UniPROBE

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

References in zbMATH (referenced in 3 articles )

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  1. Abdollahyan, Maryam; Elgar, Greg; Smeraldi, Fabrizio: Identifying potential regulatory elements by transcription factor binding site alignment using partial order graphs (2018)
  2. Pesch, Robert: Cross-species network and transcript transfer (2016)
  3. Robasky, Kimberly; Bulyk, Martha L.: Uniprobe, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions (2011) ioport