Genome Informatics Vol. 9 (1998)

Presented at the Genome Informatics Workshop 1998
December 10-11, 1998, Yebisu Garden Place, Tokyo, Japan

Published as: Miyano, S. and Takagi, T. (eds.) "Genome Informatics 1998"
Universal Academy Press, Tokyo, 1998

Preface by Toshihisa Takagi

Program Committee


Full Talk Papers

Genomic Analysis of the Genes Encoding Ribosomal Proteins in Eight Eubacterial Species and Saccharomyces cerevisiae
Katsutoshi Fujita, Tomoya Baba, Katsumi Isono
Genome Informatics 9: 3-12 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Construction of the gyrB Database for the Identification and Classification of Bacteria
Hiroaki Kasai, Kanako Watanabe, Elizabeth Gasteiger, Amos Bairoch, Katsumi Isono, Satoshi Yamamoto, Shigeaki Harayama
Genome Informatics 9: 13-21 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Phylogenetic Invariants for Metazoan Mitochondrial Genome Evolution
David Sankoff, Mathieu Blanchette
Genome Informatics 9: 22-31 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Systematic Prediction of Orthologous Units of Genes in the Complete Genomes
Hidemasa Bono, Susumu Goto, Wataru Fujibuchi, Hiroyuki Ogata, Minoru Kanehisa
Genome Informatics 9: 32-40 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Comprehensive Sequence Analyses of 5' Flanking Regions of Primate Alu Elements
Yoshimi Toda, Rintaro Saito, Masaru Tomita
Genome Informatics 9: 41-48 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Evidence of Limited Structural Organization in Globin Intron Sequences of Messenger RNA
Wayne Dawson, Kenji Yamamoto
Genome Informatics 9: 49-61 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Identifying the Interaction between Genes and Gene Products Based on Frequently Seen Verbs in Medline Abstracts
Takeshi Sekimizu, Hyun S. Park, Jun'ichi Tsujii
Genome Informatics 9: 62-71 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Detecting Gene Symbols and Names in Biological Texts : A First Step toward Pertinent Information Extraction
Denys Proux, François Rechenmann, Laurent Julliard, Violaine Pillet, Bernard Jacq
Genome Informatics 9: 72-80 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Developing NLP Tools for Genome Informatics: An Information Extraction Perspective
Teruyoshi Hishiki, Nigel Collier, Chikashi Nobata, Tomoko Okazaki-Ohta, Norihiro Ogata, Takeshi Sekimizu, Roland Steiner, Hyun S. Park, Jun'ichi Tsujii
Genome Informatics 9: 81-90 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

A Machine Learning Approach to Reducing the Work of Experts in Article Selection from Database: A Case Study for Regulatory Relations of S. cerevisiae Genes in MEDLINE
Shin-ichi Usuzaka, Kim Lan Sim, Miyako Tanaka, Hiroshi Matsuno, Satoru Miyano
Genome Informatics 9: 91-101 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Using Kleisli to Bring Out Features in BLASTP Results
Jing Chen, Daphna Strauss, Limsoon Wong
Genome Informatics 9: 102-111 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

MUSCA: An Algorithm for Constrained Alignment of Multiple Data Sequences
Laxmi Parida, Aris Floratos, Isidore Rigoutsos
Genome Informatics 9: 112-119 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Improvement of the A* Algorithm for Multiple Sequence Alignment
Hirotada Kobayashi, Hiroshi Imai
Genome Informatics 9: 120-130 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Parallel Protein Information Analysis (PAPIA) System Running on a 64-Node PC Cluster
Yutaka Akiyama, Kentaro Onizuka, Tamotsu Noguchi, Makoto Ando
Genome Informatics 9: 131-140 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Finding Genetic Network from Experiments by Weighted Network Model
Kiyoshi Noda, Ayumi Shinohara, Masayuki Takeda, Satoshi Matsumoto, Satoru Miyano, Satoru Kuhara
Genome Informatics 9: 141-150 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

A System for Identifying Genetic Networks from Gene Expression Patterns Produced by Gene Disruptions and Overexpressions
Tatsuya Akutsu, Satoru Kuhara, Osamu Maruyama, Satoru Miyano
Genome Informatics 9: 151-160 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Fully-Automated Spot Recognition and Matching Algorithms for 2-D Gel Electrophoretogram of Genomic DNA
Katsutoshi Takahashi, Masayuki Nakazawa, Yasuo Watanabe, Akihiko Konagaya
Genome Informatics 9: 161-172 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Hunting TPR Domains Using Kleisli
Kui Lin, Anthony E. Ting, Jiren Wang, Limsoon Wong
Genome Informatics 9: 173-182 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Low Identity, Low Similarity Protein Sequences: Independent Modeling of the Ordered-Series-of-Motifs and Motif-Intervening-Regions
Marcella A. McClure, Julianna Hudak, John Kowalski
Genome Informatics 9: 183-192 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

The Sequence Attribute Method for Determining Relationships Between Sequence and Protein Disorder
Qian Xie, Gregory E. Arnold, Pedro Romero, Zoran Obradovic, Ethan Garner, A. Keith Dunker
Genome Informatics 9: 193-200 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Predicting Disordered Regions from Amino Acid Sequence: Common Themes Despite Differing Structural Characterization
Ethan Garner, Paul Cannon, Pedro Romero, Zoran Obradovic, A. Keith Dunker
Genome Informatics 9: 201-213 (1998)
[Abstract]   [Full-text HTML]   [Full-text PDF]

Software Demonstration Abstracts

Mobile Agent System for Animal Genome Database
Yasuhiko Wada, Hirohisa Kishino, Nobuhisa Kashiwagi, Hiroshi Yasue
Genome Informatics 9: 220-221 (1998)
[Full-text PDF]

A Sample Tracking Tool for Rice Genome Sequencing
Katsumi Sakata, Kazunori Waki, Takuji Sasaki, Michihiko Shimomura, Masaki Kise
Genome Informatics 9: 222-223 (1998)
[Full-text PDF]

NEXTDB: The Expression Pattern Map Database for C. elegans
Tadasu Shin-i, Yuji Kohara
Genome Informatics 9: 224-225 (1998)
[Full-text PDF]

Constructing and Annotating GENES Database in KEGG
Susumu Goto, Kotaro Shiraishi, Kayo Okamoto, Hiroko Ishida, Sanae Asanuma, Hidemasa Bono, Hiroyuki Ogata, Wataru Fujibuchi, Minoru Kanehisa
Genome Informatics 9: 226-227 (1998)
[Full-text PDF]

ORI-GENE: A Tool for Gene Classification Based on Evolutional Tree
Hideaki Mizuno, Yoshimasa Tanaka, Yoshihiro Ugawa, Akinori Sarai
Genome Informatics 9: 228-229 (1998)
[Full-text PDF]

Genome-Scale Gene Expression Profiles Mapped onto the Pathway and Genome Maps in KEGG
Mitsuteru Nakao, Kazushige Sato, Tomomi Kamiya, Yoshiko Kimura, Minoru Kanehisa
Genome Informatics 9: 230-231 (1998)
[Full-text PDF]

Virtual Drosophila Project: Simulation of Drosophila Leg Formation
Koji Kyoda, Hiroaki Kitano
Genome Informatics 9: 232-233 (1998)
[Full-text PDF]

KMeyeDB: Keio Mutation Database for Eye Disease Genes Constructed on a Graphical Distributed Database System Mutation View
Shinsei Minoshima, Susumu Mitsuyama, Saho Ohno, Takashi Kawamura, Nobuyoshi Shimizu
Genome Informatics 9: 234-235 (1998)
[Full-text PDF]

GeneWeb II: Sequence Analysis Tools on Web Server Using Java API
Ken Kurokawa, Kenichi Kawashima, Toshiyuki Okumura, Tatsuya Takagi, Teruo Yasunaga
Genome Informatics 9: 236-237 (1998)
[Full-text PDF]

Parallelized Knowledge Discovery System: An Enhancement to BONSAI
Hideo Bannai, Toshio Masuda, Masao Nagasaki, Tomohiro Yasuda, Osamu Maruyama, S atoru Miyano
Genome Informatics 9: 238-239 (1998)
[Full-text PDF]

Poster Abstracts

Annotation of PDB with respect to ``Disordered Regions'' in Proteins
Meeta Rani, Pedro Romero, Zoran Obradovic, A. Keith Dunker
Genome Informatics 9: 240-241 (1998)
[Full-text PDF]

E-CELL Project Overview: Towards Integrative Simulation of Cellular Processes
Masaru Tomita, Kenta Hashimoto, Kouichi Takahashi, Yuri Matsuzaki, Ryo Matsushima, Kanako Saito, Katsuyuki Yugi, Fumihiko Miyoshi, Hisako Nakano, Sakura Tanida, Thomas S. Shimizu
Genome Informatics 9: 242-243 (1998)
[Full-text PDF]

Modeling of Transcription and DNA Replication Using the E-CELL Simulation System
Kenta Hashimoto, Fumihiko Miyoshi, Thomas S. Shimizu, Takeshi Satoyoshi, Masaru Tomita
Genome Informatics 9: 244-245 (1998)
[Full-text PDF]

Modeling of Signal Transduction for Bacterial Chemotaxis Using the E-CELL Simulation System
Yuri Matsuzaki, Kanako Saito, Tom Shimizu, Masaru Tomita
Genome Informatics 9: 246-247 (1998)
[Full-text PDF]

Modeling of Human Red Blood Cell Using the E-CELL Simulation System
Riou Matsushima, Akiko Kawase, Naoko Watanabe, Hisako Nakano, Kanako Saito, Masaru Tomita
Genome Informatics 9: 248-249 (1998)
[Full-text PDF]

Modeling Theory and Software Architecture of the E-CELL Simulation System
Kouichi Takahashi, Tom Shimizu, Katsuyuki Yugi, Masaru Tomita
Genome Informatics 9: 250-251 (1998)
[Full-text PDF]

Multivariate Time Series Analysis of Metabolic Network Using the E-CELL Simulation System
Yusuke Saito, Kouichi Takahashi, Masaru Tomita
Genome Informatics 9: 252-253 (1998)
[Full-text PDF]

Evolution of Overlapping Genes: Comparative Genomics of Mycoplasma genitalium and Mycoplasma pneumoniae
Yoko Fukuda, Takanori Washio, Masaru Tomita
Genome Informatics 9: 254-255 (1998)
[Full-text PDF]

On Periodicity of Adenine-Adenine Dinucleotides in Bacterial Genomes
Masahiko Wada, Yukihiro Kawashima, Masaru Tomita
Genome Informatics 9: 256-257 (1998)
[Full-text PDF]

Computer Analysis of Base Pairing Free-Energy between Shine-Dalgarno Sequence and 16S rRNA in Various Procaryotes
Yuko Osada, Rintaro Saito, Masaru Tomita
Genome Informatics 9: 258-259 (1998)
[Full-text PDF]

On Low Frequency of CpG Dinucleotides in Bacterial Genomes
Mami Goto, Takanori Washio, Masaru Tomita
Genome Informatics 9: 260-261 (1998)
[Full-text PDF]

Analysis of Translation Initation Sites in the Complete Genome of Mycoplasma g\ enitalium Suggests That This Bacterium Uses Alternative Signal for Translation Initiation
Rintaro Saito, Masaru Tomita
Genome Informatics 9: 262-263 (1998)
[Full-text PDF]

Expression Frequency of the Human Immunoglobulin lambda Light Chain Genes and the Roles of Their Recombination Signal and Spacer Sequences
Taku Okada, Masaru Tomita, Kazuhiko Kawasaki, Shinsei Minoshima, Nobuyoshi Shimizu
Genome Informatics 9: 264-265 (1998)
[Full-text PDF]

Assessment of Utility of ESTs for Nucleotide Diversity Using Available Assembled Alignments from dbESt, STACK 2.0 and STACK-INDEX
Brian Karlak, Winston Hide
Genome Informatics 9: 266-268 (1998)
[Full-text PDF]

A Genome-Level Search for Bacterial Genes on Which Positive Selection May Operate: A Means for Identifying Possible Virulence Factors?
Junaid Gamieldien, Winston Hide
Genome Informatics 9: 269-270 (1998)
[Full-text PDF]

A Statistical Model for Prokaryotic Promoter Prediction
Joseph Oppon, Winston Hide
Genome Informatics 9: 271-273 (1998)
[Full-text PDF]

Algorithms for Inference of Genetic Networks (AIGNET)
Shoji Watanabe, Yukihiro Maki, Yukihiro Eguchi, Daisuke Tominaga, Masahiro Okamoto
Genome Informatics 9: 274-275 (1998)
[Full-text PDF]

An Educational Tool for Visualize DNA Structures in vivo
Shigehiro Fukase, Masato Wayama
Genome Informatics 9: 276-277 (1998)
[Full-text PDF]

Extended Sequence Alignment Method for Protein Secondary Structure Prediction
Susumu Hiraoka
Genome Informatics 9: 278-279 (1998)
[Full-text PDF]

Detection of Frame-Shift Error in the Yeast Genome Sequences
Naoko Kasahara, Naoyuki Harada, Keiichi Nagai
Genome Informatics 9: 280-281 (1998)
[Full-text PDF]

Clustering and Detection of 5'Splice Sites of mRNA by k Weight Matrix Model
Katsuhiko Murakami, Toshihisa Takagi
Genome Informatics 9: 282-283 (1998)
[Full-text PDF]

Automated Metabolic Reconstruction at the Molecular Level
Masanori Arita
Genome Informatics 9: 284-285 (1998)
[Full-text PDF]

Correlation between Exon and Dispersed Repetitive DNA Distributions on the Human Genome
Yoshiaki Hojo, Ikuo Uchiyama, Yataro Daigo, Yusuke Nakamura, Toshihisa Takagi
Genome Informatics 9: 286-287 (1998)
[Full-text PDF]

Automatic Construction of Biological Abbreviation Dictionary from Abstracts of Biomedical Papers
Mikio Yoshida, Kenichiro Fukuda, Toshihisa Takagi
Genome Informatics 9: 288-289 (1998)
[Full-text PDF]

A Workbench for Systematic Construction of Signal Transduction Pathways: Ontologies and Architectures
Kenichiro Fukuda, Mikio Yoshida, Toshihisa Takagi
Genome Informatics 9: 290-291 (1998)
[Full-text PDF]

Development of Information Extraction Tool: Toward Construction of Protein-Protein Interaction Database
Tomoko Okazaki-Ohta, Toshihisa Takagi
Genome Informatics 9: 292-293 (1998)
[Full-text PDF]

Palindrome Analysis: Distribution of Complete-Matched Inverted Repeats with a Moderate Length Spacer
Masao Fukagawa, Tatsuhiko Tsunoda, Toshihisa Takagi
Genome Informatics 9: 294-295 (1998)
[Full-text PDF]

Construction of Ortholog/Paralog Group Table for PTS
Takeaki Taniguchi, Minoru Kanehisa
Genome Informatics 9: 296-297 (1998)
[Full-text PDF]

A Library of Protein-Ligand Interaction Sites for de novo Ligand Design
Kiminobu Sato, Minoru Kanehisa
Genome Informatics 9: 298-299 (1998)
[Full-text PDF]

Automatic Detection of Gene Clusters by P-Quasi Complete Linkage Grouping
Wataru Fujibuchi, Hiroyuki Ogata, Hideo Matsuda, Minoru Kanehisa
Genome Informatics 9: 300-301 (1998)
[Full-text PDF]

The Construction of the Knowledge Base of Immune System
Yoshinobu Igarashi, Minoru Kanehisa
Genome Informatics 9: 302-303 (1998)
[Full-text PDF]

Detection of Co-regulated Genes by Comparative Analysis of Microbial Genomes
Hiroyuki Ogata, Wataru Fujibuchi, Minoru Kanehisa
Genome Informatics 9: 304-305 (1998)
[Full-text PDF]

Extracting Regulatory Signals from the Upstream Region of Co-expressed Genes Derived from DNA Microarray Experiments
Shuichi Kawashima, Hiroyuki Ogata, Minoru Kanehisa
Genome Informatics 9: 306-307 (1998)
[Full-text PDF]

Protein Folding Simulation and Self-Consistent Potential Functions
Fumi Takazawa, Masaki Sasaki, Minoru Kanehisa
Genome Informatics 9: 308-309 (1998)
[Full-text PDF]

Systematic Classification of B. subtilis Genes and Construction of a Knowledge Base to Represent Functional Information
Atsushi Ogiwara
Genome Informatics 9: 310-311 (1998)
[Full-text PDF]

Search Pathways for Secondary Metabolites Based on Genome Analysis and Chemical Knowledge on Metabolism
Takaaki Nishioka, Kimito Funatsu
Genome Informatics 9: 312-313 (1998)
[Full-text PDF]

A Method for Querying Complete Genomes by Viewing Them as Structured Documents
Aaron J. Stokes, Hideo Matsuda, Akihiro Hashimoto
Genome Informatics 9: 314-315 (1998)
[Full-text PDF]

Maintenance of Transcription Factor DataBase TFDB by TFDB Maintenance System
Masako Kaizawa, Satoru Watanabe, Takahiro Nobukuni, Masami Horikoshi, Hiroshi Handa, Yoshiyuki Kuchino, Takao Sekiya, Hiroshi Mizushima
Genome Informatics 9: 316-318 (1998)
[Full-text PDF]

ALIS: Data Management Systems for Human Genome Sequencing
Mika Hirakawa, Kensaku Imai, Hiroko Yamaguchi, Junko Shimada, Kazuo Takehana, Katsuji Matsumura, Takehiko Itoh, Masako Kuroda
Genome Informatics 9: 319-320 (1998)
[Full-text PDF]

Automatic cDNA classification System for Mouse Genome Project
Yoshifumi Fukunishi, Hideaki Konno, Yoshihide Hayashizaki
Genome Informatics 9: 321-323 (1998)
[Full-text PDF]

Automated cDNA Information System for Large Scale cDNA Project
Hideaki Konno, Yuichi Sugahara, Yoshifumi Fukunishi, Kazuhiro Shibata, Yoshihide Hayashizaki
Genome Informatics 9: 324-325 (1998)
[Full-text PDF]

Application of the RLGS Image Analysis Tool (RAT) to the Construction of a Genetic Linkage Map of Recombinant Inbred Strain SMXA
Yuichi Sugahara, Yoshihide Hayashizaki
Genome Informatics 9: 326-327 (1998)
[Full-text PDF]

3DinSight: An Integrated Database and Search Tool for Structure, Function and Property of Biomolecules
Jianghong An, Takao Nakama, Yasushi Kubota, Akinori Sarai
Genome Informatics 9: 328-329 (1998)
[Full-text PDF]

ProTherm: Thermodynamic Database for Proteins and Mutants
M. Michael Gromiha, Jianghong An, Hidetoshi Kono, Motohisa Oobatake, Hatsuho Uedaira, Akinori Sarai
Genome Informatics 9: 330-331 (1998)
[Full-text PDF]

Prediction of DNA target Sites by Regulatory Proteins Based on Structure-Derived Potential
Hidetoshi Kono, Akinori Sarai
Genome Informatics 9: 332-333 (1998)
[Full-text PDF]

Genomic Hypothesis Creator: A Multi-Strategic View Creator for Sequences
Osamu Maruyama, Tomoyuki Uchida, Takayoshi Shoudai, Satoru Miyano
Genome Informatics 9: 334-335 (1998)
[Full-text PDF]

Development of Web Interface of Image Analysis System DDGEL for 2D Gel Electrophoresis
Kyotetsu Kanaya, Akira Ohyama, Tatsuya Akutsu, Asao Fujiyama
Genome Informatics 9: 336-337 (1998)
[Full-text PDF]

Subcubic Time Algorithms for RNA Secondary Structure Prediction
Tatsuya Akutsu
Genome Informatics 9: 338-339 (1998)
[Full-text PDF]

ThreeTree: A New Method to Reconstruct Phylogenetic Trees
Satoshi OOta
Genome Informatics 9: 340-341 (1998)
[Full-text PDF]

Efficiency of Model-Based Complexity Method for Estimating Unrooted Multifurcate Phylogenetic Tree
Fengrong Ren, Hiroshi Tanaka
Genome Informatics 9: 342-343 (1998)
[Full-text PDF]

Secondary Structure Prediction Based on Statistical Mechanics
Yukio Kobayashi, Nobuhiko Saito
Genome Informatics 9: 344-346 (1998)
[Full-text PDF]

Integrating Multiple Evidences by Hidden Markov Models
Kiyoshi Asai, Katunobu Itou, Tetsushi Yada
Genome Informatics 9: 347-348 (1998)
[Full-text PDF]

Modeling Transcriptional Units of E. coli Genes Using HMM
Tetsushi Yada, Mitsuteru Nakao, Yasushi Totoki, Takahiro Ishii, Kenta Nakai
Genome Informatics 9: 349-350 (1998)
[Full-text PDF]

A Database of B. subtilis Promoters and Transcription Factors
Takahiro Ishii, Kenta Nakai
Genome Informatics 9: 351-352 (1998)
[Full-text PDF]

A Study Using Sequence Comparison to Investigate the Molecular Evolution of Mitochondrial tRNA Genes
Jun-Ichi Sagara, Shugo Nakamura, Mitsunori Ikeguchi, Kentaro Shimizu
Genome Informatics 9: 353-354 (1998)
[Full-text PDF]

Prediction of Initiation Codons in cDNA Fragments Using Statistical Information and Similarity with Protein Sequences
Tetsuo Nishikawa, Toshio Ota, Takao Isogai
Genome Informatics 9: 355-356 (1998)
[Full-text PDF]

Genome Analysis: Assigning Protein Coding Regions to 3D Structures
Asaf A. Salamov, Makiko Suwa, Christine A. Orengo, Mark B. Swindells
Genome Informatics 9: 357-358 (1998)
[Full-text PDF]

A Novel Application of GeneMark-RC to the Analysis of Prokaryotic Genomes and \ Human cDNAs: Sequence Data with Statistical Deviations Are Rich in Important Biological Information
Makoto Hirosawa, Osamu Ohara, Katsumi Isono
Genome Informatics 9: 359-360 (1998)
[Full-text PDF]

Annotation and Presentation Systems for Arabidopsis Genome Sequencing Project at Kazusa DNA Research Institute
Yasukazu Nakamura, Shusei Sato, Satoshi Tabata
Genome Informatics 9: 361-362 (1998)
[Full-text PDF]

Charge Distribution of Signal Peptides and Signal Anchor Type II
Masahiro Gomi, Takatsugu Hirokawa, Shigeki Mitaku
Genome Informatics 9: 363-364 (1998)
[Full-text PDF]

Topology Prediction of Membrane Proteins Based on a Modified ``Positive-Inside'' Rule
Koji Kadota, Hiroyuki Sasamoto, Takatsugu Hirokawa, Shigeki Mitaku
Genome Informatics 9: 365-366 (1998)
[Full-text PDF]

Classification of Membrane Proteins by Types of Transmembrane Helices Using SOSUI System
Shigeki Mitaku, Takatsugu Hirokawa, Mitsuo Ono
Genome Informatics 9: 367-368 (1998)
[Full-text PDF]

Gene Classification by Self-Organization Mapping of Codon Usage in Bacteria with Completely Sequenced Genome
Shigehiko Kanaya, Yoshihiro Kudo, Takashi Abe, Takanori Okazaki, Carlos Del Carpio, Toshimichi Ikemura
Genome Informatics 9: 369-371 (1998)
[Full-text PDF]

GAFLEX: A Hybrid GA Engine for Mapping the Configuration Hyper-Space of Organic Compounds in Solution
Carlos A. Del Carpio
Genome Informatics 9: 372-373 (1998)
[Full-text PDF]

DYNAX: A New System for Biomolecular Dynamics Simulation in Solution
Atsushi Yoshimori, Carlos A. Del Carpio
Genome Informatics 9: 374-375 (1998)
[Full-text PDF]

Development of an Antibacterial MAP Homologous to a Loop Region in Human Lactoferrin
Masachika Azuma, Taiki Kojima, Masaki Kobayashi, Carlos Adriel Del Carpio
Genome Informatics 9: 376-377 (1998)
[Full-text PDF]

MOLDEX:A Computer System for Drug Design. 4)A Combined Electro-Geometric Method for the Identification of Pharmacophoric Structural Patterns in Drugs
Hiromi Nakatake, Carlos Adriel Del Carpio
Genome Informatics 9: 378-379 (1998)
[Full-text PDF]

A Simulated Annealing Algorithm for Geometrical Assessment of Macromolecular Hydrophobic Interaction
Tomoko Hara, Carlos Adriel Del Carpio
Genome Informatics 9: 380-381 (1998)
[Full-text PDF]

A Genetic Programming Based System for the Prediction of Secondary and Tertiary Structures of RNA
Katsuhisa Yamaguchi, Carlos Adriel Del Carpio
Genome Informatics 9: 382-383 (1998)
[Full-text PDF]

Detailed Sequence Analysis of the Distal Down Syndrome Critical Region and the SOD1/AML1 Region on Chromosome 21
Todd Taylor, Masahira Hattori, Kiyoteru Noguchi, Tomomi Shobu, Kazuo Ishii, Atsushi Toyoda, Yoshiyuki Sakaki
Genome Informatics 9: 384-385 (1998)
[Full-text PDF]

Genome Wide Survey of the Entire C. elegans alpha-Tubulin Gene Family: cDNA Cloning, Expression, and Structure-Function Analysis
Camelia B. Gogonea, M. Y. Ali, Tetsunari Fukushige, M. Afaq Shakir, Takashi Matsuo, Shahid S. Siddiqui
Genome Informatics 9: 386-387 (1998)
[Full-text PDF]

Gene Has Its Inherent Significantly Repetitive Tuples
Nobuyuki Uchikoga, Akira Suyama
Genome Informatics 9: 388-389 (1998)
[Full-text PDF]

Nucleotide Sequence of a Gene Encodes Characteristic Features of an Organism as Well as an Amino Acid Sequence
Hiroshi Nakashima, Motonori Ota, Ken Nishikawa, Tatsuo Ooi
Genome Informatics 9: 390 (1998)
[Full-text PDF]

Application Computer Software in Mapping Quantitative Trait Loci
Chindo Hicks, Eiji Kobayashi, Masahiro Satoh, Kazuo Ishii, Tsutomu Furukawa
Genome Informatics 9: 391-392 (1998)
[Full-text PDF]

Phosphoglycerate-transporter Protein B as a Most Primitive Protein Predicted by the Poly-tRNA Theory
Koji Ohnishi
Genome Informatics 9: 393-394 (1998)
[Full-text PDF]

Sequence Analysis of the IRES-Loop III Region of Hepatitis C Virus
Takayoshi Sasano, Jun-Ichi Sagara, Shugo Nakamura, Mitsunori Ikeguchi, Kentaro Shimizu
Genome Informatics 9: 395-396 (1998)
[Full-text PDF]

ORF Clustering Analysis of 17 Complete Genomes
Kenji Suzuki, Takeshi Ara, Hideo Matsuda, Hirotada Mori
Genome Informatics 9: (1998)
[Full-text PDF]

Invited Talks

Information Geometry and Neural Networks
Shun-ichi Amari
Genome Informatics 9: 217 (1998)
[Full-text PDF]

Comparative Genomics: Is It Changing the Paradigm of Evolutionary Biology?
Eugene V. Koonin
Genome Informatics 9: 218-219 (1998)
[Full-text PDF]