatment Using Multilayer Fuzzy Neural Network
    Hironori Mutoh, Seiji Kojima, Hiroyuki Honda
    GIW 2005 Poster Abstract: P082 [PDF file]

    Reliability Index for 2-class Classification in Diagnosis of Disease: RIbin
    Masahiro Nakatochi, Hiro Takahashi, Hiroyuki Honda
    GIW 2005 Poster Abstract: P083 [PDF file]

    Automatic Assignment of Full EC Numbers Based on Structural Changes of Chemical Compounds
    Nobuya Tanaka, Tadashi Kadowaki, Susumu Goto, Minoru Kanehisa
    GIW 2005 Poster Abstract: P084 [PDF file]

    Chemical Genomic Sutdy of Endocrine Disrupting Chemicals in Metabolic Pathways
    Tadashi Kadowaki, Tetsuya Adachi, Shinobu Okamoto, Nobuya Tanaka, Koichiro Tonomura, Gozoh Tsujimoto, Minoru Kanehisa
    GIW 2005 Poster Abstract: P085 [PDF file]

    Development of a Method for Predicting Biological Functions of Compounds Using Support Vector Machine
    Tomohiro Sato, Yo Matsuo, Shigeyuki Yokoyama
    GIW 2005 Poster Abstract: P086 [PDF file]

    Modeling Tertiary Structure of Complementarity Determining Region of Antibodies
    Toru Hosokawa, Kenta Nakai, Kengo Kinoshita
    GIW 2005 Poster Abstract: P087 [PDF file]

    A New Perspective on an Old Tool: Extending the Coverage of Sequence Similarity-Based Function Prediction with PFP
    Troy Bartholomew Hawkins, Stanislav Luban, Daisuke Kihara
    GIW 2005 Poster Abstract: P088 [PDF file]

    AR(n) Models Applied in Estimation of Genetic Covariance Functions for QTL Mapping
    Yini Cui, Runqing Yang, Shaoqing Huang
    GIW 2005 Poster Abstract: P089 [PDF file]

    Direct Physical Mapping Method Based on Scanning Probe Microscope
    Yoshitaka Suetsugu, Kazumi Tsukamoto, Seigo Kuwazaki, Takeshi Yamauchi, Tomoyuki Yoshino, Motoharu Shichiri, Hirokazu Takahashi, Junko Narukawa, Shigeru Sugiyama, Kazuei Mita, Toshio Ohtani, Kimiko Yamamoto
    GIW 2005 Poster Abstract: P090 [PDF file]

    Comprehensive Promoter Analyses Using a Database of Transcription Start Sites
    Riu Yamashita, Katsuki Tsuritani, Yutaka Suzuki, Hiroyuki Wakaguri, Sumio Sugano, Kenta Nakai
    GIW 2005 Poster Abstract: P091 [PDF file]

    A Genome-Wide Analysis of p53 Binding Sites Using Tiling Arrays
    Shuichi Tsutsumi, Kiyofumi Kaneshiro, Shingo Tsuji, Hiroyuki Aburatani
    GIW 2005 Poster Abstract: P092 [PDF file]

    Discriminative Detection of Transcription Factor Binding Sites from Location Data
    Yuji Kawada, Yasubumi Sakakibara
    GIW 2005 Poster Abstract: P093 [PDF file]

    PPMuSA: PROSITE-Pattern Matcher Using Suffix Array
    Aki Hasegawa, Akihiko Konagaya
    GIW 2005 Poster Abstract: P094 [PDF file]

    Sequence-Based Analyses of Biosynthesis Rate Limiting Factors in Wheat Germ Cell-Free System
    Naoya Fujita, Motoaki Seki, Kazuo Shinozaki, Kengo Kinoshita, Tatsuya Sawasaki, Yaeta Endo, Kenta Nakai
    GIW 2005 Poster Abstract: P095 [PDF file]

    Machine Learning Prediction of Amino Acid Sequence Characterization in Protein N-Myristoylation
    Ryo Okada, Chigusa Miyakawa, Manabu Sugii, Hiroshi Matsuno, Satoru Miyano
    GIW 2005 Poster Abstract: P096 [PDF file]

    Prediction of Long Disorder Region Using Two-Step SVM
    Shuichi Hirose, Kana Shimizu, Satoru Kanai, Tamotsu Noguchi
    GIW 2005 Poster Abstract: P097 [PDF file]

    Large-Scale Analysis of Expressed Pseudogenes in Higher Eucaryotes
    Hayataro Kochi, Rintaro Saito, Masaru Tomita
    GIW 2005 Poster Abstract: P098 [PDF file]

    Development of Translational Signal Database and Analysis of Sequence-Activity Relationship
    Hayato Nishida, Alex. Kochetov, Akinori Sarai
    GIW 2005 Poster Abstract: P099 [PDF file]

    Genome Wide Analysis of the Alternative Splicing Based on Full-Length cDNA Data
    Hiroki Sakai, Yutaka Suzuki, Katsuhisa Horimoto, Sumio Sugano, Minoru Kanehisa
    GIW 2005 Poster Abstract: P100 [PDF file]

    An Unsupervised Diplotype Clustering Method to Improve Race-Based Medicine
    Junji Tanaka, Masato Inoue, Naoyuki Kamatani
    GIW 2005 Poster Abstract: P101 [PDF file]

    Toward Full-Automatic Derivation of P450 Gene Database --Performance of Familywise Applied to Plant Genomes--
    Makoto Hirosawa, Daisuke Shibata, Osamu Gotoh
    GIW 2005 Poster Abstract: P102 [PDF file]

    Discovery of Protein Coding Genes Through Chromosome-to-Chromosome Sequence Comparison
    Osamu Gotoh, Masao Morita, Nobuyuki Ichiyoshi, Tetsushi Yada
    GIW 2005 Poster Abstract: P103 [PDF file]

    Development of a Primer Design Program for Multiplex PCR
    Seok Jong Yu, Yong Seong Cho, Byeong-Jin Jeong, Hyeon S. Son, Sang Joo Lee
    GIW 2005 Poster Abstract: P104 [PDF file]

    Watermark Embedding Techniques for DNA Sequences Using Codon Usage Bias Features
    Toshio Modegi
    GIW 2005 Poster Abstract: P105 [PDF file]

    Genome Analize by Using Spherical SOM
    Yasaburo Matsuura, Toshimichi Ikemura, Takashi Abe, Heizo Tokutaka, Masaaki Ohkita
    GIW 2005 Poster Abstract: P106 [PDF file]

    The Identification of a Cancer Cell Gene by Using SOM
    Yasaburo Matsuura, Tuoya, Masaharu Seno, Heizo Tokutaka, Masaaki Ohkita
    GIW 2005 Poster Abstract: P107 [PDF file]

    Bioprocess Optimal Control Simulator Design and Development
    Jebrou Youssef, Masahiro Okamoto
    GIW 2005 Poster Abstract: P108 [PDF file]

    A System-Biological Approach to Interferon-Based Therapies
    Kazunori Miyazaki, Satoshi Itoh
    GIW 2005 Poster Abstract: P109 [PDF file]

    BAAQ: A Platform for Integrating Bioinformatics Tools and Sharing Knowledge
    Jitender Jit Singh Cheema, Xiujun Gong, Kensuke Nakamura, Kei Yura, Nobuhiro Go
    GIW 2005 Poster Abstract: P110 [PDF file]

    Simulation of Light-Induced Phase Response in Mammals with Hybrid Function Petri Net
    Yumi Harada, Natsumi Mito, Yasushi Fujii, Hiroshi Matsuno, Satoru Miyano, Sin-Ichi T. Inouye
    GIW 2005 Poster Abstract: P111 [PDF file]

    Expanding Large Scale Signal Transduction Networks
    Kosuke Hashimoto, Bernd Binder, Minoru Kanehisa, Oliver Ebenhoeh, Reinhart Heinrich
    GIW 2005 Poster Abstract: P112 [PDF file]

    Comprehensive Detection of TM Protein Genes which might be Associated with Febrile Seizure
    Yasuhito Inoue, Kazuaki Kanai, Satoshi Mizuta, Motohiro Okada, Sunao Kaneko, Toshio Shimizu
    GIW 2005 Poster Abstract: P113 [PDF file]

    CADLIVE: Computer-Aided Design of Living Systems
    Hiroyuki Kurata, Marie Kajiwara, Yuki Shimokawa,
    GIW 2005 Poster Abstract: P114 [PDF file]

    Petri Net Based Modeling of Signaling Pathways Including Inhibitory Function
    Chen Li, Shunichi Suzuki, Yoko Takeuchi, Qi-Wei Ge, Mitsuru Nakata, Hiroshi Matsuno, Satoru Miyano
    GIW 2005 Poster Abstract: P115 [PDF file]

    Interlocked Feedback Is Not the Best Choice for PER Oscillators
    Fumitaka Ohnishi, Hiroyuki Kurata
    GIW 2005 Poster Abstract: P116 [PDF file]

    Symbolic-Numeric Estimation of Kinetic Parameters in Biochemical Pathways by Quantifier Elimination
    Shigeo Orii, Hirokazu Anai, Katsuhisa Horimoto
    GIW 2005 Poster Abstract: P117 [PDF file]

    Developing Cardiac Cell Models (Kyoto model) on em simBio
    Nobuaki Sarai, Satoshi Matsuoka, Akinori Noma
    GIW 2005 Poster Abstract: P118 [PDF file]

    A Modeling Tool for E-CELL System: Power-Law Model Generator Based on Time-Course Data
    Shigeru Sato, Yasuhiro Naito, Masaru Tomita
    GIW 2005 Poster Abstract: P119 [PDF file]

    Kinetic Modeling of Metabolic Pathways in Acetone-Butanol-Ethanol (ABE) Fermentation Using Novel Simulator
    Hideaki Shinto, Yukihiro Tashiro, Mayu Yamashita, Genta Kobayashi, Tatsuya Sekiguchi, Taizo Hanai, Masahiro Okamoto, Kenji Sonomoto
    GIW 2005 Poster Abstract: P120 [PDF file]

    Theoretical Research on Dynamics of the Genetic Toggle Switch
    Tomohiro Ushikubo, Wataru Inoue, Mitsumasa Yoda, Masaki Sasai
    GIW 2005 Poster Abstract: P121 [PDF file]

    Optimization of a Large-Scale Dynamic Model of the Cell Cycle Network Using Multi Objective GA
    Shunsuke Yamamichi, Hiroyuki Kurata
    GIW 2005 Poster Abstract: P122 [PDF file]

    Module Decomposition and Integration Optimizes Gene Regulatory and Metabolic Networks
    Keisuke Yoshida, Hiroyuki Kurata
    GIW 2005 Poster Abstract: P123 [PDF file]

    Structure-Based Analysis of Cooperativity in Protain-DNA Recognition
    Akinori Sarai, Satoshi Fujii, Marcos J. Araúzo-Bravo, Hidetoshi Kono
    GIW 2005 Poster Abstract: P124 [PDF file]

    Indirect Readout in Drug-DNA Complexes
    Marcos J. Araúzo-Bravo, Akinori Sarai
    GIW 2005 Poster Abstract: P125 [PDF file]

    Prediction of Pseudoknotted RNA Structure by a Structural Alignment Using Genetic Algorithm
    Akito Taneda
    GIW 2005 Poster Abstract: P126 [PDF file]

    A New Method of Computing Ligand-Based Pharmacophore Models for Flexible Chemical Compounds
    Atsuko Yamaguchi, Hiroyasu Shimada, Ken Horiuchi, Tetsuo Nishikawa
    GIW 2005 Poster Abstract: P127 [PDF file]

    Large Scale Protein Side-Chain Packing Based on Maximum Edge-Weight Clique Finding Algorithms
    Dukka Bahadur K. C., J. B. Brown, Etsuji Tomita, Jun'ichi Suzuki, Tatsuya Akutsu
    GIW 2005 Poster Abstract: P128 [PDF file]

    Thermal Adaptations of DNA-Binding Proteins
    Masashi Fujita, Minoru Kanehisa
    GIW 2005 Poster Abstract: P129 [PDF file]

    CCG-Based RNA Secondary Structure Prediction
    Hee-Jin Lee, Jong C. Park
    GIW 2005 Poster Abstract: P130 [PDF file]

    Comparisons between Dynamic Properties of Homologous Protein Structure in ProMode (Database of Normal Mode Analyses on Proteins)
    Hiroshi Wako, Motohiro Otsuka, Yuhki Tomizawa, Masaki Kato, Shigeru Endo
    GIW 2005 Poster Abstract: P131 [PDF file]

    Genome-Wide Protein Structure Characterization of Mycoplasma genitalium
    Jun-Wei Hsu, Chen-hsiung Chan, Cheng-Yan Kao
    GIW 2005 Poster Abstract: P132 [PDF file]

    High Quality Protein Structure Prediction Server, SKE-FAMSD
    Kazuhiko Kanou, Mitsuo Iwadate, Genki Terashi, Daisuke Takaya, Mayuko Takeda-Shitaka, Hideaki Umeyama
    GIW 2005 Poster Abstract: P133 [PDF file]

    Computational Analysis of microRNA Recognition Site
    Keishin Nishida, Riu Yamashita, Kengo Kinoshita, Kenta Nakai
    GIW 2005 Poster Abstract: P134 [PDF file]

    RNA Structural Alignment with Conditional Random Fields
    Kengo Sato, Yasubumi Sakakibara
    GIW 2005 Poster Abstract: P135 [PDF file]

    Predicting Non-Coding RNAs Based on Free Energy Minimization by Means of Genetic Algorithms
    Kouichi Okada, Hitoshi Iba
    GIW 2005 Poster Abstract: P136 [PDF file]

    Sequence and Structural Analysis of Ligand Bindig Sites in Membrane Proteins
    M. Xavier Suresh, M. Michael Gromiha, M. Suwa
    GIW 2005 Poster Abstract: P137 [PDF file]

    Homology Modeling in CASP6 (Critical Assessment of Techniques for Protein Structure Prediction) Using CHIMERA and FAMS
    Mayuko Takeda-Shitaka, Genki Terashi, Daisuke Takaya, Kazuhiko Kanou, Mitsuo Iwadate, Hideaki Umeyama
    GIW 2005 Poster Abstract: P138 [PDF file]

    Pareto-Optimal Motif for Predicting Peptide Binders
    Menaka Rajapakse, Bertil Schmidt, Vladimir Brusic
    GIW 2005 Poster Abstract: P139 [PDF file]

    Fold Recognition and Flexibility of the HIV-1 V3-Loop Crown Structure During the Course of Adaptation to a Host
    Teruaki Watabe, Hirohisa Kishino, Yasuhiro Kitazoe
    GIW 2005 Poster Abstract: P140 [PDF file]

    An Alignment Algorithm by Matching Fixed-Length Stem Fragments for Comparing RNA Sequences
    Yasuo Tabei, Koji Tsuda, Taishin Kin, Kiyoshi Asai
    GIW 2005 Poster Abstract: P141 [PDF file]

    Non-Arbitrary Judgment for Periodicity of Time-Series Data by an Information Criterion and Discrete Fourier Transform
    Daisuke Tominaga, Paul Horton
    GIW 2005 Poster Abstract: P142 [PDF file]

    Searching for Similar Gene Expression Profiles Across Platforms
    Wataru Fujibuchi, Larisa Kiseleva, Paul Horton
    GIW 2005 Poster Abstract: P143 [PDF file]

    Phenotype MicroArray Analysis of Escherichia coli K-12: An in silico Approach
    Hiroaki Gobara, Tomoya Baba, Md. Altaf-Ul-Amin, Masanori Arita, Ken Kurokawa, Shigehiko Kanaya, Hirotada Mori
    GIW 2005 Poster Abstract: P144 [PDF file]

    Inference Engine for Gene Expression by Bayesian Network
    Hirofumi Suzaki, Akinori Sarai
    GIW 2005 Poster Abstract: P145 [PDF file]

    A Hypothesis of Intrinsic Vital Volatility in Gene Expression
    Hiroto Yoshii, Hideki Takayasu
    GIW 2005 Poster Abstract: P146 [PDF file]

    Gene Duplication Models and Reconstruction of Network Evolution
    Juris Viksna, David Gilbert, Dace Ruklisa
    GIW 2005 Poster Abstract: P147 [PDF file]

    Efficient Method for Extracting Common Core Binomial Genetic Interactions
    Masahiko Nakatsui, Takanori Ueda, Isao Ono, Masahiro Okamoto
    GIW 2005 Poster Abstract: P148 [PDF file]

    Structural and Functional Analysis of Transiently Expressed Metabolic Networks
    Mina Oh, Wolfram Liebermeister, Minoru Kanehisa, Reinhart Heinrich, Oliver Ebenhöh
    GIW 2005 Poster Abstract: P149 [PDF file]

    Estimation of Gene Regulatory Network Using Stochastic Differential Equation Model
    Shinya Nabatame, Hitoshi Iba
    GIW 2005 Poster Abstract: P150 [PDF file]

    Comparative Study of State Space Models for Time-Course Gene Expression Data of Yeast
    Rui Yamaguchi, Tomoyuki Higuchi
    GIW 2005 Poster Abstract: P151 [PDF file]

    On Conditions for Morphogenetic Diversity of Multicellular Organisms
    Hiroshi Yoshida, Hirokazu Anai, Shigeo Orii, Katsuhisa Horimoto
    GIW 2005 Poster Abstract: P152 [PDF file]

    Orchestration of Gene Systems Inferred from Expression Profiles in Hepatocellular Carcinoma
    Katsuhisa Horimoto, Sachiyo Aburatani, Shigeru Saito, Masao Honda, Shu-ichi Kaneko
    GIW 2005 Poster Abstract: P153 [PDF file]

    Causal Inference of Gene Systems Network in Hepatocellular Carcinoma Progression by Graphical Chain Model
    Masao Honda, Shu-ichi Kaneko, Shigeru Saito, Sachiyo Aburatani, Katsuhisa Horimoto
    GIW 2005 Poster Abstract: P154 [PDF file]

    Evaluation of Inference Performance by ASIAN in Transcriptional Regulatory Relationships
    Ritsuko Onuki, Sachiyo Aburatani, Katsuhisa Horimoto, Minoru Kanehisa
    GIW 2005 Poster Abstract: P155 [PDF file]

    Inference of Cell Cycle-Regulatory Systems Network in Saccharomyces cerevisiae
    Sachiyo Aburatani, Shigeru Saito, Katsuhisa Horimoto
    GIW 2005 Poster Abstract: P156 [PDF file]

    Inferring Module-Based Gene Networks from Time Course Microarray Data by State Space Models
    Osamu Hirose, Ryo Yoshida, Seiya Imoto, Satoru Miyano
    GIW 2005 Poster Abstract: P157 [PDF file]

    Identification of Drug Active Pathways Based on Gene Networks Estimated by Bayesian Networks and Gene Expression Data
    Yoshinori Tamada, Seiya Imoto, Kousuke Tashiro, Satoru Kuhara, Satoru Miyano
    GIW 2005 Poster Abstract: P158 [PDF file]

    Scaling-Law and Fluctuation in Gene Expression
    Jose C. Nacher, Tomoshiro Ochiai, Tatsuya Akutsu
    GIW 2005 Poster Abstract: P159 [PDF file]

    Stochastic Fluctuation and Relaxation in a Genetic Feedback Loop
    Yurie Okabe, Yu Yagi, Masaki Sasai
    GIW 2005 Poster Abstract: P160 [PDF file]

    Effects of Disease-Associated Mutations and SNP on Protein Structures
    Akiyuki Koga, Hidetoshi Kono, Akinori Sarai
    GIW 2005 Poster Abstract: P161 [PDF file]

    Particle Simulation Approach for Cellular Level Spatio-Temporal Properties
    Ryuzo Azuma, Tetsuji Kitagawa, Hiroshi Kobayashi, Ryo Umetsu, Tomoyuki Yamamoto, Akihiko Konagaya
    GIW 2005 Poster Abstract: P162 [PDF file]

    Theoretical Analysis of Metabolic Networks: Attempt to Express Topological Position of Individual Atoms in a Given Network
    Jun Ohta
    GIW 2005 Poster Abstract: P163 [PDF file]

    Objective Distances for Transcriptome Analyses According to the Thermodynamic Model
    Tomokazu Konishi
    GIW 2005 Poster Abstract: P164 [PDF file]

    Elucidation of Xenobiotic Responsive and NR Mediated Pathways/Networks
    Tsuguchika Kaminuma, Masumi Yukawa, Naomi Komiyama, Tatsuya Nakano, Kotoko Nakata, Yoshitomo Tanaka, Hiroshi Tanaka
    GIW 2005 Poster Abstract: P165 [PDF file]

    Improvement of ASIAN Web Site
    Kousuke Goto, Shigeru Saito, Sachiyo Aburatani, Katsuhisa Horimoto
    GIW 2005 Poster Abstract: P166 [PDF file]

    Characteristic Chemical Transformation Patterns in Biodegradation Pathways
    Mina Oh, Masahiro Hattori, Susumu Goto, Minoru Kanehisa
    GIW 2005 Poster Abstract: P167 [PDF file]