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Genome Information Science

Research Project

Project/Area Number 12207001
Research Category

Grant-in-Aid for Scientific Research on Priority Areas

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionThe University of Tokyo

Principal Investigator

TAKAGI Toshihisa  The University of Tokyo, Graduate School of Frontier Sciences, Professor, 大学院新領域創成科学研究科, 教授 (30110836)

Co-Investigator(Kenkyū-buntansha) MIYANO Satoru  The University of Tokyo, The Institute of Medical Science, Professor, 医科学研究所, 教授 (50128104)
MITAKU Shigeki  Nagoya University, Department of Applied Physics, Professor, 大学院工学研究科, 教授 (10107542)
MORISHITA Shinichi  The University of Tokyo, Graduate School of Frontier Sciences, Professor, 大学院新領域創成科学研究科, 教授 (90292854)
GO Michiko  Nagahama Institute of Bio-Science and Technology, Department of Bioscience, Professor, バイオサイエンス学部, 教授 (70037290)
OKAMOTO Masahiro  Kyushu University, Graduate School of Systems Life Sciences, Professor, 大学院農学研究院, 教授 (40211122)
中井 謙太  東京大学, 医科学研究所, 助教授 (60217643)
Project Period (FY) 2000 – 2005
Project Status Completed (Fiscal Year 2005)
Budget Amount *help
¥1,184,700,000 (Direct Cost: ¥1,184,700,000)
Fiscal Year 2005: ¥3,000,000 (Direct Cost: ¥3,000,000)
Fiscal Year 2004: ¥196,800,000 (Direct Cost: ¥196,800,000)
Fiscal Year 2003: ¥305,100,000 (Direct Cost: ¥305,100,000)
Fiscal Year 2002: ¥258,300,000 (Direct Cost: ¥258,300,000)
Fiscal Year 2001: ¥421,500,000 (Direct Cost: ¥421,500,000)
Keywordsgenome information science / bioinformatics / genome ontology / information extraction from literature / data mining from genome databases / structural genomics / gene networks / protein interaction analyses / 知識発見 / タンパク質立体構造予測
Research Abstract

This team was established to operate the research project "Genome Information Science" smoothly and organically, and thereby promote the research and bioinformatics. Its function includes sharing information with other related national projects and institutions.
Events that we organized during the budget term of the project were International Ontology Workshops, Joint meetings by the four projects funded by Grant-in-Aid concerning genome research, Genome HIROBA (public relations activities), International Conference on Genome Informatics.
In addition, we held Genome Literacy Seminars with Japan Science and Technology Agency. Also, our activities were distribution of DVDs introducing genome research to educationists and other related people, organization of Bioinformatics Programming Contests to cultivate prospective people, publication of the databases and the analysis tools on the Internet, and server setup for publishing the research outputs.
Three committees were organized for promoting research and sharing information among the related people: Ontology Development Committee, Software Speeding-up and Sharing Committee, and Committee on Circulating Information of and Evaluating Prediction of Protein 3D Structure.

Report

(7 results)
  • 2005 Annual Research Report   Final Research Report Summary
  • 2004 Annual Research Report
  • 2003 Annual Research Report
  • 2002 Annual Research Report
  • 2001 Annual Research Report
  • 2000 Annual Research Report
  • Research Products

    (143 results)

All 2005 2004 2003 2002 2001 2000 Other

All Journal Article (105 results) Book (7 results) Patent(Industrial Property Rights) (4 results) Publications (27 results)

  • [Journal Article] Automatic extraction of gene/protein biological functions from biomedical text2005

    • Author(s)
      Koike, A., (Takagi, T.)
    • Journal Title

      Bioinformatics 21(7)

      Pages: 1227-1236

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] ALICE : An algorithm to extract abbreviations from MEDLINE2005

    • Author(s)
      Ao, H., (Takagi, T.)
    • Journal Title

      Journal of American Medical Informatics Association 12

      Pages: 576-586

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Electric charge balance in extended soluble proteins2005

    • Author(s)
      Uchikoga, N., (Mitaku, S.)
    • Journal Title

      Protein Science 14(1)

      Pages: 74-80

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Automatic extraction of gene/protein biological functions from biomedical text2005

    • Author(s)
      Koike, A., Niwa, Y., Takagi, T.
    • Journal Title

      Bioinformatics 21(7)

      Pages: 1227-1236

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] ALICE : An algorithm to extract abbreviations from MEDLINE2005

    • Author(s)
      Ao, H., Takagi, T.
    • Journal Title

      J.Am.Med.Inform.Assoc. 12

      Pages: 576-586

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Electric charge balance in extended soluble proteins2005

    • Author(s)
      Uchikoga, N.et al.(Mitaku, S.)
    • Journal Title

      Protein Science 14(1)

      Pages: 74-80

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] ALICE : An Algorithm to Extract Abbreviations from MEDLINE2005

    • Author(s)
      Ao, H.
    • Journal Title

      Journal of American Medical Informatics Association 12(5)

      Pages: 576-586

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Research on Bilogical Pathways Peculiar to Woody Perennial Plants Using a Pathway Database : P-INOH2005

    • Author(s)
      Kushida, T.
    • Journal Title

      Knowledge Discovery and Data Management in Biomedical Science (KDDMBS)

      Pages: 56-67

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Automatic Extraction of Gene/Protein Biological Functions from Biomedical Text2005

    • Author(s)
      Koike, A.
    • Journal Title

      Bioinformatics 21(7)

      Pages: 1227-1236

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Cancer Gene Expression Database (CGED) : A Database for Gene Expression Profiling with Accompanying Clinical Information of Human Cancer Tissues2005

    • Author(s)
      Kato, K.
    • Journal Title

      Nucleic Acids Research 33

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Electric charge balance in extended soluble proteins2005

    • Author(s)
      Uchikoga, N.
    • Journal Title

      Protein Science 14(1)

      Pages: 74-80

    • Related Report
      2004 Annual Research Report
  • [Journal Article] A pathway editor for literature-based knowledge curation2004

    • Author(s)
      Fukuda, K-I., (Takagi, T.)
    • Journal Title

      Conferences in Research and Practice in Information Technology 29

      Pages: 339-344

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Prediction of protein-protein interaction sites using support vector machines2004

    • Author(s)
      Koike, A., (Takagi, T.)
    • Journal Title

      Protein Engineering Design and Selection 17(2)

      Pages: 165-173

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] PRIME : automatically extracted PRotein Interactions and Molecular Information databasE2004

    • Author(s)
      Koike, A., (Takagi, T.)
    • Journal Title

      In Silico Biology 5

      Pages: 9-20

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Automatic extraction of biological functions using semi-automatically gathered biological terms, development and applications of ontology on OMICS rearch2004

    • Author(s)
      Koike, A., (Takagi, T.)
    • Journal Title

      The Third Workshop on Ontology and Genome

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Prediction of protein-protein interactions using support vector machines2004

    • Author(s)
      Dohkan, S., (Takagi, T.)
    • Journal Title

      In Proceedings of the Fourth IEEE Symposium on BioInformatics and BioEngineering (BIBE2004)

      Pages: 576-584

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Integrative annotation of 21,037 human genes validated by full-length cDNA clones2004

    • Author(s)
      Imanishi, T., (Takagi, T.)
    • Journal Title

      PLoS BIOLOGY 2(6)

      Pages: 1-20

    • NAID

      120004667172

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Gene/protein/family name recognition in biomedical literature, linking biological literature, ontologies and databases : tools for users2004

    • Author(s)
      Koike, A., (Takagi, T.)
    • Journal Title

      Workshop in Conjunction with NAACL/ HLT 2004

      Pages: 9-16

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Predicting rules on organization of cis-regulatory elements, taking the order of elements into account2004

    • Author(s)
      Terai, G., (Takagi, T.)
    • Journal Title

      Bioinformatics 20(7)

      Pages: 1119-1128

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Computing highly specific and noise tolerant oligomers efficiently2004

    • Author(s)
      Yamada, T., (Morishita, S.)
    • Journal Title

      Journal of Bioinformatics and Computational Biology 2(1)

      Pages: 21-46

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Het-PDB Navi. : a database for protein-small molecule interactions2004

    • Author(s)
      Yamaguchi, A., (Go, M.)
    • Journal Title

      Journal of Biochemistry 135(1)

      Pages: 79-84

    • NAID

      10016197573

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Combining microarrays and biological knowledge for estimating gene networks via Bayesian networks2004

    • Author(s)
      Imoto, S., (Miyano, S.)
    • Journal Title

      Journal of Bioinformatics and Computational Biology 2(1)

      Pages: 77-98

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Structure and function of a family 10 beta-xylanase chimera of streptomyces olivaceoviridis E-86 FXYN and cellulomonas fimi cex.2004

    • Author(s)
      Kaneko, S., (Go, M.)
    • Journal Title

      Journal of Biological Chemistry 279(25)

      Pages: 26619-26626

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] A pathway editor for literature-based knowledge curation2004

    • Author(s)
      Fukuda, K-I., Takagi, T.
    • Journal Title

      Conferences in Research and Practice in Information Technology 29

      Pages: 339-344

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Prediction of protein-protein interaction sites using support vector machines2004

    • Author(s)
      Koike, A., Takagi, T.
    • Journal Title

      Protein Engineering Design and Selection 17(2)

      Pages: 165-173

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] PRIME : automatically extracted PRotein Interactions and Molecular Information databasE2004

    • Author(s)
      Koike, A., Takagi, T.
    • Journal Title

      In Silico Biology 5

      Pages: 9-20

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Automatic extraction of biological functions using semi-automatically gathered biological terms, development and applications of ontology on OMICS research2004

    • Author(s)
      Koike, A., Niwa, Y., Takagi, T.
    • Journal Title

      The Third Wordshop on Ontology and Genome

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Prediction of protein-protein interactions using support vector machines2004

    • Author(s)
      Dohkan, S., Koike, A., Takagi, T.
    • Journal Title

      In Proceedings of the Fourth IEEE Symposium on Bioinformatics and BioEngineering(BIBE2004)

      Pages: 576-584

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Integrative annotation of 21,037 human genes validated by full-length cDNA clones2004

    • Author(s)
      Imanishi, T., Takagi, T.et al.
    • Journal Title

      PLoS BIOLOGY 2(6)

      Pages: 1-20

    • NAID

      120004667172

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Gene/protein/family name recognition in biomedical literature, linking biological literature, ontologies and databases : tools for users2004

    • Author(s)
      Koike, A., Takagi, T.
    • Journal Title

      Workshop in conjunction with NAACL/ HLT 2004

      Pages: 9-16

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Predicting rules on organization of cis-regulatory elements, taking the order of elements into account2004

    • Author(s)
      Terai, G., Takagi, T.
    • Journal Title

      Bioinformatics 20(7)

      Pages: 1119-1128

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Computing highly specific and noise tolerant oligomers efficiently,2004

    • Author(s)
      Yamada, T.et al.(Morishita, S.)
    • Journal Title

      Journal of Bioinformatics and Computational Biology 2(1)

      Pages: 21-46

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Het-PDB Navi. : a database for protein-small molecule interactions2004

    • Author(s)
      Yamaguchi, A.et al.(Go, M.)
    • Journal Title

      J.Biochem. 135(1)

      Pages: 79-84

    • NAID

      10016197573

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Combining microarrays and biological knowledge for estimating gene networks via Bayesian networks2004

    • Author(s)
      Imoto, S.et al.(Miyano, S.)
    • Journal Title

      Journal of Bioinformatics and Computational Biology 2(1)

      Pages: 77-98

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Structure and function of a family 10 beta-xylanase chimera of streptomyces olivaceoviridis E-86 FXYN and cellulomonas fimi cex.2004

    • Author(s)
      Kaneko, S.et al.(Go, M.)
    • Journal Title

      Journal of Biological Chemistry 279(25)

      Pages: 26619-26626

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Computational molecular biology : an introduction2004

    • Author(s)
      Peter Clote(Takagi, T., Translation Supervisor)
    • Journal Title

      Kyoritsu Shuppan

      Pages: 272-272

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Bioinformatics lectures in University of Tokyo2004

    • Author(s)
      Takagi, T.(Ed.)
    • Journal Title

      Yodosha

      Pages: 140-140

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Predicting rules on organization of cis-regulatory elements, taking the order of elements into account2004

    • Author(s)
      Terai, G.
    • Journal Title

      Bioinformatics 20(7)

      Pages: 1119-1128

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Prediction of protein-protein interaction sites using support vector machines2004

    • Author(s)
      Koike, A.
    • Journal Title

      Protein Engineering Design and Selection 17(2)

      Pages: 165-173

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Combining microarrays and biological knowledge for estimating gene networks via Bayesian networks2004

    • Author(s)
      Imoto, S.
    • Journal Title

      Journal of Bioinformatics and Computational Biology 2(1)

      Pages: 77-98

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Computing Highly Specific and Noise Tolerant Oligomers Efficiently2004

    • Author(s)
      Yamada, T.
    • Journal Title

      Journal of Bioinformatics and Computational Biology 2(1)

      Pages: 21-46

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Structure and function of a family 10 beta-xylanase chimera of Streptomyces olivaceoviridis E-86 FXYN and Cellulomonas fimi Cex.2004

    • Author(s)
      Kaneko, S.
    • Journal Title

      Journal of Biological Chemistry 279(25)

      Pages: 26619-26626

    • Related Report
      2004 Annual Research Report
  • [Journal Article] FREX : a query interface for biological processes with a hierarchical and recursive structures2003

    • Author(s)
      Fukuda, K-I., (Takagi, T.)
    • Journal Title

      In Silico Biology 4

      Pages: 63-79

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Melina : a web server for motif extraction from promoter regions of potentially co-regulated genes2003

    • Author(s)
      Poluliakh, N., (Nakai, K.)
    • Journal Title

      Bioinformatics 19(3)

      Pages: 423-424

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Kinase pathway database : an integrated protein-kinase and NLP-based protein-interaction resource2003

    • Author(s)
      Koike, A., (Takagi, T.)
    • Journal Title

      Genome Research 13(6A)

      Pages: 1231-1243

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] DIGIT : a novel gene finding program by combining gene-finders2003

    • Author(s)
      Yada, T., (Takagi, T.)
    • Journal Title

      Proc. Pacific Sympo. on Biocomputing 8

      Pages: 375-387

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Inferring gene regulatory networks from time-ordered gene expression data of Bacillus subtilis using differential equations2003

    • Author(s)
      De Hoon, M., (Miyano, S.)
    • Journal Title

      Pacific Symposium on Biocomputing 8

      Pages: 17-28

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Enlarged FAMSBASE : 3D protein structure models of genome sequences for 41 species2003

    • Author(s)
      Yamaguchi, A., (Go, M.)
    • Journal Title

      Nucleic Acids Research 31(1)

      Pages: 463-468

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Inferring gene networks from time series microarray data using dynamic bayesian networks2003

    • Author(s)
      Kim, S., (Miyano, S.)
    • Journal Title

      Briefings in Bioinformatics 4(3)

      Pages: 228-235

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Common pattern of coarse-grained charge distribution of structurally analogous proteins2003

    • Author(s)
      Imai, K., (Mitaku, S.)
    • Journal Title

      Chem-Bio Informatics Journal 3(4)

      Pages: 194-200

    • NAID

      130004138152

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] 実数値GAのバイオ分野への応用 : 大規模遺伝子ネットワークの相互作用推定2003

    • Author(s)
      岡本正宏
    • Journal Title

      人工知能学会誌 18(5)

      Pages: 502-509

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] FREX : a query interface for biological processes with a hierarchical and recursive structures2003

    • Author(s)
      Fukuda, K-I., Yamagata, Y., Takagi, T.
    • Journal Title

      In Silico Biology 4

      Pages: 63-79

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Melina : a web server for motif extraction from promoter regions of potentially co-regulated genes2003

    • Author(s)
      Poluliakh, N., Takagi, T., Nakai, K.
    • Journal Title

      Bioinformatics 19(3)

      Pages: 423-424

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Kinase pathway database : an integrated protein-kinase and NLP-based protein-interaction resource2003

    • Author(s)
      Koike, A., Kobayashi, Y., Takagi, T.
    • Journal Title

      Genome Res. 13(6A)

      Pages: 1231-1243

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] DIGIT : a novel gene finding program by combining gene-finders2003

    • Author(s)
      Yada, T., Totoki, Y., Takaeda, Y., Sakaki, Y., Takagi, T.
    • Journal Title

      Proc. Pacific Sympo. on Biocomputing '03 8

      Pages: 375-387

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Inferring gene regulatory networks from time-ordered gene expression data of Bacillus subtilis using differential equations2003

    • Author(s)
      De Hoon, M.et al.(Miyano, S.)
    • Journal Title

      Pacific Symposium on Biocomputing 8

      Pages: 17-28

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Enlarged FAMSBASE : 3D protein structure models of genome sequences for41 species2003

    • Author(s)
      Yamaguchi, A.et al.(Go, M.)
    • Journal Title

      Nucleic Acids Research 31(1)

      Pages: 463-468

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Inferring gene networks from time series microarray data using dynamic Bayesian networks2003

    • Author(s)
      Kim, S.et al.(Miyano, S.)
    • Journal Title

      Briefings in Bioinformatics 4(3)

      Pages: 228-235

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Common pattern of coarse-grained charge distribution of structurally analogous proteins2003

    • Author(s)
      Imai, K.et al.(Mitaku, S.)
    • Journal Title

      Chem-Bio Informatics Journal 3(4)

      Pages: 194-200

    • NAID

      130004138152

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Application of real-coded genetic algorithms to biology : prediction of large scale genetic network interactions2003

    • Author(s)
      Okamoto, M. et al.
    • Journal Title

      Journal of the Japanese Society for Artificial Intelligence 18(5)

      Pages: 502-509

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Series of applied life sciences(9) Bioinformatics2003

    • Author(s)
      Mitaku, S., Sakaki, Y.(Ed.)(Takagi, T.)
    • Journal Title

      Tokyo Kagaku Dojin

      Pages: 195-195

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] The origin and evolution of eukaryotic protein kinases2002

    • Author(s)
      Koike, A., (Takagi, T.)
    • Journal Title

      Genome Lett. 1 (2)

      Pages: 83-104

    • NAID

      130003997079

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] JSNP : a database of common gene variations in the Japanese population2002

    • Author(s)
      Hirakawa, M., (Takagi, T.)
    • Journal Title

      Nucleic Acids Res. 30

      Pages: 158-162

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Extensive feature detection of N-terminal protein sorting signals2002

    • Author(s)
      Bannai, H., (Miyano, S.)
    • Journal Title

      Bioinformatics 18(2)

      Pages: 298-305

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Computing optimal hypotheses efficiently for boosting2002

    • Author(s)
      Morishita, S.
    • Journal Title

      Progresses in Discovery Science

      Pages: 471-481

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Amphiphilicity index of polar amino acids as an aid in the characterization of amino acid preference at membrane-water interfaces2002

    • Author(s)
      Mitaku, S.
    • Journal Title

      Bioinformatics 18(4)

      Pages: 608-616

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Answering the most correlated n association rules efficiently2002

    • Author(s)
      Sese, J., (Morishita, S.)
    • Journal Title

      Proc. of 6th European Conference on Principles and Practice of Knowledge Discovery in Databases (PKDD'02)

      Pages: 410-422

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] BEST-KIT : development of biochemical engineering system analyzing tool-kit2002

    • Author(s)
      Shimonobou, T., (Okamoto, M.)
    • Journal Title

      Proc. of Intl. Symposium on Design, Operation and Control of Chemical Processes (PSE, Asia 2002)

      Pages: 357-362

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] The origin and evolution of eukaryotic protein kinases2002

    • Author(s)
      Koike, A., Nakai, K., Takagi, T.
    • Journal Title

      Genome Lett. 1(2)

      Pages: 83-104

    • NAID

      130003997079

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] JSNP : a database of common gene variations in the Japanese population2002

    • Author(s)
      Hirakawa, M., Tanaka, T., Hashimoto, Y., Kuroda, M., Takagi, T., Nakamura, Y.
    • Journal Title

      Nucleic Acids Res. 30

      Pages: 158-162

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Extensive feature detection of N-terminal protein sorting signals2002

    • Author(s)
      Bannai, H.et al.(Miyano, S.)
    • Journal Title

      Bioinformatics 18(2)

      Pages: 298-305

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Computing optimal hypotheses efficiently for boosting2002

    • Author(s)
      Morishita, S. et al.
    • Journal Title

      Progresses in Discovery Science

      Pages: 471-481

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Amphiphilicity index of polar amino acids as an aid in thecharacterization of amino acid preference at membrane-water interfaces2002

    • Author(s)
      Mitaku, S. et al.
    • Journal Title

      Bioinformatics 18(4)

      Pages: 608-616

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Answering the most correlated n association rules efficiently2002

    • Author(s)
      Sese, J.et al.(Morishita, S.)
    • Journal Title

      Proc. of 6th European Conference on Principles and Practice of Knowledge Discovery in Databases (PKDD'02)

      Pages: 410-422

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] BEST-KIT : development of biochemical engineering system analyzing tool-kit2002

    • Author(s)
      Shimonobou, T.et al.(Okamoto, M.)
    • Journal Title

      Proc.of Intl. Symposium on Design, Operation and Control of Chemical Processes (PSE, Asia 2002)

      Pages: 357-362

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Introduction of Biological Experiment for Bioinformatics2002

    • Author(s)
      Takagi, T.(Ed.)
    • Journal Title

      Yodosha

      Pages: 215-215

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Knowledge representation of signal transduction pathways2001

    • Author(s)
      Fukuda, K., (Takagi, T.)
    • Journal Title

      Bioinformatics 17

      Pages: 829-837

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Automated extraction of information on protein interactions from the biological Literature2001

    • Author(s)
      Ono, T., (Takagi, T.)
    • Journal Title

      Bioinformatics 17

      Pages: 155-161

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Assessment of prediction accuracy of protein function from protein-protein interaction data2001

    • Author(s)
      Hishigaki, H., (Takagi, T.)
    • Journal Title

      Yeast 18(6)

      Pages: 523-531

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Signal transduction pathways and logical inferences2001

    • Author(s)
      Fukuda, K., (Takagi, T.)
    • Journal Title

      METMBS2001

      Pages: 297-303

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Bodymap incorporated PCR-based expression profiling data and a gene ranking system2001

    • Author(s)
      Sese, J., (Morishita, S.)
    • Journal Title

      Nucleic Acids Research 29

      Pages: 156-158

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Mutational analysis of genes involved in pilus structure, motility and transformation competency in the unicellular motile cyanobacterium synechocystis sp. PCC 68032001

    • Author(s)
      Yoshihara, S., (Go, M.)
    • Journal Title

      Plant & Cell Physiology 42

      Pages: 63-73

    • NAID

      10007423308

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Prediction of in vivo fates of proteins in the era of genomics and proteomics2001

    • Author(s)
      Nakai, K.
    • Journal Title

      Journal of Structural Biology 134(2/3)

      Pages: 103-116

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Variable subunit contact and cooperativity of hemoglobins2001

    • Author(s)
      Shionyu, M., (Go, M.)
    • Journal Title

      Journal of Molecular Evolution 53(4/5)

      Pages: 416-429

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Development of a system for the inference of large scale genetic networks2001

    • Author(s)
      Maki, Y., (Okamoto, M.)
    • Journal Title

      Pacific Symposium on Biocomputing 2001 (PSB2001)

      Pages: 446-458

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Knowledge representation of signal transduction pathways2001

    • Author(s)
      Fukuda, K., Takagi, T.
    • Journal Title

      Bioinformatics 17

      Pages: 829-837

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Automated extraction of information on protein interactions from the biological Literature2001

    • Author(s)
      Ono, T., Hishigaki, H., Tanigami, A., Takagi, T.
    • Journal Title

      Bioinformatics 17

      Pages: 155-161

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Assessment of prediction accuracy of protein function from protein-protein interaction data2001

    • Author(s)
      Hishigaki, H., Nakai, K., Ono, T., Tanigami, A., Takagi, T.
    • Journal Title

      Yeast 18(6)

      Pages: 523-531

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Signal transduction pathways and logical inferences2001

    • Author(s)
      Fukuda, K., Takagi, T.
    • Journal Title

      METMBS2001

      Pages: 297-303

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Bodymap incorporated PCR-based expression profiling data and a gene ranking system2001

    • Author(s)
      Sese, J.et al.(Morishita, S.)
    • Journal Title

      Nucleic Acids Research 29

      Pages: 156-158

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Mutational analysis of genes involved in pilus structure, motility and transformation competency in the unicellular motile cyanobacterium synechocystis sp. PCC 68032001

    • Author(s)
      Yoshihara, S.et al.(Go, M.)
    • Journal Title

      Plant& Cell Physiology 42

      Pages: 63-73

    • NAID

      10007423308

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Prediction of in vivo fates of proteins in the era of genomics and proteomics2001

    • Author(s)
      Nakai, K. et al.
    • Journal Title

      Journal of Structural Biology 134(2/3)

      Pages: 103-116

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Variable subunit contact. and cooperativity of hemoglobins2001

    • Author(s)
      Shionyu, M.et al.(Go, M.)
    • Journal Title

      Journal of Molecular Evolution 53(4/5)

      Pages: 416-429

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Development of a system for the inference of large scale genetic networks2001

    • Author(s)
      Maki, Y.et al.(Okamoto, M.)
    • Journal Title

      Pacific Symposium on Biocomputing 2001 (PSB2001)

      Pages: 446-458

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Inferring genetic networks from DNA microarray data by multiple regression analysis2000

    • Author(s)
      Kato, M., (Takagi, T.)
    • Journal Title

      Genome Informatics Workshop 2000

      Pages: 118-128

    • NAID

      130003996840

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] PNAD-CSS : a workbench for constructing a protein name abbreviation dictionary2000

    • Author(s)
      Yoshida, M., (Takagi, T.)
    • Journal Title

      Bioinformatics 169(2)

      Pages: 169-175

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Protein sorting signals and prediction of subcellular localization2000

    • Author(s)
      Nakai, K.
    • Journal Title

      Advances in Protein Chemistry 54

      Pages: 277-344

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Polynomial-time learning of elementary formal systems2000

    • Author(s)
      Miyano, S.
    • Journal Title

      New Generation Computing 18

      Pages: 217-242

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Efficient numerical optimization algorithm based on genetic algorithm for inverse problem2000

    • Author(s)
      Tominaga, D., (Okamoto, M.)
    • Journal Title

      Proceedings of Genetic and Evolutionary Computation Conference (GECCO2000)

      Pages: 251-258

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Inferring genetic networks from DNA microarray data by multiple regression analysis2000

    • Author(s)
      Kato, M., Tsunoda, T., Takagi, T.
    • Journal Title

      GIW2000

      Pages: 118-128

    • NAID

      130003996840

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] PNAD-CSS : a workbench for constructing a protein name abbreviation dictionary2000

    • Author(s)
      Yoshida, M., Fukuda, K., Takagi T.
    • Journal Title

      Bioinformatics 169(2)

      Pages: 169-175

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Protein sorting signals and prediction of subcellular localization2000

    • Author(s)
      Nakai, K. et al.
    • Journal Title

      Advances in Protein Chemistry 54

      Pages: 277-344

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Polynomial-time learning of elementary formal systems2000

    • Author(s)
      Miyano, S. et al.
    • Journal Title

      New Generation Computing 18

      Pages: 217-242

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Efficient numerical optimization algorithm based on genetic algorithm for inverse problem2000

    • Author(s)
      Tominaga, D.et al.(Okamoto, M.)
    • Journal Title

      Proceedings of Genetic and Evolutionary Computation Conference(GECCO2000)

      Pages: 251-258

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Genome Information Biology2000

    • Author(s)
      Takagi, T. (Ed.)
    • Journal Title

      Nakayama Shoten

      Pages: 210-210

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Book] Genome Informatics 20052005

    • Author(s)
      Edited by Takagi, T. et al.
    • Total Pages
      293
    • Publisher
      Universal Academy Press, Inc.
    • Related Report
      2005 Annual Research Report
  • [Book] 統計物理化学から学ぶバイオインフォマティクス2004

    • Author(s)
      Peter Clote, (高木利久 監訳)
    • Total Pages
      272
    • Publisher
      共立出版
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Book] 東京大学バイオインフォマティクス集中講義2004

    • Author(s)
      監修 高木利久
    • Total Pages
      140
    • Publisher
      羊土社
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Book] 東京大学バイオインフォマティクス集中講義2004

    • Author(s)
      高木利久 監修
    • Total Pages
      140
    • Publisher
      羊土社
    • Related Report
      2004 Annual Research Report
  • [Book] 応用生命科学シリーズ(9)バイオインフォマティクス2003

    • Author(s)
      美宅成樹, 榊佳之 編, (高木利久)
    • Total Pages
      195
    • Publisher
      東京化学同人
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Book] これからのバイオインフォマティクスのためのバイオ実験入門2002

    • Author(s)
      高木利久 監修
    • Total Pages
      215
    • Publisher
      羊土社
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Book] ゲノム情報生物学2000

    • Author(s)
      高木 利久(編集)
    • Total Pages
      210
    • Publisher
      中山書店
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Patent(Industrial Property Rights)] 略字情報抽出方法2003

    • Inventor(s)
      青 裕子, 高木利久
    • Industrial Property Number
      2003-184378
    • Filing Date
      2003-06-27
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Patent(Industrial Property Rights)] 文献データ検索方法及びプログラム2003

    • Inventor(s)
      青 裕子, 高木利久
    • Industrial Property Number
      2003-184379
    • Filing Date
      2003-06-27
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Patent(Industrial Property Rights)] 情報抽出方法及び記録媒体2000

    • Inventor(s)
      小林義行, 高木利久他
    • Industrial Property Number
      2000-217036
    • Filing Date
      2000-07-18
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Patent(Industrial Property Rights)] 遺伝子ネットワーク研究支援システム及び方法2000

    • Inventor(s)
      吉田美寸夫, 高木利久他
    • Industrial Property Number
      2000-284612
    • Filing Date
      2000-09-20
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Publications] Koike, A.: "Kinase Pathway Database : An integrated protein-kinase and NLP-based protein-interaction resource"Genome Research. 13. 1231-1243 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Kim, S.: "Inferring gene networks from time series microarray data using dynamic Bayesian networks"Briefings in Bioinformatics. 4(3). 228-235 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Imai, K.: "Common Pattern of Coarse-Grained Charge Distribution of Structurally Analogous Proteins"Chem-Bio Informatics Journal. 3(4). 174-200 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Yamada, T.: "Computing Highly Specific and Noise Tolerant Oligomers Efficiently"Journal of Bioinformatics and Computational Biology. (印刷中). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Yamaguchi, A.: "Het-PDB Navi : A Database for Protein-Small Molecule Interactions"J.Biochem. 135(1). 79-84 (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] 岡本正宏: "実数値GAのバイオ分野への応用:大規模遺伝子ネットワークの相互作用推定"人工知能学会誌. 18(5). 502-509 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] 美宅成樹, 榊佳之編: "応用生命科学シリーズ9 バイオインフォマティクス"東京化学同人. 195 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Poluliakh, N.: "MELINA : motif extraction from promoter regions of potentially co-regulated genes"Bioinformatics. 19(3). 423-424 (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] De Hoon, M.: "Inferring gene regulatory networks from time-ordered gene expression date of Bacillus subtilis using differential equations"Pacific Symposium on Biocomputing. 8. 17-28 (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] Mitaku, S.: "Amphiphilicity index of polar amino acids as an aid in the characterization of amino acid preference at membrane-water interfaces"Bioinformatics. 18(4). 608-616 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Sese, J.: "Answering the most correlated n association rules efficiently"Proc. of 6th European Conference on Principles and Practice of Knowledge Discovery in Databases (PKDD'02). 410-422 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Yamaguchi, A.: "Enlarged FAMSBASE : 3D protein structure models of genome sequences for 41 species"Nucleic Acids Research. 31(1). 463-468 (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] Shimonobou, T.: "BEST-KIT : development of biochemical engineering system analyzing tool-kit"Proc. of Intl. Symposium on Design, Operation and Control of Chemical Processes (PSE, Asia 2002). 357-362 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 高木利久 監修: "これからのバイオインフォマティクスのためのバイオ実験入門"羊土社. 215 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Fukuda, K.: "Knowledge representation of signal transduction pathways"Bioinformatics. 17. 829-837 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Nakai, K.: "Prediction of in vivo fates of proteins in the era of genomics and proteomics"Journal of Structural Biology. 134(2/3). 103-116 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Bannai, H.: "Extensive feature detection of N-terminal protein sorting signals"Bioinformatics. 18(2). 298-305 (2002)

    • Related Report
      2001 Annual Research Report
  • [Publications] Morishita, S.: "Computing optimal hypotheses efficiently for boosting"Progresses in Discovery Science. (印刷中). (2002)

    • Related Report
      2001 Annual Research Report
  • [Publications] Shionyu, M.: "Variable subunit contact and cooperativity of hemoglobins"Journal of Molecular Evolution. 53(4/5). 416-429 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Maki, Y.: "Development of a system for the inference of large scale genetic networks"Pacific Symposium on Biocomputing 2001 (PSB2001). 446-458 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Ono,T.: "Automated extraction of information on protein-protein interactions from biological literature"Bioinformatics. (印刷中). (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] Sese,J.: "Bodymap incorporated PCR-based expression profiling data and a gene ranking system"Nucleic Acids Research. 29. 156-158 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] Nakai,K.: "Protein sorting signals and prediction of subcellular localization"Advances in Protein Chemistry. 54. 277-344 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] Miyano,S.: "Polynomial-time learning of elementary formal systems"New Generation Computing. 18. 217-242 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] Yoshihara,S.: "Mutational analysis of genes involved in pilus structure, motility and transformation competency in the unicellular motile cyanobacterium synechocystis sp.PCC 6803"Plant & Cell Physiology. 42. 63-73 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] Tominaga,D.: "Efficient numerical optimization algorithm based on genetic algorithm for inverse problem"Proceedings of Genetic and Evolutionary Computation Conference (GECCO2000). 251-258 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] 高木利久(編集): "ゲノム情報生物学"中山書店. 210 (2000)

    • Related Report
      2000 Annual Research Report

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Published: 2001-04-01   Modified: 2018-03-28  

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