Automated annotation of microbial proteomes in SWISS-PROT

Authors:
Alexandre Gattiker;Karine Michoud;Catherine Rivoire;Andrea H Auchincloss;Elisabeth Coudert;Tania Lima;Paul Kersey;Marco Pagni;Christian J. A Sigrist;Corinne Lachaize;Anne-Lise Veuthey;Elisabeth Gasteiger;Amos Bairoch
Affiliations:
SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;EMBL-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK;Swiss Institute of Bioinformatics, Swiss Institute for Experimental Cancer Research (ISREC), CH-1066 Epalinges, Lausanne, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland;SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland
Venue:
Computational Biology and Chemistry
Year:
2003

Citing 0
Cited 4

Brief Communication: FunCat functional inference with belief propagation and feature integration

Computational Biology and Chemistry
An Introduction to Metabolic Networks and Their Structural Analysis

IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
OMA, a comprehensive, automated project for the identification of orthologs from complete genome data: introduction and first achievements

RCG'05 Proceedings of the 2005 international conference on Comparative Genomics
Investigating protein domain combinations in complete proteomes

Computational Biology and Chemistry

Quantified Score

Hi-index	0.00

Visualization

Abstract

Large-scale sequencing of prokaryotic genomes demands the automation of certain annotation tasks currently manually performed in the production of the SWISS-PROT protein knowledgebase. The HAMAP project, or 'High-quality Automated and Manual Annotation of microbial Proteomes', aims to integrate manual and automatic annotation methods in order to enhance the speed of the curation process while preserving the quality of the database annotation. Automatic annotation is only applied to entries that belong to manually defined orthologous families and to entries with no identifiable similarities (ORFans). Many checks are enforced in order to prevent the propagation of wrong annotation and to spot problematic cases, which are channelled to manual curation. The results of this annotation are integrated in SWISS-PROT, and a website is provided at http://www.expasy.org/sprot/hamap/.