Nucleic Acids Research Advance Access originally published online on November 26, 2007
Nucleic Acids Research 2008 36(Database issue):D281-D288; doi:10.1093/nar/gkm960
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Nucleic Acids Research, 2008, Vol. 36, Database issue D281-D288
© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]
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The Pfam protein families database
1Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton Hall, Hinxton, Cambridgeshire, CB10 1SA, UK, 2Howard Hughes Medical Institute Janelia Farm Research Campus, 19700 Helix Drive, Ashburn, VA 20147, USA and 3Stockholm Bioinformatics Center, Albanova, Stockholm University, SE-10691 Stockholm, Sweden
*To whom correspondence should be addressed. Tel: +44 1223 495330; Fax: +44 1223 494919; Email: rdf{at}sanger.ac.uk
Received September 15, 2007. Revised October 10, 2007. Accepted October 16, 2007.
Pfam is a comprehensive collection of protein domains and families, represented as multiple sequence alignments and as profile hidden Markov models. The current release of Pfam (22.0) contains 9318 protein families. Pfam is now based not only on the UniProtKB sequence database, but also on NCBI GenPept and on sequences from selected metagenomics projects. Pfam is available on the web from the consortium members using a new, consistent and improved website design in the UK (http://pfam.sanger.ac.uk/), the USA (http://pfam.janelia.org/) and Sweden (http://pfam.sbc.su.se/), as well as from mirror sites in France (http://pfam.jouy.inra.fr/) and South Korea (http://pfam.ccbb.re.kr/).
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K. Forslund and E. L. Sonnhammer Benchmarking homology detection procedures with low complexity filters Bioinformatics, October 1, 2009; 25(19): 2500 - 2505. [Abstract] [Full Text] [PDF]
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M. Liu, X.-w. Chen, and R. Jothi Knowledge-guided inference of domain-domain interactions from incomplete protein-protein interaction networks Bioinformatics, October 1, 2009; 25(19): 2492 - 2499. [Abstract] [Full Text] [PDF]
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J. P. C. da Cunha, P. A. F. Galante, J. E. de Souza, R. F. de Souza, P. M. Carvalho, D. T. Ohara, R. P. Moura, S. M. Oba-Shinja, S. K. N. Marie, W. A. Silva Jr, et al. Bioinformatics construction of the human cell surfaceome PNAS, September 29, 2009; 106(39): 16752 - 16757. [Abstract] [Full Text] [PDF]
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D. Albanesi, M. Martin, F. Trajtenberg, M. C. Mansilla, A. Haouz, P. M. Alzari, D. de Mendoza, and A. Buschiazzo Structural plasticity and catalysis regulation of a thermosensor histidine kinase PNAS, September 22, 2009; 106(38): 16185 - 16190. [Abstract] [Full Text] [PDF]
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