Resource
| Id | ATAC-seq/ENCSR167SYF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR167SYF [biosample_summary="Homo sapiens cardiac septum tissue female adult (41 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (41 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN529PRX|/analyses/ENCAN529PRX/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_not_compliant: According to ENCODE4 standards, overlap peaks files in ATAC-seq assays processed by the uniform processing pipeline should have FRiP (fraction of reads in called peak regions) scores > 0.3. FRiP scores 0.2-0.3 are acceptable, and < 0.2 are not compliant. {ENCFF444DRG|/files/ENCFF444DRG/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.13. audit_warning: NRF (Non Redundant Fraction) is equal to the result of the division of the number of reads after duplicates removal by the total number of reads. An NRF value < 0.7 is poor complexity, between 0.7 and 0.9 is moderate complexity, and >= 0.9 high complexity. NRF value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF508LPT|/files/ENCFF508LPT/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.890993. audit_warning: According to ENCODE4 standards, ATAC-seq assays processed by the uniform processing pipeline should have either >150k reproducible peaks in an overlap peaks file, or >70k in an IDR thresholded peaks file. 100-150k or 50-70k peaks respectively is acceptable, and <100k or <50k respectively is not compliant. File(s) {ENCFF444DRG|/files/ENCFF444DRG/} (overlap peaks) and {ENCFF659MXY|/files/ENCFF659MXY/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 115269 and 50777 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR167SYF | float |
ATAC-seq_ENCSR167SYF |
ATAC-seq ENCSR167SYF [biosample_summary="Homo sapiens cardiac septum tissue female adult (41 years)"]
|
 |
[1.28, 27.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 38024950 | 1.18% | 68669 |
| chr1 | 3697569 | 1.49% | 6535 |
| chr2 | 2839466 | 1.17% | 5311 |
| chr3 | 2319668 | 1.17% | 4262 |
| chr4 | 1573486 | 0.83% | 3014 |
| chr5 | 1965686 | 1.08% | 3722 |
| chr6 | 2074555 | 1.21% | 3886 |
| chr7 | 1910976 | 1.20% | 3558 |
| chr8 | 1580046 | 1.09% | 2995 |
| chr9 | 1602439 | 1.16% | 2867 |
| chr10 | 1879884 | 1.41% | 3524 |
| chr11 | 2036055 | 1.51% | 3519 |
| chr12 | 1809725 | 1.36% | 3207 |
| chr13 | 892560 | 0.78% | 1698 |
| chr14 | 1161014 | 1.08% | 2074 |
| chr15 | 1372217 | 1.35% | 2477 |
| chr16 | 1428010 | 1.58% | 2425 |
| chr17 | 1966455 | 2.36% | 3216 |
| chr18 | 779025 | 0.97% | 1571 |
| chr19 | 1795590 | 3.06% | 2774 |
| chr20 | 1018599 | 1.58% | 1873 |
| chr21 | 481501 | 1.03% | 889 |
| chr22 | 935283 | 1.84% | 1609 |
| chrX | 904459 | 0.58% | 1660 |
| chrY | 682 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 68669 | 150 | 2920 | 553.74 | 437 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF444DRG.bed.gz | 2.68 MB | 212fde4aa12f2a9a8311ede788d9c74c |
| ENCFF444DRG.tabix.bed.gz | 767.14 KB | 64229a3453f6ae80b941a2c8047005f1 |
| ENCFF444DRG.tabix.bed.gz.tbi | 359.15 KB | b28999932c2b71d2702bf5ed147b6e55 |
| genomic_resource.yaml | 3.25 KB | 26af985c94e27181e354f610835792f3 |
| statistics/ |