Genomic Databases and Resources

There are many genomic databases for the several organisms we study. A few organisms, like humans and fruitflies, have quite a few more than one! Happily, this reflects more a diversity of special interests and initiatives, rather than an abundance of competition. Unhappily, the number of databases, and the variety of interfaces to them, poses an overwhelming burden of learning on the casual user.

One solution to this diversity of database access tools has been to devise versions that can be used via the World Wide Web. Once comfortable using the WWW, most of us can get adequate results from our queries in acceptably short times - usually only minutes.

Below we've compiled a list (constantly growing, with your help) of all the genetic and genomic databases accessible through the World Wide Web. They are arranged alphabetically by Genus species (plus a common name index) with small descriptive phrases next to those of special interest.

World Wide Web links to Genomic Databases and Resources

Genus species listing(see common name INDEX below)

  1. Aedes aegypti:
    • AaeDB: Aedes aegypti Genome Database.

  2. Anopheles gambiae:

  3. Arabidopsis thaliana:
    • AAtDB: An Arabidopsis thaliana Database. Also a list of other Arabidopsis links.
    • AAtDB: Agis Database.
    • AIMS: Arabidopsis Information Management System.

  4. Bacillus subtilis:

  5. Bos taurus:

  6. Brachydanio rerio:

  7. Caenorhabditis elegans:

  8. Candida albicans:

  9. Canis familiaris:

  10. Chlamydomonas reinhardtii:

  11. Chicken:

  12. Drosophila melanogaster:

  13. Eschericia coli:
    • ECDC: E.coli database collection.
    • CGSC: E.coli Genetic Stock Center.

  14. Genus species:
    • AGsDB: WWW interface to the data contained in AGsDB, A Genus species DataBase.
    • AGsDB: Agis Database.
        Note:: this database includes the following organisms:
      • Aspergillus nidulans
      • Bos taurus
      • Gossypium hirsutum
      • Homo sapiens
      • Neurospora crassa
      • Saccharomyces cerevisiae
      • Schizosaccharomyces pombe
      • Sorghum bicolor
      • Zea mays

  15. Gossypium hirsutum:

  16. Glycine max, G. soja, etc.:

  17. Homo sapiens:
    • OMIM: The original Online Mendelian Inheritance in Man database, at NCBI.
    • IGD: Integrated genome database, a joint project between DKFZ, CNRS, ICRF, LBL, MRC and WIS.
    • CPL Query: a uniform query language interface to distributed heterogeneous data sources of biological interest.
    • dbEST Search: Expressed Sequence Tags from GenBank.
    • Chr3: Sybase Chromosome 3 Database at UTHSCSA Genome Center.
    • Chr5:
        Note:: to get to chromosome 5 from the LBL-HGC Syndb gateway page, first "Perform a tace style Query of Syndb". Next, enter the search keywords: "classes", then choose "Map", and finally "Ch5.Human"
    • Chr8: Chromosome 8 workshop.
    • Chr9: Chromosome 9 workshop.
    • Chr12: The Chromosome 12 Genome Center.
    • Chr16: Chromosome 16 database queries at the Center for Human Genome Studies Los Alamos National Laboratory.
    • Chr19: Chromosome 19 at LLNL Human Genome Center.
    • Chr21: Agis database.
    • 21Bdb:
        Note:: to get to chromosome 21 from the LBL-HGC Syndb gateway page, first "Perform a tace style Query of Syndb". Next, enter the search keywords: "classes", then choose "Map", and finally "21.LBL"
    • Chr22: The Database of the Philadelphia Genome Center for Chromosome 22.
    • ChrX:
    • Human Genome News:

  18. Mus musculus:
    • MGD: The Mouse Genome Database.
    • MLC:
    • Chr?: W3 interface to LBL's ACeDB-style database, Syndb.
        Note:: to get to the mouse chromosome of your choice from the LBL-HGC Syndb gateway page, first "Perform a tace style Query of Syndb". Next, enter the search keywords: "classes", then choose "Map", and finally "Ch?.Mouse"

  19. M. leprae, M. tuberculosis:

  20. Oryza longistaminata, O. sativa:

  21. Phaseolus ssp.:

  22. Pinus ssp., Populus ssp., etc.:

  23. Saccharomyces cerevisiae:

  24. Schizosaccharomyces pombe:

  25. Sheep:

  26. Solanaceae ssp.:

  27. Sorghum ssp.:

  28. Swine:

  29. Triticum ssp.:

  30. Zea mays:

Common name INDEX