Table 1.
Comparison of WT ERα, KIKO ERα. and PR ChIP-seq called peaks
| Sample “X” | No. of Peaks in Sample X | No of Peaks in Sample Y (%) |
|||||
|---|---|---|---|---|---|---|---|
| 1-h V WT ERα | 1-h E2 WT ERα | 1-h V KIKO ERα | 1-h E2 KIKO ERα | 1-h V WT PR | 1-h P4 WT PR | ||
| 1-h V WT ERα | 5496 | − | 3992 (72.6) | 1125 (20.5) | 2596 (47.2) | 1169 (21.3) | 1133 (20.6) |
| 1-h E2 WT ERα | 20792 | 3968 (19.1) | − | 1352 (6.5) | 5629 (27.1) | 1549 (7.4) | 2090 (10.1) |
| 1-h V KIKO ERα | 2908 | 1124 (38.7) | 1360 (46.8) | − | 2037 (70) | 723 (24.9) | 838 (28.8) |
| 1-h E2 KIKO ERα | 18990 | 2580 (13.6) | 5605 (29.5) | 2025 (10.7) | − | 1938 (10.2) | 4021 (21.2) |
| 1-h V WT PR | 3541 | 1169 (33.0) | 1558 (44.0) | 720 (20.3) | 1947 (55.0) | − | 2133 (60.2) |
| 1-h P4 WT PR | 12590 | 1136 (9.0) | 2095 (16.6) | 835 (6.6) | 4051 (32.2) | 2132 (16.9) | − |
| 1-h E2 WT ERα selective | 15163 | − | − | − | − | − | 586 (4.0) |
| 1-h E2 KIKOERα selective | 13385 | − | − | − | − | − | 2468 (18.0) |
| 1-h E2 WT ERα +1-h E2 KIKO ERα | 5605 | − | − | − | − | − | 1388 (25.0) |
Comparing WT ERα, KIKO ERα, and WT PR ChIP-seq peaks reveals KIKO ERα selective enriched sites and overlap with PR enriched regions. Peaks (% of total peaks) from different samples that share one or more genomic bases in common are considered overlapping peaks. Of the peaks called in sample X, how many (what % of X) overlap with a peak called in sample Y? Note that the reciprocal comparisons should be very similar, but perhaps not identical because 1 peak from sample X might overlap with 2 peaks in sample Y, which is counted as 1 for X vs Y, but as 2 for Y vs X. Most overlapping peaks share the majority of their genomic range. One-hour E2 WT or KIKO ERα selective peaks are those that do not overlap with each other (total peaks minus overlapping peaks). Comparisons in bold type are discussed in the text.