Resource
| Id | Histone_ChIP-seq/ENCSR000ATD |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR000ATD [biosample_summary="Homo sapiens HepG2" and target="H3K9me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN305JUK|/analyses/ENCAN305JUK/} has in progress subobject document {54025e8b-5cdc-47da-8a41-fc167caac0d3|/documents/54025e8b-5cdc-47da-8a41-fc167caac0d3/} audit_internal_action: Released analysis {ENCAN305JUK|/analyses/ENCAN305JUK/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_warning: PBC1 (PCR Bottlenecking Coefficient 1, M1/M_distinct) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where some reads map (M_distinct). A PBC1 value in the range 0 - 0.5 is severe bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking, and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.8 is acceptable. ENCODE processed alignments file {ENCFF828OFD|/files/ENCFF828OFD/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. audit_warning: PBC2 (PCR Bottlenecking Coefficient 2, M1/M2) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where two reads map uniquely (M2). A PBC2 value in the range 0 - 1 is severe bottlenecking, 1 - 3 is moderate bottlenecking, 3 - 10 is mild bottlenecking, > 10 is no bottlenecking. PBC2 value > 10 is recommended, but > 3 is acceptable. ENCODE processed alignments file {ENCFF828OFD|/files/ENCFF828OFD/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.20. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000ATD | float |
Histone_ChIP-seq_ENCSR000ATD |
Histone_ChIP-seq ENCSR000ATD [biosample_summary="Homo sapiens HepG2" and target="H3K9me3"]
|
 |
[1.59, 18.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 191010749 | 5.94% | 148030 |
| chr1 | 12520951 | 5.03% | 10165 |
| chr2 | 17804440 | 7.35% | 13946 |
| chr3 | 8431856 | 4.25% | 6952 |
| chr4 | 12419764 | 6.53% | 10604 |
| chr5 | 11973155 | 6.60% | 9809 |
| chr6 | 7740419 | 4.53% | 6127 |
| chr7 | 11508534 | 7.22% | 9298 |
| chr8 | 11864952 | 8.17% | 8479 |
| chr9 | 6068569 | 4.38% | 5009 |
| chr10 | 7635801 | 5.71% | 5729 |
| chr11 | 7218557 | 5.34% | 5810 |
| chr12 | 6790954 | 5.10% | 5046 |
| chr13 | 7586803 | 6.63% | 7023 |
| chr14 | 13473034 | 12.59% | 9088 |
| chr15 | 5890242 | 5.78% | 4112 |
| chr16 | 5390084 | 5.97% | 4082 |
| chr17 | 3544378 | 4.26% | 2619 |
| chr18 | 2950183 | 3.67% | 2635 |
| chr19 | 7792830 | 13.29% | 4466 |
| chr20 | 4828413 | 7.49% | 3041 |
| chr21 | 10018696 | 21.45% | 6582 |
| chr22 | 689265 | 1.36% | 634 |
| chrX | 5556008 | 3.56% | 5606 |
| chrY | 1312861 | 2.29% | 1168 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 148030 | 243 | 83487 | 1290.35 | 889 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF372HCL.bed.gz | 3.04 MB | bc575658af0c6308417d183159c76128 |
| ENCFF372HCL.tabix.bed.gz | 1.43 MB | cf34b2fa2c57ae559fb46c751d827407 |
| ENCFF372HCL.tabix.bed.gz.tbi | 225.77 KB | 433e6b51e7e2031640dd1229e25dd84d |
| genomic_resource.yaml | 3.01 KB | e26f5ab4521d2127dec41872a7c0942b |
| statistics/ |