Automatically extracting functionally equivalent proteins from SwissProt

McMillan, L. E.M. and Martin, A. C.R. (2008) Automatically extracting functionally equivalent proteins from SwissProt. BMC Bioinformatics, 9, p. 418. (doi: 10.1186/1471-2105-9-418)

Abstract

In summary, FOSTA provides an automated analysis of annotations in UniProtKB/Swiss-Prot to enable groups of proteins already annotated as functionally equivalent, to be extracted. Our results demonstrate that the vast majority of UniProtKB/Swiss-Prot functional annotations are of high quality, and that FOSTA can interpret annotations successfully. Where FOSTA is not successful, we are able to highlight inconsistencies in UniProtKB/Swiss-Prot annotation. Most of these would have presented equal difficulties for manual interpretation of annotations. We discuss limitations and possible future extensions to FOSTA, and recommend changes to the UniProtKB/Swiss-Prot format, which would facilitate text-mining of UniProtKB/Swiss-Prot.

• Item Type: Articles
• Status: Published
• Refereed: Yes
• Glasgow Author(s) Enlighten ID: Hopcroft, Dr Lisa
• Authors: McMillan, L. E.M., and Martin, A. C.R.
• College/School: College of Medical Veterinary and Life Sciences > School of Cancer Sciences
• Journal Name: BMC Bioinformatics
• Publisher: Biomed Central
• ISSN: 1471-2105
• Copyright Holders: Copyright © 2008 The Authors
• First Published: First published in BMC Bioinformatics 9:418
• Publisher Policy: Reproduced under a Creative Commons License