Resource
| Id | Histone_ChIP-seq/ENCSR843KHS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR843KHS [biosample_summary="Homo sapiens psoas muscle tissue male child (3 years)" and target="H3K27me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male child (3 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN520INO|/analyses/ENCAN520INO/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF768PBV|/files/ENCFF768PBV/} processed by ChIP-seq ENCODE3 hg19 pipeline has 21161513 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 {ENCFF768PBV|/files/ENCFF768PBV/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF768PBV|/files/ENCFF768PBV/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 9.65. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR843KHS | float |
Histone_ChIP-seq_ENCSR843KHS |
Histone_ChIP-seq ENCSR843KHS [biosample_summary="Homo sapiens psoas muscle tissue male child (3 years)" and target="H3K27me3"]
|
 |
[1.66, 7.95] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 3669386 | 0.11% | 11527 |
| chr1 | 309119 | 0.12% | 963 |
| chr2 | 279822 | 0.12% | 885 |
| chr3 | 222108 | 0.11% | 717 |
| chr4 | 185822 | 0.10% | 633 |
| chr5 | 240613 | 0.13% | 763 |
| chr6 | 308078 | 0.18% | 917 |
| chr7 | 188117 | 0.12% | 606 |
| chr8 | 196465 | 0.14% | 637 |
| chr9 | 138328 | 0.10% | 452 |
| chr10 | 180507 | 0.13% | 573 |
| chr11 | 181722 | 0.13% | 572 |
| chr12 | 197550 | 0.15% | 631 |
| chr13 | 101549 | 0.09% | 324 |
| chr14 | 133574 | 0.12% | 414 |
| chr15 | 160970 | 0.16% | 483 |
| chr16 | 108342 | 0.12% | 344 |
| chr17 | 140627 | 0.17% | 417 |
| chr18 | 110446 | 0.14% | 341 |
| chr19 | 55469 | 0.09% | 165 |
| chr20 | 121067 | 0.19% | 367 |
| chr21 | 38358 | 0.08% | 117 |
| chr22 | 56023 | 0.11% | 169 |
| chrM | 6204 | 37.44% | 8 |
| chrX | 8506 | 0.01% | 29 |
| 3342 contigs with no values (186287931 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 11527 | 180 | 2205 | 318.33 | 287 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF006QNM.bed.gz | 208.63 KB | 134e4a5f1d4eb3b931f1ab7d4de54000 |
| ENCFF006QNM.tabix.bed.gz | 109.7 KB | 642e9694e9e5fef265a9ff7907d60e9c |
| ENCFF006QNM.tabix.bed.gz.tbi | 85.21 KB | 7da007fd4932eb32f11ba7fdce5e3821 |
| genomic_resource.yaml | 3.23 KB | 9c77986935f664424ed72bd39b15c7fc |
| statistics/ |