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Bioinformatics

Databases and Systems

  • Book
  • © 1999

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Editors:
  1. Stanley Letovsky
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Table of contents (24 chapters)

  1. Front Matter

    Pages i-vi
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  2. Introduction

    1. Introduction

      • Stanley Letovsky
      Pages 1-7

  3. Databases

    1. Front Matter

      Pages 9-9
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    2. NCBI: Integrated Data for Molecular Biology Research

      • Karl Sirotkin
      Pages 11-19

    3. Hovergen: Comparative Analysis of Homologous Vertebrate Genes

      • Laurent Duret, Guy Perrière, Manolo Gouy
      Pages 21-35

    4. WIT/WIT2: Metabolic Reconstruction Systems

      • Ross Overbeek, Niels Larsen, Natalia Maltsev, Gordon D. Pusch, Evgeni Selkov
      Pages 37-45

    5. EcoCyc: The Resource and the Lessons Learned

      • Peter D. Karp, Monica Riley
      Pages 47-62

    6. KEGG: From Genes to Biochemical Pathways

      • Minoru Kanehisa
      Pages 63-76

    7. OMIM: Online Mendelian Inheritance in Man

      • Alan F. Scott, Joanna Amberger, Brandon Brylawski, Victor A. McKusick
      Pages 77-84

    8. GDB:Integrating Genomic Maps

      • Stanley Letovsky
      Pages 85-97

    9. HGMD: The Human Gene Mutation Database

      • Michael Krawczak, Edward V. Ball, Peter Stenson, David N. Cooper
      Pages 99-104

    10. Senselab: Modeling Heterogenous Data on the Nervous System

      • Prakash Nadkarni, Jason Mirsky, Emmanouil Skoufos, Matthew Healy, Michael Hines, Perry Miller et al.
      Pages 105-118

    11. The Mouse Genome Database and The Gene Expression Database: Genotype to Phenotype

      • Janan T. Eppig, Joel E. Richardson, Judith A. Blake, Muriel T. Davisson, James A. Kadin, Martin Ringwald
      Pages 119-128

    12. The Edinburgh Mouse Atlas: Basic Structure and Informatics

      • Richard A Baldock, Christophe Dubreuil, Bill Hill, Duncan Davidson
      Pages 129-140

    13. FlyBase: Genomic and Post-Genomic Viewpoints

      • The FlyBase Consortium
      Pages 141-150

    14. MaizeDB: The Maize Genome Database

      • Mary Polacco, Ed Coe
      Pages 151-162

    15. AGIS: Using the Agricultural Genome Information System

      • Stephen M. Beckstrom-Sternberg, D. Curtis Jamison
      Pages 163-174

    16. CGSC: The E.coli Genetic Stock Center Database

      • Mary K. B. Berlyn
      Pages 175-183

  4. Systems

    1. Front Matter

      Pages 185-185
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    2. OPM: Object-Protocol Model Data Management Tools ’97

      • Victor M. Markowitz, I-Min A. Chen, Anthony S. Kosky, Ernest Szeto
      Pages 187-199
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Keywords

About this book

Bioinformatics brings computational methods to the analysis and processing of genomic data. Bioinformatics: Databases and Systems focuses on the issues of system building and data curation that dominate the day-to-day concerns of bioinformatics practitioners. Included are chapters by many of today's leading bioinformatics practitioners, describing most of the current paradigms of system building and curation, including both their strengths and weaknesses. Biological topics covered include sequence databases, metabolic pathways, phenotypes, variety collections, gene expression atlases and neuroinformatics. Species range from bacteria to mammals to plants. Software systems and technologies covered include OPM, CORBA, SRS, KLEISLI, ACEDB, Web-based integration and laboratory workflow.
Bioinformatics: Databases and Systems provides a valuable introduction for newcomers to the field, and a useful reference for veterans.

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