Table 1. Main characteristics of transient H3K9me2 blocks (dLOCKs) with strongest variations among myeloid cells.
dLOCK category | alpha | % of the genome | average dLOCK size, bp | number of genes | number of dLOCKs | gene density/ genome average | enriched genomic features (alpha > 0.99; alpha <0.01) | fold enrichment |
---|---|---|---|---|---|---|---|---|
CD34+ >Granulocyte | ||||||||
35. Histone H3K27me3 | 2.6 | |||||||
>0.99 | 3.21% | 487549 | 724 | 204 | 1.1 | 47. cancer SNV AML | 2.46 | |
>0.95 | 9.48% | 287959 | 2742 | 1019 | 1.04 | 3. Poised Promoter | 2.17 | |
>0.90 | 13.97% | 212223 | 4760 | 2038 | 1.01 | 37. histone H3K9me1 | 1.72 | |
8. Insulator | 1.59 | |||||||
Granulocyte > CD34+ | ||||||||
15. Repetitive CNV | 1.76 | |||||||
< 0.01 | 5.54% | 695121 | 1063 | 248 | 0.76 | 47. cancer SNV AML | 1.72 | |
< 0.05 | 15.17% | 381246 | 2523 | 1236 | 0.74 | 38. histone H3K9me3 Peaks | 1.7 | |
< 0.10 | 20.96% | 263351 | 3568 | 2471 | 0.73 | 14. Repetitive CNV | 1.56 | |
CD34+ > AML | 15. Repetitive CNV | 2.67 | ||||||
12. Repressed Chromatin | 2.14 | |||||||
42. HAIBMethylRRBS sites Rep2 | 1.95 | |||||||
>0.99 | 4.35% | 698394 | 1278 | 193 | 0.87 | 41. HAIBMethylRRBS sites Rep1 | 1.94 | |
>0.95 | 12.20% | 393652 | 3610 | 961 | 0.83 | 35. Histone H3K27me3 | 1.87 | |
>0.90 | 17.46% | 281713 | 5264 | 1921 | 0.84 | 47. cancer SNV AML | 1.8 | |
14. Repetitive CNV | 1.79 | |||||||
43. CpG Islands | 1.6 | |||||||
3. Poised Promoter | 1.5 | |||||||
AML > CD34+ | ||||||||
< 0.01 | 3.91% | 446827 | 545 | 271 | 1 | 47. cancer SNV AML | 1.92 | |
< 0.05 | 11.72% | 268043 | 2030 | 1354 | 1.03 | 44. vistaEnhancers | 1.86 | |
< 0.10 | 17.52% | 200314 | 3400 | 2707 | 1 | 50. AML chromosome translocations | 1.72 | |
Granulocyte > AML | ||||||||
>0.99 | 5.77% | 931140 | 1362 | 193 | 0.81 | 15. Repetitive CNV | 2.62 | |
>0.95 | 15.31% | 493223 | 3057 | 965 | 0.71 | 47. cancer SNV AML | 1.67 | |
>0.90 | 21.01% | 338224 | 4133 | 1931 | 0.71 | 14. Repetitive CNV | 1.66 | |
AML > Granulocyte | 12. Repressed Chromatin | 2.64 | ||||||
35. Histone H3K27me3 | 2.31 | |||||||
< 0.01 | 3.84% | 484980 | 746 | 245 | 1.23 | 47. cancer SNV AML | 1.78 | |
< 0.05 | 11.20% | 281623 | 2953 | 1232 | 1.17 | 37. histone H3K9me1 | 1.74 | |
< 0.10 | 16.81% | 211270 | 4959 | 2465 | 1.13 | 3. Poised Promoter | 1.69 | |
7. WeakEnhancer | 1.6 | |||||||
19. DNase Clustered | 1.53 |
Chromosomal domains with strongest changes in H3K9me2 Sum Log Ratio were determined for the six comparative categories of H3K9me2 dLOCKs: high in CD34+ vs. granulocyte (CD34+ > Granulocyte); high in granulocytes vs. CD34+ (Granulocyte > CD34+); high in CD34+ vs. AML cluster A (CD34+ > AML); high in AML cluster A vs. CD34+ (AML > CD34+); and high in granulocytes vs. AML A (CD34+ > AML); high in AML cluster A vs. granulocytes (AML > Granulocytes). Percent of the human genome, average LOCK size, total number of genes in dLOCKs, total number of dLOCKs, and average genes/dLOCKs are shown for each category with alpha > 0.90, 0.95, 0.99 and alpha < 0.10, 0.05, 0.01. Selected genomic features enriched more than 1.5 fold are shown for each category with alpha > 0.99 and alpha < 0.01. For genomic references (as numbered) and other enrichment data see Materials and Methods and S6 Table.