JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update

• Published in: Nucleic acids research Vol. 36; no. suppl-1; pp. D102 - D106
• Main Authors: Bryne, Jan Christian, Valen, Eivind, Tang, Man-Hung Eric, Marstrand, Troels, Winther, Ole, da Piedade, Isabelle, Krogh, Anders, Lenhard, Boris, Sandelin, Albin
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 01.01.2008; Oxford Publishing Limited (England)
• Subjects: Access to Information; Animals; Binding Sites; Computational Biology; Data Interpretation, Statistical; Databases, Nucleic Acid; Humans; Internet; Models, Genetic; Promoter Regions, Genetic; Regulatory Elements, Transcriptional; RNA Splice Sites; Software; Transcription Factors - metabolism; User-Computer Interface
• ISSN: 0305-1048; 1362-4962
• DOI: 10.1093/nar/gkm955

JASPAR is a popular open-access database for matrix models describing DNA-binding preferences for transcription factors and other DNA patterns. With its third major release, JASPAR has been expanded and equipped with additional functions aimed at both casual and power users. The heart of the JASPAR database--the JASPAR CORE sub-database--has increased by 12% in size, and three new specialized sub-databases have been added. New functions include clustering of matrix models by similarity, generation of random matrices by sampling from selected sets of existing models and a language-independent Web Service applications programming interface for matrix retrieval. JASPAR is available at http://jaspar.genereg.net.