Molecular Biology Databases - CNB - Protein Design Group

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• Sequence Retrieval System is a data warehouse developed by Lion and EBI• It allows the connection of related information from many databases
SEQUENCE RETRIEVAL SYSTEM• Developed at different successive institutions.• 1990 Started by Thure Etzold, at the EMBL.• 1997 EBI (Cambridge), financed in part by EMBnet.• 1998 Lion Biosciences.• It is not a database. It is a data warehouse. SRS uses flat text file versionsof many databases: EMBL, SwissProt, MEDLINE, etc., which are copiedand indexed, to allow the connection of related information from severaldatabases.• There are many mirrors installed. The most popular is, probably, the one atthe EBI.• SRS offers access to more than 700 databases.
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MOLECULAR BIOLOGYDATABASESJuan Carl
Page 3 and 4:
Ouellette, 2000
Page 5 and 6: GROWING NUMBER OF DATABASESThe numb
Page 7 and 8: HOW TO ACCESS DATABASESDatabases ar
Page 9 and 10: CONTENT OF PRIMARY DATABASESExperim
Page 11 and 12: CLASSIFICATION OF MOLECULARBIOLOGY
Page 13 and 14: DATABASE SEARCHES:QUERY TYPESTEXT Q
Page 15 and 16: DATABASE SEARCHES:QUERY TYPESQUERIE
Page 17 and 18: NUCLEOTIDE DATABASESGenBank• Main
Page 19 and 20: GENOME DATABASESEnsemblEnsembl, EBI
Page 21 and 22: GENOME DATABASESEntrez Genome• In
Page 23 and 24: GENE-CENTERED DATABASESComplete inf
Page 25 and 26: PROTEIN DATABASESNon-redundant data
Page 27 and 28: PROTEIN DATABASESUniProtKB/Swiss-Pr
Page 29 and 30: STRUCTURE DATABASESProtein Data Ban
Page 31 and 32: PROTEIN DOMAINS DATABASESProtein do
Page 33 and 34: GENE EXPRESSION DATABASESGene expre
Page 35 and 36: PATHWAY DATABASESDisplay metabolic
Page 37 and 38: ONTOLOGIES IN MOLECULAR BIOLOGYCont
Page 39 and 40: GENE ONTOLOGYDeveloped and maintain
Page 41 and 42: GenBank and EMBL● GenBank and the
Page 43 and 44: • Entrez is the indexing and data
Page 45 and 46: MAIN DATABASESACCESIBLE WITH ENTREZ
Page 47: FASTA format> essentialGIAccession.
Page 50 and 51: GBFF: FEATURESFEATURESLocation/Qual
Page 52 and 53: EMBL AND SwissProt FORMATThe field
Page 54 and 55: EMBL AND SwissProt FORMATFT source
Page 60: ACKNOWLEDGMENTSThis presentation co
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Molecular Biology Databases - CNB - Protein Design Group

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