Resource
| Id | Histone_ChIP-seq/ENCSR981UJA |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR981UJA [biosample_summary="Homo sapiens right lobe of liver tissue female adult (53 years)" and target="H3K27ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: female adult (53 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN736XLF|/analyses/ENCAN736XLF/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF756TNK|/files/ENCFF756TNK/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 18149831 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 alignments file {ENCFF435RWI|/files/ENCFF435RWI/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF435RWI|/files/ENCFF435RWI/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.42. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR981UJA | float |
Histone_ChIP-seq_ENCSR981UJA |
Histone_ChIP-seq ENCSR981UJA [biosample_summary="Homo sapiens right lobe of liver tissue female adult (53 years)" and target="H3K27ac"]
|
 |
[1.52, 81.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 136081338 | 4.23% | 119524 |
| chr1 | 13636564 | 5.48% | 11708 |
| chr1_KI270713v1_random | 1044 | 2.56% | 2 |
| chr1_KI270714v1_random | 625 | 1.50% | 2 |
| chr2 | 10472748 | 4.32% | 9590 |
| chr3 | 8562214 | 4.32% | 7832 |
| chr4 | 5149978 | 2.71% | 5122 |
| chr5 | 6661134 | 3.67% | 6158 |
| chr6 | 7015631 | 4.11% | 6719 |
| chr7 | 6259211 | 3.93% | 5813 |
| chr8 | 5777408 | 3.98% | 5255 |
| chr9 | 6688239 | 4.83% | 5450 |
| chr10 | 6845198 | 5.12% | 6202 |
| chr11 | 7324913 | 5.42% | 5990 |
| chr12 | 6683760 | 5.02% | 5825 |
| chr13 | 3002921 | 2.63% | 2811 |
| chr14 | 4453313 | 4.16% | 3840 |
| chr15 | 4694624 | 4.60% | 4101 |
| chr16 | 5303708 | 5.87% | 4390 |
| chr17 | 7047341 | 8.46% | 5681 |
| chr17_GL000205v2_random | 2195 | 1.18% | 4 |
| chr18 | 2807973 | 3.49% | 2513 |
| chr19 | 5893311 | 10.05% | 4404 |
| chr20 | 4046911 | 6.28% | 3297 |
| chr21 | 1670795 | 3.58% | 1507 |
| chr22 | 3678766 | 7.24% | 2822 |
| chr22_KI270733v1_random | 408 | 0.23% | 1 |
| chrUn_GL000195v1 | 2725 | 1.49% | 4 |
| chrUn_GL000218v1 | 513 | 0.32% | 2 |
| chrUn_GL000219v1 | 3487 | 1.95% | 3 |
| chrUn_GL000220v1 | 222 | 0.14% | 1 |
| chrUn_KI270745v1 | 283 | 0.68% | 1 |
| chrX | 2393175 | 1.53% | 2474 |
| 3334 contigs with no values (185129741 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 119524 | 190 | 47713 | 1138.53 | 665 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF475YWE.bed.gz | 2.81 MB | dd48a8374b887c9decca47637f942176 |
| ENCFF475YWE.tabix.bed.gz | 1.25 MB | 48d368c182de869d6dc190a72098cbcc |
| ENCFF475YWE.tabix.bed.gz.tbi | 285.07 KB | 50550bbade6a247d023e96e59b2c39c8 |
| genomic_resource.yaml | 3.26 KB | d235668c5e88fc044aad0d48dec58039 |
| statistics/ |