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Biodatabases

Biodatabases. WWW. Deposit before you publish Literature. Google (v). From noun to verb How does PageRank work?. NCBI-EMBL-DBJ. National Center for Biotechnology Information http://www.ncbi.nlm.nih.gov/ European Molecular Biology Lab http://www1.embl-heidelberg.de/

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Biodatabases

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  1. Biodatabases

  2. WWW • Deposit before you publish • Literature

  3. Google (v) • From noun to verb • How does PageRank work?

  4. NCBI-EMBL-DBJ • National Center for Biotechnology Informationhttp://www.ncbi.nlm.nih.gov/ • European Molecular Biology Labhttp://www1.embl-heidelberg.de/ • DNA Data Bank Japanrhttp://www.ddbj.nig.ac.jp/

  5. Protein databases • Protein Data Bank (PDB)http://www.rcsb.org/pdb/ • Swiss Prot / trEMBLhttp://us.expasy.org/sprot/

  6. Tigr • The Institute for Genomic Research (microbes)http://www.tigr.org/

  7. Rna databases • Small Rna databasehttp://mbcr.bcm.tmc.edu/smallRNA/smallrna.html • rRna databasehttp://rrna.uia.ac.be/ • Ribosomal databasehttp://rdp.cme.msu.edu/html/

  8. KEGG • Kyoto encyclopedia of genes and genomes • http://www.genome.ad.jp/kegg/kegg2.html

  9. Medline • http://www.ncbi.nlm.nih.gov/PubMed/ • Medline citations

  10. Entrez • http://www.ncbi.nlm.nih.gov/Entrez/ • Retrieval from multiple databases

  11. Omim • http://www.ncbi.nlm.nih.gov/omim/ • Human genes and genetic disorders

  12. Nucleic Acids Research • Nucleic Acids Research (DB issue)http://nar.oupjournals.org/content/vol31/issue1/index.shtml

  13. Sequence Retrieval System • http://srs.embl-heidelberg.de:8000/srs5/

  14. Automated retrieval • How do you do a large number of queries?

  15. Bio-GIGO? • ‘Genome’ (s) vs. diverse genetic pool • Errors or snp’s? • Duplicate, overlapping and contradictory data

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