Extended Data Fig. 3: Comparison of PRIM-seq and eCLIP data.
From: Genome-wide mapping of RNA-protein associations through sequencing
(a) Binding profiles of RPS3, FUS, SRSF1, and TAF15 on the TARDBP RNA comparing PRIM-seq (red tracks), eCLIP (green tracks), and eCLIP peaks called with Size‐matched Input (SMInput) controls (green bars beneath eCLIP tracks). Five binding sites shared by all four RBPs are consistently detected in both methods. Arrows mark notable site-specific differences: (1) a site bound by RPS3, FUS, and SRSF1 (but not TAF15); (2) a site bound by RPS3, FUS, and TAF15 (but not SRSF1); and (3) a site bound exclusively by FUS. Conversely, eCLIP identified a binding site for RPS3 not detected by PRIM-seq (Arrow 4). (b) Similar analysis on SNRPD3 RNA, where both PRIM-seq (red) and eCLIP (green) consistently identify multiple shared binding sites.
