Genome Informatics

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Volume 14

Displaying 101-150 of 256 articles from this issue

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Detect of Novel Alternative Form at Development Stages in Brain

Sung Hun Lee, Myung Guen Chung, Sung Hee Park, Soo Jun Park, Seon Hee ...

2003 Volume 14 Pages 414-415
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.414

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Splice Variant Search with Gene Expression Data

Tadashi Kadowaki, Satoshi Shiojima, Gozoh Tsujimoto

2003 Volume 14 Pages 416-417
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.416

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Mapping Database of cDNA and Genome Designed to Use for Various Applications

Akifumi Yamashita, Ken Kurokawa, Teruo Yasunaga

2003 Volume 14 Pages 418-419
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.418

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Finding Significant Patterns Characterizing Types of Alternative Splicing

Hiroki Sakai, Osamu Maruyama

2003 Volume 14 Pages 420-421
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.420

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Towards Splicing Pattern Detection Based on cDNA Sequences

Tomohiro Yasuda, Koichi Kimura, Tetsuo Nishikawa

2003 Volume 14 Pages 422-423
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.422

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An Algorithm for Classification of Alternative Splicing and Transcriptional Initiation and Its Genome-Wide Application

Hideki Nagasaki, Makiko Suwa, Osamu Gotoh

2003 Volume 14 Pages 424-425
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.424

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Detection of the Splicing Sites with Kernel Method Approaches Dealing with Nucleotide Doublets

Masaki Yamamura, Osamu Gotoh

2003 Volume 14 Pages 426-427
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.426

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Identifying Potential Regulatory Sequences of Alternative Splicing

Hitomi Itoh, Takanori Washio, Masaru Tomita

2003 Volume 14 Pages 428-429
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.428

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A cDNA Evaluation System for Highly Efficient Sequencing of Splicing Variant cDNAs

Jun-ichi Yamamoto, Naoto Hatano, Kenji Araki, Hiroshi Makita, Kouichi ...

2003 Volume 14 Pages 430-431
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.430

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Self-Nonself Discrimination Based on Incompatibility of Amino Acid Sequences of Human and Viruses

Wataru Honda, Shuichi Kawashima, Minoru Kanehisa

2003 Volume 14 Pages 432-433
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.432

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Analysis of Domain Combinations in Eukaryotic Genomes

Masumi Itoh, Akiyasu C. Yoshizawa, Shujiro Okuda, Susumu Goto, Minoru ...

2003 Volume 14 Pages 434-435
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.434

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Comprehensive Survey of Intracellular Transport System-Related Proteins in Complete Genomes and Draft Genomes

Akiyasu C. Yoshizawa, Masumi Itoh, Shujiro Okuda, Vachiranee Limviphuv ...

2003 Volume 14 Pages 436-437
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.436

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Extraction of Organism Groups from Whole Genome Comparisons

Yoshihiro Yamanishi, Akiyasu C. Yoshizawa, Masumi Itoh, Toshiaki Katay ...

2003 Volume 14 Pages 438-439
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.438

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Identifying Obscure Periodic Patterns in Genomic DNA Sequence

Hiroo Murakami, Natsuhiro Ichinose, Tetsushi Yada, Sachiyo Aburatani, ...

2003 Volume 14 Pages 440-441
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.440

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Distribution of Chromophore-Binding GAF Domains in Genome Sequence

Shinobu Okamoto, Masayuki Ohomori

2003 Volume 14 Pages 442-443
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.442

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Newly Identified Motifs within PAS Domains of Filamentous Cyanobacteria

Rei Narikawa, Shinobu Okamoto, Masahiko Ikeuchi, Masayuki Ohmori

2003 Volume 14 Pages 444-445
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.444

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Translational Efficiency Prediction Using Structural Learning Method

Koya Mori, Rintaro Saito, Shinichi Kikuchi, Masaru Tomita

2003 Volume 14 Pages 446-447
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.446

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Identification of Non-Coding RNAs in the Escherichia coli Genome Using Sequence Specificity Index (SSI)

Nozomu Yachie, Koji Numata, Rintaro Saito, Akio Kanai, Masaru Tomita

2003 Volume 14 Pages 448-449
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.448

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Heterogeneity in Synonymous Codon Usage among Genes of Diverse Bacterial Genomes

Haruo Suzuki, Rintaro Saito, Masaru Tomita

2003 Volume 14 Pages 450-451
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.450

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Detection of Processed Pseudogenes Based on cDNA Mapping to the Human Genome

Hiroaki Sakai, Kanako O. Koyanagi, Takeshi Itoh, Tadashi Imanishi, Tak ...

2003 Volume 14 Pages 452-453
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.452

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Improvement in the Accuracy of Gene Prediction in Human cDNA Sequences

Fusano Todokoro, Takeshi Itoh, Chisato Yamasaki, Hiroaki Kawashima, Ta ...

2003 Volume 14 Pages 454-455
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.454

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The Translated Region Inspector for cDNA Sequences

Kouichi Kimura, Tetsuo Nisikawa, Keiichi Nagai, Sumio Sugano, Nobuo No ...

2003 Volume 14 Pages 456-457
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.456

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Characterization of One-Pass and Full-Length Sequences of Oligo-Capping cDNA Clones by Genome Mapping

Tetsuo Nishikawa, Kouichi Kimura, Tomohiro Yasuda, Jun-ichi Yamamoto, ...

2003 Volume 14 Pages 458-459
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.458

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Mapping the Genome Sequences on Self Organizing Maps

Hiroshi Dozono, Hisao Tokushima, Yoshio Noguchi

2003 Volume 14 Pages 460-461
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.460

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Mapping of Artificial Nucleosome Positioning Sequences to the Saccharomyces cerevisiae Genome

Vorathaya Tantoolvesm, Satoshi Harashima, Yoichi Takenaka, Hideo Matsu ...

2003 Volume 14 Pages 462-463
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.462

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Analysis of Tandem Repeats Detected in Prokaryotic Genomes

Hikaru Munakata, Abulimiti Aimaiti, Akito Taneda, Kenji Oosawa, Toshio ...

2003 Volume 14 Pages 464-465
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.464

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Genome-Scale Detection of Tandemly-Duplicated Gene Structures

Keisuke Onishi, Hao Zhang, Takuro Tamura, Takashi Gojobori, Shintaroh ...

2003 Volume 14 Pages 466-467
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.466

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Estimation of the Number of Orphan Genes in the Genome Sequences

Satoshi Fukuchi, Ken Nishikawa

2003 Volume 14 Pages 468-469
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.468

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A Comparative Study on Formal Grammars for Pseudoknots

Yuki Kato, Hiroyuki Seki, Tadao Kasami

2003 Volume 14 Pages 470-471
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.470

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Analysis of 3'/5' Ratio of Actin and Glyceraldehyde-3-Phosphate Dehydrogenase (GAPDH)

Yasuo Oshima, Akio Fujimura

2003 Volume 14 Pages 472-473
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.472

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MGAlign, a Reduced Search Space Approach to the Alignment of mRNA Sequences to Genomic Sequences

Shoba Ranganathan, Bernett T. K. Lee, Tin Wee Tan

2003 Volume 14 Pages 474-475
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.474

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Development of Efficient Designing Method for Target Specific Probe Sets

So Young Yoo, Hyeong Jun An, Doheon Lee, Sang Yup Lee

2003 Volume 14 Pages 476-477
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.476

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IMPORT-Integrated Massive Probe's Optimal Recognition Tools

Cheng Tao Wu, Chung Ya Liao, Hung Ju Su, Shiu Chieh Lan, Yu Yu Lin, Yu ...

2003 Volume 14 Pages 478-479
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.478

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Algorithms for Computing an Optimal Protein Threading with Profiles and Distance Restraints

Tatsuya Akutsu, Morihiro Hayashida, Etsuji Tomita, Jun'ichi Suzuki, Ka ...

2003 Volume 14 Pages 480-481
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.480

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Development of Residue Look-Up Tables and Graphical Representation of Solvent Accessibility in Proteins

Shandar Ahmad, Jung-Ying Wang, M. Michael Gromiha, Hamed Fawareh, Akin ...

2003 Volume 14 Pages 482-483
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.482

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Refinement of Comparative-Modeling Structures by Multicanonical Molecular Dynamics

Wei Cao, Tohru Terada, Shugo Nakamura, Kentaro Shimizu

2003 Volume 14 Pages 484-485
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.484

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Molecular Modeling for Generation of Structural and Molecular Electronic Descriptors for QSAR Using Quantum Mechanical Semiempirical and ab initio Methods

Mohd. Shahid Khan, Zahid H. Khan

2003 Volume 14 Pages 486-487
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.486

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Maximum Likelihood Superposition of Protein Structures

Tsuyoshi Kato, Koji Tsuda, Kentaro Tomii, Kiyoshi Asai

2003 Volume 14 Pages 488-489
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.488

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Prediction from Sequence to Structure at Oligonucleotide Level by MD Simulations

Manish Biyani, Koichi Nishigaki

2003 Volume 14 Pages 490-491
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.490

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A Protein Structure Retrieval System Using Atom-Atom Bond-Line Histogram

Sung-hee Park, Soo-jun Park, Sung-hun Lee, Sun-hee Park

2003 Volume 14 Pages 492-493
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.492

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A Combined Experimental and Inferring Interactomes

Chung-Yen Lin, Chi-Shiang Cho, Li-Ming Wang, Chia-Ling Chen, Pao-Yang ...

2003 Volume 14 Pages 494-495
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.494

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Prediction of Protein-Protein Interactions from Phylogenetic Trees Using Partial Correlation Coefficient

Tetsuya Sato, Yoshihiro Yamanishi, Katsuhisa Horimoto, Hiroyuki Toh, M ...

2003 Volume 14 Pages 496-497
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.496

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Prediction of Protein Functions Based on K-Cores of Protein-Protein Interaction Networks and Amino Acid Sequences

Md. Altaf-Ul-Amine, Kensaku Nishikata, Toshihiro Korna, Teppei Miyasat ...

2003 Volume 14 Pages 498-499
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.498

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Prediction of Protein Interaction Sites and Protein-Protein Interaction Pairs Using Support Vector Machines

Asako Koike, Toshihisa Takagi

2003 Volume 14 Pages 500-501
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.500

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Support Vector Machines for Predicting Protein-Protein Interactions

Shinsuke Dohkan, Asako Koike, Toshihisa Takagi

2003 Volume 14 Pages 502-503
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.502

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Inferring Strengths of Protein-Protein Interactions Using Linear Programming

Morihiro Hayashida, Nobuhisa Ueda, Tatsuya Akutsu

2003 Volume 14 Pages 504-505
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.504

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Prediction of Residues in Protein-RNA Interaction Sites by Neural Networks

Euna Jeong, I-Fang Chung, Satoru Miyano

2003 Volume 14 Pages 506-507
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.506

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Positive Charge Cores in DNA-Binding Proteins

Kimiko Horibe, Shigeki Mitaku

2003 Volume 14 Pages 508-509
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.508

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Structure-Thermodynamic Relationship in Protein-DNA Binding: Heat Capacity Changes

Hatsuho Uedaira, Hidetoshi Kono, Prabakaran Ponraj, Koji Kitajima, Aki ...

2003 Volume 14 Pages 510-511
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.510

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Prediction of Interfaces for GPCR Oligomer

Wataru Nemoto, Hiroyuki Toh

2003 Volume 14 Pages 512-513
Published: 2003
Released on J-STAGE: July 11, 2011

DOIhttps://doi.org/10.11234/gi1990.14.512

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