Resource
| Id | ATAC-seq/ENCSR248ZAC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR248ZAC [biosample_summary="Homo sapiens T-helper 17 cell male adult (42 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (42 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN130LYZ|/analyses/ENCAN130LYZ/} 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. {ENCFF117WNZ|/files/ENCFF117WNZ/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline has a FRiP score of 0.16. audit_not_compliant: 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) {ENCFF117WNZ|/files/ENCFF117WNZ/} (overlap peaks) and {ENCFF518VXK|/files/ENCFF518VXK/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline have 81464 and 41785 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR248ZAC | float |
ATAC-seq_ENCSR248ZAC |
ATAC-seq ENCSR248ZAC [biosample_summary="Homo sapiens T-helper 17 cell male adult (42 years)"]
|
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[1.66, 32.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 27371131 | 0.85% | 59306 |
| chr1 | 2620373 | 1.05% | 5598 |
| chr2 | 2149430 | 0.89% | 4779 |
| chr3 | 1636021 | 0.83% | 3588 |
| chr4 | 1074192 | 0.56% | 2320 |
| chr5 | 1351925 | 0.74% | 2991 |
| chr6 | 1603281 | 0.94% | 3480 |
| chr7 | 1393130 | 0.87% | 3035 |
| chr8 | 1135878 | 0.78% | 2491 |
| chr9 | 1089317 | 0.79% | 2376 |
| chr10 | 1336828 | 1.00% | 2955 |
| chr11 | 1376489 | 1.02% | 3002 |
| chr12 | 1359605 | 1.02% | 2935 |
| chr13 | 597695 | 0.52% | 1309 |
| chr14 | 925632 | 0.86% | 1990 |
| chr15 | 902779 | 0.89% | 1980 |
| chr16 | 1057926 | 1.17% | 2235 |
| chr17 | 1468170 | 1.76% | 3131 |
| chr18 | 507916 | 0.63% | 1147 |
| chr19 | 1397738 | 2.38% | 2851 |
| chr20 | 769406 | 1.19% | 1748 |
| chr21 | 380086 | 0.81% | 800 |
| chr22 | 638128 | 1.26% | 1375 |
| chrX | 575697 | 0.37% | 1138 |
| chrY | 23489 | 0.04% | 52 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 59306 | 150 | 2403 | 461.52 | 386 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF117WNZ.bed.gz | 1.97 MB | cdeec307bc4af4793d4855f038cd8190 |
| ENCFF117WNZ.tabix.bed.gz | 662.39 KB | 91e1a24d8d67d10fe97c3a6f2d635dff |
| ENCFF117WNZ.tabix.bed.gz.tbi | 312.69 KB | d601f516d0dc6447413dc3dbdb68a1a6 |
| genomic_resource.yaml | 2.42 KB | 0046ac1603f655265334d7f8604bbc2e |
| statistics/ |
