Table 1 Characteristics of 51 informative risk loci in six cell lines
From: Capture Hi-C identifies putative target genes at 33 breast cancer risk loci
Cell line | T-47D | ZR-75-1 | Bre80a | BT-20 | MDA-MB-231 | GM06990b |
|---|---|---|---|---|---|---|
Origin | Breast | Breast | Breast | Breast | Breast | Lymphoblastoid |
Cancer/normal | Cancer | Cancer | Normal | Cancer | Cancer | Normal |
Receptor status | ER+ | ER+ | ER− | ER− | ER− | ER− |
Breast cancer subtype | Luminal | Luminal | Normal | Basal A | Basal B | N/A |
Informative loci (%) | 34 (66.7) | 38 (74.5) | 41 (80.4) | 21 (41.2) | 27 (52.9) | 23 (45.1) |
Median peaks per locus (range) | 7 (0–1,107) | 9 (0–1,744) | 10 (0–181) | 0 (0–246) | 1 (0–466) | 0 (0–155) |
Median distance between interacting fragmentsc (kb) | 1392 | 1647 | 349 | 338 | 388 | 534 |
Number (%) of peaks >2000 kb | 1453 (35.4) | 1417 (36.4) | 94 (7.3) | 128 (9.7) | 108 (8.0) | 102 (12.5) |
