UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions

• Main Authors: Bulyk, Martha L. (Contributor), Robasky, Kimberly (Author)
• Other Authors: Harvard University- (Contributor)
• Format: Article
• Language: English
• Published: Oxford University Press (OUP), 2012-06-01T17:56:13Z.
• Subjects: Article
• Online Access: Get fulltext

The Universal PBM Resource for Oligonucleotide-Binding Evaluation (UniPROBE) database is a centralized repository of information on the DNA-binding preferences of proteins as determined by universal protein-binding microarray (PBM) technology. Each entry for a protein (or protein complex) in UniPROBE provides the quantitative preferences for all possible nucleotide sequence variants ('words') of length k ('k-mers'), as well as position weight matrix (PWM) and graphical sequence logo representations of the k-mer data. In this update, we describe >130% expansion of the database content, incorporation of a protein BLAST (blastp) tool for finding protein sequence matches in UniPROBE, the introduction of UniPROBE accession numbers and additional database enhancements. The UniPROBE database is available at http://uniprobe.org.
National Institutes of Health (U.S.) (grant number R01 HG003985)