Automated annotation of microbial proteomes in SWISS-PROT.
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/.
Gattiker
Alexandre
A
SWISS-PROT Group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH-1211 Geneva 4, Switzerland. gattiker@isb-sib.ch
Michoud
Karine
K
Rivoire
Catherine
C
Auchincloss
Andrea H
AH
Coudert
Elisabeth
E
Lima
Tania
T
Kersey
Paul
P
Pagni
Marco
M
Sigrist
Christian J A
CJ
Lachaize
Corinne
C
Veuthey
Anne Lise
AL
Gasteiger
Elisabeth
E
Bairoch
Amos
A
D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000145:classification* / Q000502:physiology*; D003628:Database Management Systems / Q000592:standards / Q000639:trends*; D030562:Databases, Protein / Q000145:classification* / Q000592:standards*; D016680:Genome, Bacterial; D008969:Molecular Sequence Data; D020543:Proteome / Q000145:classification* / Q000502:physiology*
D001426:Bacterial Proteins; D020543:Proteome