Resource
| Id | Histone_ChIP-seq/ENCSR611CRY |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR611CRY [biosample_summary="Homo sapiens GM23248" and target="H3K79me2"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN594YTZ|/analyses/ENCAN594YTZ/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN594YTZ|/analyses/ENCAN594YTZ/} has in progress subobject document {e80da196-1ed6-46cb-b53b-97336adfa162|/documents/e80da196-1ed6-46cb-b53b-97336adfa162/} audit_not_compliant: Processed alignments file {ENCFF134YHA|/files/ENCFF134YHA/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 24371716 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 {ENCFF767WIB|/files/ENCFF767WIB/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 34597804 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 {ENCFF134YHA|/files/ENCFF134YHA/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF134YHA|/files/ENCFF134YHA/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.47. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR611CRY | float |
Histone_ChIP-seq_ENCSR611CRY |
Histone_ChIP-seq ENCSR611CRY [biosample_summary="Homo sapiens GM23248" and target="H3K79me2"]
|
 |
[1.64, 19.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 206273252 | 6.41% | 72106 |
| chr1 | 20073348 | 8.06% | 6977 |
| chr2 | 16256915 | 6.71% | 5583 |
| chr3 | 14443413 | 7.28% | 5136 |
| chr4 | 9499849 | 4.99% | 3337 |
| chr5 | 11648048 | 6.42% | 4096 |
| chr6 | 10514150 | 6.16% | 3715 |
| chr7 | 10930206 | 6.86% | 3888 |
| chr8 | 8397696 | 5.79% | 2755 |
| chr9 | 8976895 | 6.49% | 3350 |
| chr10 | 10803822 | 8.07% | 3633 |
| chr11 | 10094669 | 7.47% | 3543 |
| chr12 | 11071004 | 8.31% | 3749 |
| chr13 | 5624621 | 4.92% | 2018 |
| chr14 | 7383473 | 6.90% | 2484 |
| chr15 | 8037283 | 7.88% | 2613 |
| chr16 | 7344878 | 8.13% | 2595 |
| chr17 | 9528632 | 11.44% | 3374 |
| chr18 | 3985732 | 4.96% | 1414 |
| chr19 | 7124424 | 12.15% | 2618 |
| chr20 | 4639204 | 7.20% | 1463 |
| chr21 | 1870677 | 4.00% | 672 |
| chr22 | 4147893 | 8.16% | 1367 |
| chrX | 3610266 | 2.31% | 1634 |
| chrY | 266154 | 0.47% | 92 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 72106 | 228 | 122077 | 2860.69 | 1176 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF053QUN.bed.gz | 1.82 MB | 058fe95616e69c980fb2664cfd73692a |
| ENCFF053QUN.tabix.bed.gz | 796.4 KB | a1ad2ef4581d32461fb7fce84ae864d9 |
| ENCFF053QUN.tabix.bed.gz.tbi | 118.29 KB | e39c3e5cbc45af19a666aa3d91992f29 |
| genomic_resource.yaml | 3.93 KB | 12937c691a62e21977203618d0d02d4f |
| statistics/ |