Resource
| Id | Histone_ChIP-seq/ENCSR000ANQ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR000ANQ [biosample_summary="Homo sapiens skeletal muscle myoblast male adult (22 years)" and target="H3K79me2"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (22 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN300PHP|/analyses/ENCAN300PHP/} has in progress subobject document {c1a31192-ad48-4543-9c3f-5c5d270a31f2|/documents/c1a31192-ad48-4543-9c3f-5c5d270a31f2/} audit_internal_action: Released analysis {ENCAN300PHP|/analyses/ENCAN300PHP/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF805XIW|/files/ENCFF805XIW/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline has 15082685 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K79me2-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_not_compliant: Processed alignments file {ENCFF449HZO|/files/ENCFF449HZO/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline has 29261657 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K79me2-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 {ENCFF805XIW|/files/ENCFF805XIW/} processed by ChIP-seq ENCODE4 v1.6.0 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 {ENCFF805XIW|/files/ENCFF805XIW/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.87. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000ANQ | float |
Histone_ChIP-seq_ENCSR000ANQ |
Histone_ChIP-seq ENCSR000ANQ [biosample_summary="Homo sapiens skeletal muscle myoblast male adult (22 years)" and target="H3K79me2"]
|
 |
[1.88, 27] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 78598753 | 2.44% | 109738 |
| chr1 | 7457220 | 3.00% | 10176 |
| chr2 | 6436111 | 2.66% | 8548 |
| chr3 | 5343709 | 2.69% | 7171 |
| chr4 | 3682814 | 1.94% | 5202 |
| chr5 | 4412494 | 2.43% | 5807 |
| chr6 | 3719474 | 2.18% | 5429 |
| chr7 | 4069571 | 2.55% | 5783 |
| chr8 | 2938047 | 2.02% | 4520 |
| chr9 | 3300027 | 2.38% | 4785 |
| chr10 | 4040330 | 3.02% | 5707 |
| chr11 | 3837635 | 2.84% | 5017 |
| chr12 | 4206405 | 3.16% | 5723 |
| chr13 | 2289268 | 2.00% | 3288 |
| chr14 | 2531639 | 2.37% | 3546 |
| chr15 | 2912117 | 2.86% | 4338 |
| chr16 | 2915851 | 3.23% | 4319 |
| chr17 | 3634597 | 4.37% | 5218 |
| chr18 | 1453791 | 1.81% | 2103 |
| chr19 | 3012522 | 5.14% | 4221 |
| chr20 | 2225083 | 3.45% | 2881 |
| chr21 | 1076604 | 2.30% | 1366 |
| chr22 | 1637757 | 3.22% | 2324 |
| chrX | 1348805 | 0.86% | 2099 |
| chrY | 116882 | 0.20% | 167 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 109738 | 133 | 48960 | 716.24 | 377 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF968SFX.bed.gz | 2.27 MB | 3706b6327934eb0d973721e3d05a6308 |
| ENCFF968SFX.tabix.bed.gz | 1.09 MB | 6f69d91d25a25a2b6c9b8193169f5280 |
| ENCFF968SFX.tabix.bed.gz.tbi | 123.85 KB | 358ce4a1ef31fbf123ec16984f75ca1d |
| genomic_resource.yaml | 3.99 KB | f57b9d1259b2cd5cf32ac68744e7f84e |
| statistics/ |