Table 1. List of human RBPs, their number of target transcripts and source of CLIP data.
RBP | # targets | Source of CLIP-Seq data (References) |
---|---|---|
AGO1 | 17,206 | 67,68 |
AGO2 | 64,425 | 67, 68, 69, 70, 71, 72, 73, 74, 75, 76 |
AGO3 | 5,849 | 67 |
AGO4 | 1,517 | 67 |
ALKBH5 | 1,685 | 77 |
ATXN2 | 6,715 | 78 |
C17ORF85 | 2,199 | 77 |
CAPRIN1 | 7,506 | 77 |
CPSF1 | 9,132 | 79 |
CPSF2 | 1,813 | 79 |
CPSF3 | 2,832 | 79 |
CPSF4 | 3,486 | 79 |
CPSF6 | 38,973 | 79 |
CPSF7 | 45,556 | 79 |
CSTF2 | 36,829 | 79,80 |
CSTF2T | 32,893 | 79 |
DGCR8 | 14,587 | 81 |
EIF4A3 | 35,729 | 82 |
ELAVL1 | 55,432 | 69,83, 84, 85 |
EWSR1 | 6,702 | 86,87 |
EZH2 | 116 | 88 |
FBL | 4,019 | 89 |
FIP1L1 | 34,643 | 79 |
FMR1 | 10,732 | 90 |
FUS | 2,150 | 87,91,92 |
FXR1 | 2,940 | 90 |
FXR2 | 9,230 | 90 |
HNRNPA1 | 9,587 | 93 |
HNRNPA2B1 | 2,013 | 93 |
HNRNPC | 18,806 | 94,95 |
HNRNPD | 6,121 | 96 |
HNRNPF | 3,461 | 93 |
HNRNPH | 3,608 | 97 |
HNRNPM | 3,051 | 93 |
HNRNPU | 10,318 | 93,98 |
IGF2BP1 | 15,328 | 67 |
IGF2BP2 | 10,668 | 67 |
IGF2BP3 | 10,022 | 67 |
LIN28A | 16,860 | 42,99 |
LIN28B | 21,277 | 99,100 |
MOV10 | 7,523 | 101 |
NOP56 | 2,007 | 89 |
NOP58 | 7,879 | 89 |
NUDT21 | 40,541 | 79 |
PTBP1 | 25,385 | 102,103 |
PTBP2 | 16,956 | 102,103 |
PUM2 | 1,938 | 67 |
QKI | 1,358 | 67 |
RTCB | 6,376 | 77 |
SRRM4 | 10,026 | 103 |
TAF15 | 3,197 | 87,104 |
TARDBP | 12,138 | 105 |
TIA1 | 11,977 | 106 |
TIAL1 | 23,854 | 106 |
TNRC6A | 828 | 67 |
TNRC6B | 643 | 67 |
TNRC6C | 859 | 67 |
WDR33 | 1,626 | 107 |
YTHDF2 | 15,474 | 108 |
ZC3H7B | 13,294 | 77 |
Table shows a list of all the 60 RBPs employed in the analysis, the number of transcripts targeted by each of them and references to the studies which provide the CLIP-Seq data28. This list was generated by mapping the binding sites of each RBP with exonic coordinates and obtaining the corresponding transcripts of the mapped exons.