TBestDB

Other names: Protist EST Program Database, PEP Database, PEPdb

The TBestDB (a Taxonomically Broad EST database) database contains ~370,000 clustered EST sequences from 49 organisms, covering a taxonomically broad range of poorly studied, mainly unicellular eukaryotes, and includes experimental information, consensus sequences, gene annotations and metabolic pathway predictions. Most of these ESTs have been generated by the Protist EST Program, a collaboration among six Canadian research groups. EST sequences are read from trace files up to a minimum quality cut-off, vector and linker sequence is masked, and the ESTs are clustered using phrap. The resulting consensus sequences are automatically annotated by the AutoFACT program. The datasets are automatically checked for clustering errors due to chimerism and potential cross-contamination between organisms, and suspect data are flagged in or removed from the database. Access to data deposited in TBestDB by individual users can be restricted to those users for a limited period. With this first report on TBestDB, we open the database to the research community for free processing, annotation, interspecies comparisons and GenBank submission of EST data generated in individual laboratories. For instructions on submission to TBestDB, contact [email protected]. The database can be queried at http://tbestdb.bcm.umontreal.ca/.

Webpage:
http://tbestdb.bcm.umontreal.ca/searches/welcome.php

Licence:
Name: Public Domain
URL: http://tbestdb.bcm.umontreal.ca/searches/login.php

Tags:

genomics unicellular eukaryotes genome rna cdna cdna libraries expressed sequence tag (est) sequences gene gene-ontology genetics genomics pathway predictions protein-protein-interaction sequence annotations taxon

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