MotifMap-RNA: a genome-wide map of RBP binding sites.

ABSTRACT

MOTIVATION RNA plays a critical role in gene expression and its regulation. RNA binding proteins (RBPs), in turn, are important regulators of RNA. Thanks to the availability of large scale data for RBP binding motifs and in vivo binding sites results in the form of eCLIP experiments, it is now possible to computationally predict RBP binding sites across the whole genome. RESULTS: We describe MotifMap-RNA, an extension of MotifMap which predicts binding sites for RBP motifs across human and mouse genomes and allows large scale querying of predicted binding sites. AVAILABILITY AND IMPLEMENTATION The data and corresponding web server are available from http//motifmap-rna.ics.uci.edu/ as part of the MotifMap web portal. CONTACT rspitale@uci.edu or pfbaldi@uci.edu. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.