Resource
| Id | Histone_ChIP-seq/ENCSR611CHC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR611CHC [biosample_summary="Homo sapiens right lobe of liver tissue female child (16 years)" and target="H3K27me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: female child (16 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN406QRX|/analyses/ENCAN406QRX/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_warning: Processed alignments file {ENCFF217YRW|/files/ENCFF217YRW/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline has 35343219 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27me3-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) 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 {ENCFF217YRW|/files/ENCFF217YRW/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF217YRW|/files/ENCFF217YRW/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.55. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR611CHC | float |
Histone_ChIP-seq_ENCSR611CHC |
Histone_ChIP-seq ENCSR611CHC [biosample_summary="Homo sapiens right lobe of liver tissue female child (16 years)" and target="H3K27me3"]
|
 |
[1.9, 10.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19033843 | 0.59% | 29719 |
| chr1 | 1156522 | 0.46% | 1598 |
| chr2 | 1218872 | 0.50% | 1569 |
| chr3 | 763699 | 0.39% | 1179 |
| chr4 | 779431 | 0.41% | 1083 |
| chr5 | 948826 | 0.52% | 1291 |
| chr6 | 1183853 | 0.69% | 1566 |
| chr7 | 853853 | 0.54% | 1043 |
| chr8 | 677138 | 0.47% | 1019 |
| chr9 | 676419 | 0.49% | 890 |
| chr10 | 770503 | 0.58% | 1018 |
| chr11 | 652674 | 0.48% | 959 |
| chr12 | 725653 | 0.54% | 1029 |
| chr13 | 454643 | 0.40% | 642 |
| chr14 | 479463 | 0.45% | 660 |
| chr15 | 524486 | 0.51% | 732 |
| chr16 | 384873 | 0.43% | 570 |
| chr17 | 745481 | 0.90% | 987 |
| chr18 | 244904 | 0.30% | 368 |
| chr19 | 491103 | 0.84% | 720 |
| chr20 | 497749 | 0.77% | 774 |
| chr21 | 145807 | 0.31% | 226 |
| chr22 | 189549 | 0.37% | 292 |
| chrX | 4468342 | 2.86% | 9504 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 29719 | 170 | 11617 | 640.46 | 459 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF206GAK.bed.gz | 550.65 KB | a338ff3127c871f745e7b78a0b968a88 |
| ENCFF206GAK.tabix.bed.gz | 286.86 KB | dc2e27ed42f75674006c6041b448f149 |
| ENCFF206GAK.tabix.bed.gz.tbi | 125.1 KB | 43e15a752e021a81e1b4529fa4057aae |
| genomic_resource.yaml | 3.29 KB | 20ad26e7e577618280e0ddc6f0a11b85 |
| statistics/ |