Table 1 Wild-type (WT) model TAD interaction parameters and the effects of their variations on WT Chromatin (CHR) distribution and Chromosome arms contacts
Interaction type | WT value | Change | Effect on WT Chromatin (CHR) distribution and the WT LAD fraction (0.25) at the NE | Intra/Inter-arm contacts changes |
|---|---|---|---|---|
+1 kT (+ 25%) | 60% increase of LAD fraction at NE (to 0.4), | Intra (+/− −), Inter (−) | ||
L-TAD–NE | 46% increase of CHR density peak at NE. | |||
(LAD-NL) | 4 kT | − 1 kT (− 25%) | 60% decrease of LAD fraction at NE (to 0.1), | Intra (+ +/−), Inter (+) |
Affinity | 43% decrease of CHR density at WT peak, | |||
peak disappears (Additional file 1: Fig. S7, top panel). | ||||
+ 1 kT (+ 67%) | 36% decrease of LAD fraction at NE (to 0.16), | Intra (+ + +), Inter (++) | ||
Null-Null | 1.5 kT | 0.6 \(\mu\)m shift of CHR density peak from NE. | ||
− 1.4 kT (− 93%) | Minor changes in CHR density profile (Additional file 1: Fig. S7). | Intra (− −), Inter (−) | ||
PcG-PcG | 1.5 kT | − 1.4 kT (− 93%) | Minor changes in CHR density profile. | Intra (+/− −), Inter (−) |
HP1-HP1 | 1.5 kT | N/A | Not explored | |
Active-Active | 0.1 kT | + 0.4 kT (+ 400%) | No change in CHR density profile. | Intra (+/−), Inter (+/−) |
Cross-type | 0.5 kT | + 0.5 kT (+ 100%) | Minor change in CHR density profile (Fig. 6). | Intra (+ + +), Inter (+ +) |