Resource
| Id | Histone_ChIP-seq/ENCSR000ANL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR000ANL [biosample_summary="Homo sapiens skeletal muscle myoblast male adult (22 years)" and target="H3K9ac"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (22 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN146CTM|/analyses/ENCAN146CTM/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF341TWS|/files/ENCFF341TWS/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 6615124 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9ac-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_not_compliant: Processed alignments file {ENCFF506AAD|/files/ENCFF506AAD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 7243775 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9ac-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 {ENCFF506AAD|/files/ENCFF506AAD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF506AAD|/files/ENCFF506AAD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 6.79. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000ANL | float |
Histone_ChIP-seq_ENCSR000ANL |
Histone_ChIP-seq ENCSR000ANL [biosample_summary="Homo sapiens skeletal muscle myoblast male adult (22 years)" and target="H3K9ac"]
|
 |
[1.83, 76] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 34112270 | 1.06% | 45259 |
| chr1 | 3247555 | 1.30% | 4289 |
| chr2 | 2837953 | 1.17% | 3706 |
| chr3 | 2277100 | 1.15% | 2946 |
| chr4 | 1653581 | 0.87% | 2188 |
| chr5 | 1931647 | 1.06% | 2506 |
| chr6 | 2186402 | 1.28% | 2917 |
| chr7 | 1628263 | 1.02% | 2189 |
| chr8 | 1398114 | 0.96% | 1910 |
| chr9 | 1467978 | 1.06% | 1918 |
| chr10 | 1653852 | 1.24% | 2115 |
| chr11 | 1706969 | 1.26% | 2275 |
| chr12 | 1833501 | 1.38% | 2352 |
| chr13 | 924685 | 0.81% | 1242 |
| chr14 | 1140835 | 1.07% | 1442 |
| chr15 | 1150510 | 1.13% | 1493 |
| chr16 | 1029536 | 1.14% | 1451 |
| chr17 | 1533154 | 1.84% | 2110 |
| chr17_GL000205v2_random | 462 | 0.25% | 1 |
| chr18 | 609319 | 0.76% | 775 |
| chr19 | 1175317 | 2.01% | 1652 |
| chr20 | 731287 | 1.13% | 974 |
| chr21 | 505908 | 1.08% | 653 |
| chr22 | 632720 | 1.25% | 849 |
| chrUn_GL000195v1 | 1098 | 0.60% | 3 |
| chrUn_GL000219v1 | 942 | 0.53% | 1 |
| chrX | 816711 | 0.52% | 1250 |
| chrY | 36871 | 0.06% | 52 |
| 3339 contigs with no values (128529400 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 45259 | 165 | 18779 | 753.71 | 538 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF245NIW.bed.gz | 1.03 MB | 18938e3b36f541c16eeeb7627361fd28 |
| ENCFF245NIW.tabix.bed.gz | 481.9 KB | c1a14cb3aade49c253308a3f2af3183f |
| ENCFF245NIW.tabix.bed.gz.tbi | 195.03 KB | a034c31b683c77979bb7f8168acd3761 |
| genomic_resource.yaml | 3.73 KB | 6d54b63261cd50ad9c6ab938d07dbd8f |
| statistics/ |