PT  - JOURNAL ARTICLE
AU  - Jing Zhang
AU  - Jason Liu
AU  - Donghoon Lee
AU  - Jo-Jo Feng
AU  - Lucas Lochovsky
AU  - Shaoke Lou
AU  - Michael Rutenberg-Schoenberg
AU  - Mark Gerstein
TI  - RADAR: annotation and prioritization of variants in the post-transcriptional regulome of RNA-binding proteins
AID  - 10.1101/474072
DP  - 2018 Jan 01
TA  - bioRxiv
PG  - 474072
4099  - http://biorxiv.org/content/early/2018/11/19/474072.short
4100  - http://biorxiv.org/content/early/2018/11/19/474072.full
AB  - RNA-binding proteins (RBPs) play key roles in post-transcriptional regulation and disease. Their binding sites cover more of the genome than coding exons; nevertheless, most noncoding variant-prioritization methods only focus on transcriptional regulation. Here, we integrate the portfolio of ENCODE-RBP experiments to develop RADAR, a variant-scoring framework. RADAR uses conservation, RNA structure, network centrality, and motifs to provide an overall impact score. Then it further incorporates tissue-specific inputs to highlight disease-specific variants. Our results demonstrate RADAR can successfully pinpoint variants, both somatic and germline, associated with RBP-function dysregulation, that cannot be found by most current prioritization methods, for example variants affecting splicing.RBPRNA binding Protein;ENCODEthe Encyclopedia of DNA Elements;PWMposition weight matrix;eCLIPenhanced crosslinking and immunoprecipitation;RADARRNA BinDing Protein regulome Annotation and pRioritization;UTRuntranslated regions;DAFderived allele frequency;RBNSRNA Bind-N-Seq.