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


METHODS
The data and corresponding web server are available from: http://motifmap-rna.ics.uci.edu/ as part of the MotifMap web portal.


BACKGROUND
rspitale@uci.edu or pfbaldi@uci.edu.


BACKGROUND
Supplementary data are available at Bioinformatics online.
Department of Computer Science and Institute for Genomics and Bioinformatics.
Yu
Y
Liu
Department of Developmental and Cell Biology.
Sha
S
Sun
Department of Neurobiology and Behavior.
Timothy
T
Bredy
Department of Neurobiology and Behavior.
Marcelo
M
Wood
Department of Pharmaceutical Sciences and the Chao Family Comprehensive Cancer Center, University of California, Irvine, CA 92697, USA.
Robert C
RC
Spitale
Department of Computer Science and Institute for Genomics and Bioinformatics.
Pierre
P
Baldi
D000818:Animals; D001665:Binding Sites; D004247:DNA / Q000378:metabolism*; D005786:Gene Expression Regulation; D016678:Genome; D023281:Genomics / Q000379:methods*; D006801:Humans; D051379:Mice; D016601:RNA-Binding Proteins / Q000378:metabolism*; D017422:Sequence Analysis, DNA; D012984:Software
D016601:RNA-Binding Proteins; D004247:DNA