Nucleic Acids Research, 2000, Vol. 28, No. 1 45-48
© 2000 Oxford University Press
The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland and 1The EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
SWISS-PROT is a curated protein sequence database which strives to provide a high level of annotation (such as the description of the function of a protein, its domains structure, post-translational modifications, variants, etc.), a minimal level of redundancy and high level of integration with other databases. Recent developments of the database include format and content enhancements, cross-references to additional databases, new documentation files and improvements to TrEMBL, a computer-annotated supplement to SWISS-PROT. TrEMBL consists of entries in SWISS-PROT-like format derived from the translation of all coding sequences (CDSs) in the EMBL Nucleotide Sequence Database, except the CDSs already included in SWISS-PROT. We also describe the Human Proteomics Initiative (HPI), a major project to annotate all known human sequences according to the quality standards of SWISS-PROT. SWISS-PROT is available at: http://www.expasy.ch/sprot/ and http://www.ebi.ac.uk/swissprot/
* To whom correspondence should be addressed. Tel: +41 22 702 5477; Fax: +41 22 702 5502; Email: amos.bairoch@medecine.unige.ch
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Z. Zhang, P. M. Harrison, Y. Liu, and M. Gerstein Millions of Years of Evolution Preserved: A Comprehensive Catalog of the Processed Pseudogenes in the Human Genome Genome Res., December 1, 2003; 13(12): 2541 - 2558. [Abstract] [Full Text] [PDF]
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M. S. Clark, Y. J.K. Edwards, D. Peterson, S. W. Clifton, A. J. Thompson, M. Sasaki, Y. Suzuki, K. Kikuchi, S. Watabe, K. Kawakami, et al. Fugu ESTs: New Resources for Transcription Analysis and Genome Annotation Genome Res., December 1, 2003; 13(12): 2747 - 2753. [Abstract] [Full Text] [PDF]
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 B. Eisenhaber, M. Wildpaner, C. J. Schultz, G. H.H. Borner, P. Dupree, and F. Eisenhaber Glycosylphosphatidylinositol Lipid Anchoring of Plant Proteins. Sensitive Prediction from Sequence- and Genome-Wide Studies for Arabidopsis and Rice Plant Physiology, December 1, 2003; 133(4): 1691 - 1701. [Abstract] [Full Text]
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E. Murphy, I. Rigoutsos, T. Shibuya, and T. E. Shenk Reevaluation of human cytomegalovirus coding potential PNAS, November 11, 2003; 100(23): 13585 - 13590. [Abstract] [Full Text] [PDF]
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B. de Bono and C. Chothia Exegesis: a procedure to improve gene predictions and its use to find immunoglobulin superfamily proteins in the human and mouse genomes Nucleic Acids Res., November 1, 2003; 31(21): 6096 - 6103. [Abstract] [Full Text] [PDF]
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 J. Smith, P. Watson, A. Gounaris, N. W. Paton, A. A.A. Fernandes, and R. Sakellariou Distributed Query Processing on the Grid International Journal of High Performance Computing Applications, November 1, 2003; 17(4): 353 - 367. [Abstract] [PDF]
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E. Bindewald, A. Cestaro, J. Hesser, M. Heiler, and S. C.E. Tosatto MANIFOLD: protein fold recognition based on secondary structure, sequence similarity and enzyme classification Protein Eng. Des. Sel., November 1, 2003; 16(11): 785 - 789. [Abstract] [Full Text] [PDF]
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J. L. Thomas, W. L. Duax, A. Addlagatta, S. Brandt, R. R. Fuller, and W. Norris Structure/Function Relationships Responsible for Coenzyme Specificity and the Isomerase Activity of Human Type 1 3{beta}-Hydroxysteroid Dehydrogenase/Isomerase J. Biol. Chem., September 12, 2003; 278(37): 35483 - 35490. [Abstract] [Full Text] [PDF]
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H. Mi, J. Vandergriff, M. Campbell, A. Narechania, W. Majoros, S. Lewis, P. D. Thomas, and M. Ashburner Assessment of Genome-Wide Protein Function Classification for Drosophila melanogaster Genome Res., September 1, 2003; 13(9): 2118 - 2128. [Abstract] [Full Text] [PDF]
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P. D. Thomas, M. J. Campbell, A. Kejariwal, H. Mi, B. Karlak, R. Daverman, K. Diemer, A. Muruganujan, and A. Narechania PANTHER: A Library of Protein Families and Subfamilies Indexed by Function Genome Res., September 1, 2003; 13(9): 2129 - 2141. [Abstract] [Full Text] [PDF]
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Q. Xu, W. Gao, S.-Y. Ding, R. Kenig, Y. Shoham, E. A. Bayer, and R. Lamed The Cellulosome System of Acetivibrio cellulolyticus Includes a Novel Type of Adaptor Protein and a Cell Surface Anchoring Protein J. Bacteriol., August 1, 2003; 185(15): 4548 - 4557. [Abstract] [Full Text] [PDF]
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I. Rigoutsos, P. Riek, R. M. Graham, and J. Novotny Structural details (kinks and non-{alpha} conformations) in transmembrane helices are intrahelically determined and can be predicted by sequence pattern descriptors Nucleic Acids Res., August 1, 2003; 31(15): 4625 - 4631. [Abstract] [Full Text] [PDF]
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A. J. Enright, V. Kunin, and C. A. Ouzounis Protein families and TRIBES in genome sequence space Nucleic Acids Res., August 1, 2003; 31(15): 4632 - 4638. [Abstract] [Full Text] [PDF]
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S. AlSairafi, F.-S. Emmanouil, M. Ghanem, N. Giannadakis, Y. Guo, D. Kalaitzopoulos, M. Osmond, A. Rowe, J. Syed, and P. Wendel The Design of Discovery Net: Towards Open Grid Services for Knowledge Discovery International Journal of High Performance Computing Applications, August 1, 2003; 17(3): 297 - 315. [Abstract] [PDF]
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