gPAR-CLIP captures known RBP crosslinking signatures. (a) Overlap of crosslinking sites identified in Puf3p PAR-CLIP and wild-type (WT) gPAR-CLIP. Puf3p PAR-CLIP crosslinking sites with >1% T-to-C conversion rate (Additional file 8) were considered captured by gPAR-CLIP if at least 50% of their nucleotides overlapped with a WT gPAR-CLIP crosslinking site with FDR <1%. (b) Identification of known Puf3p binding sites on COX17 mRNA in WT gPAR-CLIP and Puf3p PAR-CLIP. (c-e) Aggregate gPAR-CLIP crosslinking site coverage of the first 300 nucleotides of 2,626 annotated 5' UTRs (c), 51 annotated ribosomal gene introns centered at the branch point (BP) 3' end (d), and 4,241 3' UTRs centered on the poly(A) junction (e).
Freeberg et al. Genome Biology 2013 14:R13 doi:10.1186/gb-2013-14-2-r13