Site identification in high-throughput RNA-protein interaction data.
AUTHORS
Uren
PJPhilip J ,
Bahrami-Samani
E Emad ,
Burns
SC Suzanne C ,
Qiao
M Mei ,
Karginov
FV Fedor V ,
Hodges
E Emily ,
Hannon
GJ Gregory J ,
Sanford
JR Jeremy R ,
Penalva
LO Luiz O F ,
Smith
AD Andrew D .
Bioinformatics (Oxford, England). 2012 12 1; 28(23).
3013-20
- PMID: 23024010[PubMed].
- PMCID: PMC3509493.
ABSTRACT
Post-transcriptional and co-transcriptional regulation is a crucial link between genotype and phenotype. The central players are the RNA-binding proteins, and experimental technologies [such as cross-linking with immunoprecipitation- (CLIP-) and RIP-seq] for probing their activities have advanced rapidly over the course of the past decade. Statistically robust, flexible computational methods for binding site identification from high-throughput immunoprecipitation assays are largely lacking however.