Table 2 Down- and upregulated genes in scc1-73 cells are associated with a specific chromatin structure at promoters and cohesin peaks, respectively
From: Crosstalk between chromatin structure, cohesin activity and transcription
|
OPN promoter (544) |
DPN promoter (494) |
Closed promoter (1646) |
Open promoter (3586) |
FN promoter (1953) |
SN promoter (3066) |
RSC-binding promoter (239) |
Scc2- binding promoter (199) |
TATA-containing (1090) |
SAGA-dominated (577) |
TFIID-dominated (5130) |
Mediator-dominated (315)* |
NuA4- dominated (500)* |
SWR1- dominated (462) |
Scc1-binding promoter (2417) | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| scc1-73 Up-reg. (569) | |||||||||||||||
| Overlap. | 57 | 51 | 149 | 373 | 222 | 300 | 15 | 16 | 85 | 50 | 467 | 29 | 92 | 41 | 298 |
| Obs/exp (p val) |
1.2 (0.015) |
1.2 (0.021) |
1.06 (0.026) |
1.22
(1.3e−10) |
1.34
(3.5e−8) |
1.15
(9e−5) |
0.74 (0.045) |
0.95 (0.1) |
0.92 (0.03) |
1.02 (0.06) |
1.07
(2.1e−4) |
1.08 (0.07) |
2.25
(1e−14) |
1.04 (0.06) |
1.45
(4.9e−17) |
| scc1-73 Down-reg. (445) | |||||||||||||||
| Overlap. | 93 | 27 | 153 | 246 | 212 | 202 | 36 | 15 | 166 | 103 | 307 | 53 | 25 | 48 | 136 |
| Obs/exp (p val) |
2.56
(8.8e−19) |
0.83 (0.017) |
1.4
(4.3e−7) |
1 (0.03) |
1.63
(7.7e−18) |
0.99 (0.039) |
2.26
(1.5e−6) |
1.13 (0.095) |
2.29
(4.2e−29) |
2.68
(2e−22) |
0.9
(2.7e−5) |
2.53
(9.8e−11) |
0.78 (0.02) |
1.56
(5e−4) |
0.85 (1.6e−3) |