Summary of allelic chromatin reorganization at multiple scales
| Haplotype-resolved characteristicsa | Measurements | Paired tissues | Parent of origin | Parental breed | ||||
|---|---|---|---|---|---|---|---|---|
| Liver | Muscle | Brain | Liver | Muscle | Brain | |||
| Hi-C contact map | Similarity (QuASAR)b | ∼0.86 | 0.98 | 0.98 | 0.98 | 0.97 | 0.98 | 0.98 |
| Compartment | A/B switched regions (Mb)c | ∼224.51 | 4.52 | 6.90 | 12.50 | 18.86 | 12.52 | 17.20 |
| A/B variable regions (Mb)d | / | 4.52 | 4.88 | 4.22 | 61.42 | 29.30 | 14.80 | |
| TAD | No. of shifted boundaries | ∼184 | 1 | 2 | 2 | 0 | 0 | 0 |
| PEI | No. of genes with differential RPSe | ∼4865 | 397 | 327 | 242 | 532 | 538 | 489 |
-
aSee also Supplemental Tables S1–S9.
-
bCorrelations of haplotype-resolved Hi-C maps were determined using QuASAR scores. For similarity measurements in GenomeDISCO and HiCRep, see Supplemental Figure S8, Q through S.
-
cRegions showing distinct compartment status (i.e., from A [positive value of A-B index] to B [negative value of A-B index], or from B to A) as A/B switched regions.
-
dRegions showing the same compartment status but with the variable compartment scores (|ΔA-B index| > 0.5 and P < 0.05, paired Student's t-test) as A/B variable regions.
-
eSignificant RPS changes in genes between pairwise tissues (|ΔRPS| > 3) and between parents of origin (|ΔRPS| > 0.3), or between breeds (|ΔRPS| > 0.3) were determined by paired Student's t-test (P < 0.05) and |ΔRPS|.
