Resource
| Id | Histone_ChIP-seq/ENCSR000DWB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR000DWB [biosample_summary="Homo sapiens K562" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Released analysis {ENCAN334RBS|/analyses/ENCAN334RBS/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN334RBS|/analyses/ENCAN334RBS/} has in progress subobject document {b85153ed-aa7e-4816-ab2a-49a89b5118b5|/documents/b85153ed-aa7e-4816-ab2a-49a89b5118b5/} audit_not_compliant: Processed alignments file {ENCFF816ECC|/files/ENCFF816ECC/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 12155869 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_not_compliant: Processed alignments file {ENCFF035SOZ|/files/ENCFF035SOZ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 13760542 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 {ENCFF816ECC|/files/ENCFF816ECC/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF816ECC|/files/ENCFF816ECC/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.30. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DWB | float |
Histone_ChIP-seq_ENCSR000DWB |
Histone_ChIP-seq ENCSR000DWB [biosample_summary="Homo sapiens K562" and target="H3K36me3"]
|
 |
[1.63, 11.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 20823386 | 0.65% | 74347 |
| chr1 | 2626337 | 1.05% | 9257 |
| chr2 | 947380 | 0.39% | 3898 |
| chr3 | 976992 | 0.49% | 3657 |
| chr4 | 461368 | 0.24% | 1912 |
| chr5 | 840383 | 0.46% | 3211 |
| chr6 | 1093631 | 0.64% | 3830 |
| chr7 | 1252525 | 0.79% | 4350 |
| chr8 | 592256 | 0.41% | 2244 |
| chr9 | 1025820 | 0.74% | 3435 |
| chr10 | 629919 | 0.47% | 2420 |
| chr11 | 1201023 | 0.89% | 4209 |
| chr12 | 1028431 | 0.77% | 3786 |
| chr13 | 108485 | 0.09% | 495 |
| chr14 | 235892 | 0.22% | 1033 |
| chr15 | 622633 | 0.61% | 2444 |
| chr16 | 1440212 | 1.59% | 4956 |
| chr17 | 1299930 | 1.56% | 4718 |
| chr18 | 237053 | 0.29% | 964 |
| chr19 | 1886740 | 3.22% | 6140 |
| chr20 | 711907 | 1.10% | 2540 |
| chr21 | 374403 | 0.80% | 1212 |
| chr22 | 939876 | 1.85% | 2493 |
| chrX | 290190 | 0.19% | 1143 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 74347 | 120 | 6370 | 280.08 | 219 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF561OUZ.bed.gz | 1.31 MB | 7974e4f7e3f7b1db43715efdf2532916 |
| ENCFF561OUZ.tabix.bed.gz | 701.2 KB | 61fa7723ffc0268c17ccea85c3a94b07 |
| ENCFF561OUZ.tabix.bed.gz.tbi | 142.92 KB | cf463f6445201dbcdd81c2a4260c38b0 |
| genomic_resource.yaml | 4.22 KB | f69b0763159b8285c8b46dda35f4eb10 |
| statistics/ |