Resource
| Id | Histone_ChIP-seq/ENCSR221EIS |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR221EIS [biosample_summary="Homo sapiens heart right ventricle tissue male adult (55 years)" and target="H3K36me3"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (55 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN893KUK|/analyses/ENCAN893KUK/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF117BNJ|/files/ENCFF117BNJ/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline has 26925866 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 {ENCFF117BNJ|/files/ENCFF117BNJ/} processed by ChIP-seq ENCODE4 v1.8.0 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 {ENCFF117BNJ|/files/ENCFF117BNJ/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.70. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR221EIS | float |
Histone_ChIP-seq_ENCSR221EIS |
Histone_ChIP-seq ENCSR221EIS [biosample_summary="Homo sapiens heart right ventricle tissue male adult (55 years)" and target="H3K36me3"]
|
 |
[1.73, 19.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 131582742 | 4.09% | 130372 |
| chr1 | 13258428 | 5.33% | 12566 |
| chr2 | 10554211 | 4.36% | 10512 |
| chr3 | 8536435 | 4.30% | 8610 |
| chr4 | 5525604 | 2.90% | 5952 |
| chr5 | 6783260 | 3.74% | 6718 |
| chr6 | 6255391 | 3.66% | 6265 |
| chr7 | 5966777 | 3.74% | 6310 |
| chr8 | 4665963 | 3.21% | 4937 |
| chr9 | 5452522 | 3.94% | 5384 |
| chr10 | 6095175 | 4.56% | 6148 |
| chr11 | 6243209 | 4.62% | 6036 |
| chr12 | 7502041 | 5.63% | 6987 |
| chr13 | 3013161 | 2.63% | 3200 |
| chr14 | 4688151 | 4.38% | 4465 |
| chr15 | 5117611 | 5.02% | 4882 |
| chr16 | 5207092 | 5.76% | 4936 |
| chr17 | 7040657 | 8.46% | 6531 |
| chr18 | 2264208 | 2.82% | 2414 |
| chr19 | 7324597 | 12.50% | 6260 |
| chr20 | 3533304 | 5.48% | 3450 |
| chr21 | 1437524 | 3.08% | 1457 |
| chr22 | 3032606 | 5.97% | 2959 |
| chrX | 1933587 | 1.24% | 3150 |
| chrY | 151228 | 0.26% | 243 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 130372 | 165 | 44261 | 1009.29 | 639 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF239JVW.bed.gz | 2.65 MB | 9d3b0aa8fb517d532585859b400d16bb |
| ENCFF239JVW.tabix.bed.gz | 1.27 MB | 386adc83daedab2e91b9f32fbae4d489 |
| ENCFF239JVW.tabix.bed.gz.tbi | 178.62 KB | 5f03d10537dd6f6ca47a329f3bf4283c |
| genomic_resource.yaml | 3.29 KB | bfcedbb63906e7b7b76789ac90d8627b |
| statistics/ |