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TLFAM--a new set of protein family databases.

Authors
Type
Published Article
Journal
Omics : a journal of integrative biology
Publication Date
Volume
6
Issue
1
Pages
35–37
Identifiers
PMID: 11881833
Source
Medline
License
Unknown

Abstract

PFAM is a popular and effective database of Hidden Markov Models (HMMs), which represent a wide range of protein families. Here, we introduce TLFAM as a more specific set of HMM databases. Analyses of bacterial genomes using TLFAM-Pro show better scores, E-values, and alignment lengths than those using the more generalized PFAM. Since PFAM will still find hits that TLFAM-Pro will not, we recommend that they be used jointly, rather than exclusively. This method provides the best features of both databases. This method has been extended to a number of other organism types, such as archaea, and the databases are freely available to interested researchers.

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