Searching and Navigating UniProt Databases. Issue 1 (19th June 2015)

• Record Type: Journal Article
• Authors: Pundir, Sangya; Magrane, Michele; Martin, Maria J.; O'Donovan, Claire
• Editors: Bateman, Alex; Pearson, William R.; Stein, Lincoln D.; Stormo, Gary D.; Yates, John R.
• Is Part Of: Current protocols in bioinformatics. Volume 50:Issue 1(2015)
• Page Start: 1.27.1
• Page End: 1.27.10
• Publication Date: 2015-06-19
• Subjects: UniProt -- search -- navigation -- tutorial; Bioinformatics -- Laboratory manuals; Nucleotide sequence -- Laboratory manuals; Amino acid sequence -- Laboratory manuals; Base Sequence; Amino Acid Sequence; Computational Biology -- methods; Databases, Genetic; Proteins -- analysis; Sequence Analysis -- methods; Sequence Homology; Amino acid sequence; Bioinformatics; Nucleotide sequence; Laboratory Manuals; Laboratory manuals; 570.285
• DOI: 10.1002/0471250953.bi0127s50
• Languages: English
• ISSNs: 1934-3396

Abstract

Abstract: The Universal Protein Resource (UniProt) is a comprehensive resource for protein sequence and annotation data. The UniProt Web site receives ∼400, 000 unique visitors per month and is the primary means to access UniProt. It provides ten searchable datasets and three main tools. The key UniProt datasets are the UniProt Knowledgebase (UniProtKB), the UniProt Reference Clusters (UniRef), the UniProt Archive (UniParc), and protein sets for completely sequenced genomes (Proteomes). Other supporting datasets include information about proteins that is present in UniProtKB protein entries such as literature citations, taxonomy, and subcellular locations, among others. This paper focuses on how to use UniProt datasets. The basic protocol describes navigation and searching mechanisms for the UniProt datasets, while two alternative protocols build on the basic protocol to describe advanced search and query building. © 2015 by John Wiley & Sons, Inc.