Mus musculus in the SWISS-PROT database: Its relevance to developmental research
✍ Scribed by Michele Magrane; Rolf Apweiler
- Publisher
- John Wiley and Sons
- Year
- 2000
- Tongue
- English
- Weight
- 235 KB
- Volume
- 26
- Category
- Article
- ISSN
- 1526-954X
No coin nor oath required. For personal study only.
✦ Synopsis
Due to the large-scale sequencing and mapping effort being carried out in relation to Mus musculus, it has been selected as a model organism in SWISS-PROT for priority annotation. This means that we aim to be as complete as possible with new sequences and updates added quickly, and cross-references provided to the Mouse Genome Database. SWISS-PROT mouse entries contain a large amount of information, including data relating specifically to developmental proteins such as the function of these proteins and at what stages of development they are expressed. The SWISS-PROT database, therefore, offers a number of features that are specifically useful in the context of modern developmental research and is a valuable resource for those working in the field. The database can be accessed at http:// www.ebi.ac.uk/swissprot/ and http://www.expasy.ch/ sprot/sprot-top.html.
SWISS-PROT (Bairoch and Apweiler, 1999) is a curated protein sequence database which was established in 1986 at the Department of Medical Biochemistry, University of Geneva. It is maintained collaboratively by the Swiss Institute of Bioinformatics (SIB) and the EMBL Outstation -European Bioinformatics Institute. The database distinguishes itself from other protein sequence databases on the basis of three criteria: (i) it provides a high level of annotation, (ii) it is non-redundant, and (iii) it provides a high level of integration with other databases. It is supplemented by TrEMBL (Bairoch and Apweiler, 1999), which was created due to the increasing number of sequences to be incorporated into SWISS-PROT from genome sequencing and mapping projects. TrEMBL is computer-annotated and contains translations of all coding sequences in the EMBL Nucleotide Sequence Database (Stoesser et al., 1999) that are not yet integrated into SWISS-PROT. It is subdivided into two sections: SP-TrEMBL, which contains entries that will eventually be incorporated into SWISS-PROT, and REM-TrEMBL, which contains sequences that will not. These include immunoglobulins and T-cell receptors, synthetic sequences, patent application sequences, fragments of less than 8 amino acids, and coding sequences where