Resource
| Id | Histone_ChIP-seq/ENCSR315IRO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR315IRO [biosample_summary="Homo sapiens HUES6" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN152RNL|/analyses/ENCAN152RNL/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_warning: Processed redacted alignments file {ENCFF942MCG|/files/ENCFF942MCG/} processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline has 19523792 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27ac-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 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 redacted alignments file {ENCFF942MCG|/files/ENCFF942MCG/} processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.83. 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 redacted alignments file {ENCFF942MCG|/files/ENCFF942MCG/} processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.77. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR315IRO | float |
Histone_ChIP-seq_ENCSR315IRO |
Histone_ChIP-seq ENCSR315IRO [biosample_summary="Homo sapiens HUES6" and target="H3K27ac"]
|
 |
[1.69, 54] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 37761239 | 1.17% | 45159 |
| chr1 | 3383462 | 1.36% | 3998 |
| chr2 | 2738527 | 1.13% | 3337 |
| chr3 | 2462606 | 1.24% | 2970 |
| chr4 | 2074771 | 1.09% | 2437 |
| chr5 | 2193903 | 1.21% | 2536 |
| chr6 | 2384991 | 1.40% | 2659 |
| chr7 | 2030918 | 1.27% | 2465 |
| chr8 | 1590575 | 1.10% | 1990 |
| chr9 | 1504085 | 1.09% | 1838 |
| chr10 | 1662117 | 1.24% | 1987 |
| chr11 | 1768336 | 1.31% | 2109 |
| chr12 | 2033116 | 1.53% | 2402 |
| chr13 | 994459 | 0.87% | 1222 |
| chr14 | 1160184 | 1.08% | 1416 |
| chr15 | 1052747 | 1.03% | 1270 |
| chr16 | 1188153 | 1.32% | 1472 |
| chr17 | 1478808 | 1.78% | 1796 |
| chr18 | 841827 | 1.05% | 1000 |
| chr19 | 1379795 | 2.35% | 1749 |
| chr20 | 894105 | 1.39% | 1060 |
| chr21 | 416756 | 0.89% | 498 |
| chr22 | 637478 | 1.25% | 786 |
| chrX | 1889520 | 1.21% | 2162 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 45159 | 218 | 9729 | 836.18 | 635 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF234HQO.bed.gz | 1.12 MB | 26e0ece2ed07ceef3685c3785f063354 |
| ENCFF234HQO.tabix.bed.gz | 497.44 KB | f6d8ee09b868be7fa4e5c67dd8752389 |
| ENCFF234HQO.tabix.bed.gz.tbi | 217.85 KB | 1a81e0c51ab51cdb6b1d5606732c79dd |
| genomic_resource.yaml | 3.23 KB | b643e9e30ec736881caea1a432f474e3 |
| statistics/ |