Resource
| Id | Histone_ChIP-seq/ENCSR899MFS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR899MFS [biosample_summary="Homo sapiens adrenal gland tissue female adult (30 years)" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (30 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN555VGQ|/analyses/ENCAN555VGQ/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN555VGQ|/analyses/ENCAN555VGQ/} has in progress subobject document {73dd86b9-f358-4ac2-8519-024ea9a4ca45|/documents/73dd86b9-f358-4ac2-8519-024ea9a4ca45/} audit_not_compliant: Processed alignments file {ENCFF256DTK|/files/ENCFF256DTK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 10366297 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K36me3-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 {ENCFF256DTK|/files/ENCFF256DTK/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF256DTK|/files/ENCFF256DTK/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.81. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR899MFS | float |
Histone_ChIP-seq_ENCSR899MFS |
Histone_ChIP-seq ENCSR899MFS [biosample_summary="Homo sapiens adrenal gland tissue female adult (30 years)" and target="H3K36me3"]
|
 |
[2.02, 13.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 17934398 | 0.56% | 38516 |
| chr1 | 1804661 | 0.72% | 3922 |
| chr2 | 1272061 | 0.53% | 2935 |
| chr3 | 1044214 | 0.53% | 2359 |
| chr4 | 573474 | 0.30% | 1424 |
| chr5 | 762127 | 0.42% | 1793 |
| chr6 | 761599 | 0.45% | 1715 |
| chr7 | 811955 | 0.51% | 1792 |
| chr8 | 515889 | 0.36% | 1192 |
| chr9 | 790088 | 0.57% | 1697 |
| chr10 | 736471 | 0.55% | 1701 |
| chr11 | 1019606 | 0.75% | 2111 |
| chr12 | 1091241 | 0.82% | 2312 |
| chr13 | 272422 | 0.24% | 672 |
| chr14 | 597056 | 0.56% | 1320 |
| chr15 | 595560 | 0.58% | 1340 |
| chr16 | 883640 | 0.98% | 1683 |
| chr17 | 1139108 | 1.37% | 2268 |
| chr18 | 233817 | 0.29% | 576 |
| chr19 | 1624329 | 2.77% | 2776 |
| chr20 | 530968 | 0.82% | 1100 |
| chr21 | 174907 | 0.37% | 393 |
| chr22 | 522959 | 1.03% | 987 |
| chrX | 176246 | 0.11% | 448 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 38516 | 190 | 4322 | 465.64 | 390 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF292SFD.bed.gz | 729.36 KB | 22b123cf07df73fff4efc593fdf40bfc |
| ENCFF292SFD.tabix.bed.gz | 373.01 KB | f04a5dd66c1f6954ac2aefdc6db8206f |
| ENCFF292SFD.tabix.bed.gz.tbi | 139.83 KB | 76501155caacf8aeb125e5cd5dbdcc0c |
| genomic_resource.yaml | 3.49 KB | db236d6e2ccd95eee283a6a9b6fc512a |
| statistics/ |