Resource
| Id | ATAC-seq/ENCSR803FKU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR803FKU [biosample_summary="Homo sapiens T-helper 17 cell male adult (38 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (38 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN965YPA|/analyses/ENCAN965YPA/} 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. {ENCFF314YTZ|/files/ENCFF314YTZ/} 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) {ENCFF314YTZ|/files/ENCFF314YTZ/} (overlap peaks) and {ENCFF999QSA|/files/ENCFF999QSA/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline have 87882 and 44297 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR803FKU | float |
ATAC-seq_ENCSR803FKU |
ATAC-seq ENCSR803FKU [biosample_summary="Homo sapiens T-helper 17 cell male adult (38 years)"]
|
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[1.47, 32.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 29274071 | 0.91% | 63132 |
| chr1 | 2836073 | 1.14% | 6013 |
| chr2 | 2239868 | 0.92% | 4973 |
| chr3 | 1734027 | 0.87% | 3795 |
| chr4 | 1150260 | 0.60% | 2503 |
| chr5 | 1443833 | 0.80% | 3212 |
| chr6 | 1711216 | 1.00% | 3705 |
| chr7 | 1487429 | 0.93% | 3229 |
| chr8 | 1192881 | 0.82% | 2646 |
| chr9 | 1181807 | 0.85% | 2570 |
| chr10 | 1392577 | 1.04% | 3066 |
| chr11 | 1472016 | 1.09% | 3184 |
| chr12 | 1471137 | 1.10% | 3136 |
| chr13 | 654768 | 0.57% | 1439 |
| chr14 | 989894 | 0.92% | 2129 |
| chr15 | 972164 | 0.95% | 2141 |
| chr16 | 1137153 | 1.26% | 2391 |
| chr17 | 1580056 | 1.90% | 3296 |
| chr18 | 562506 | 0.70% | 1277 |
| chr19 | 1492135 | 2.55% | 2964 |
| chr20 | 849469 | 1.32% | 1875 |
| chr21 | 412978 | 0.88% | 867 |
| chr22 | 690287 | 1.36% | 1462 |
| chrX | 597962 | 0.38% | 1213 |
| chrY | 21575 | 0.04% | 46 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 63132 | 150 | 2423 | 463.7 | 382 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF314YTZ.bed.gz | 2.09 MB | b02c4d2d62fd79be8fbc27929646d229 |
| ENCFF314YTZ.tabix.bed.gz | 698.71 KB | e040e74fcae05411f49640b4cd9453fd |
| ENCFF314YTZ.tabix.bed.gz.tbi | 331.55 KB | 295916b355485a9b83a22c0552c092ab |
| genomic_resource.yaml | 2.42 KB | e28a5670308ad7f9fcf6b6c0e739139c |
| statistics/ |
