Resource
| Id | ATAC-seq/ENCSR357WQH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR357WQH [biosample_summary="Homo sapiens GM18508"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN986DIA|/analyses/ENCAN986DIA/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_not_compliant: Alignment file {ENCFF932BSQ|/files/ENCFF932BSQ/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has 19995953 usable fragments. According to ENCODE4 standards, ATAC-seq assays processed by the uniform processing pipeline should have > 25 million usable fragments. 20-25 million is acceptable and < 15 million is not compliant. 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) {ENCFF761RSD|/files/ENCFF761RSD/} (overlap peaks) and {ENCFF085DFN|/files/ENCFF085DFN/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 125878 and 58314 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR357WQH | float |
ATAC-seq_ENCSR357WQH |
ATAC-seq ENCSR357WQH [biosample_summary="Homo sapiens GM18508"]
|
 |
[1.46, 30.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 42709540 | 1.33% | 91004 |
| chr1 | 3696655 | 1.48% | 7736 |
| chr2 | 3820318 | 1.58% | 8280 |
| chr3 | 3111266 | 1.57% | 6776 |
| chr4 | 2749626 | 1.45% | 6087 |
| chr5 | 2750939 | 1.52% | 5991 |
| chr6 | 2982648 | 1.75% | 6428 |
| chr7 | 2446056 | 1.54% | 5264 |
| chr8 | 2196782 | 1.51% | 4765 |
| chr9 | 1665813 | 1.20% | 3545 |
| chr10 | 2076482 | 1.55% | 4451 |
| chr11 | 1964169 | 1.45% | 4165 |
| chr12 | 2117846 | 1.59% | 4435 |
| chr13 | 1235845 | 1.08% | 2677 |
| chr14 | 1270691 | 1.19% | 2667 |
| chr15 | 1112682 | 1.09% | 2320 |
| chr16 | 1061703 | 1.18% | 2129 |
| chr17 | 1199319 | 1.44% | 2377 |
| chr18 | 1030540 | 1.28% | 2280 |
| chr19 | 981885 | 1.68% | 1767 |
| chr20 | 818149 | 1.27% | 1730 |
| chr21 | 422279 | 0.90% | 858 |
| chr22 | 423514 | 0.83% | 838 |
| chrX | 1573829 | 1.01% | 3436 |
| chrY | 504 | <0.01% | 2 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 91004 | 150 | 2342 | 469.31 | 405 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF761RSD.bed.gz | 3.02 MB | 4c5d0c5df43c71ca8332cd7e0b0165e8 |
| ENCFF761RSD.tabix.bed.gz | 1005.38 KB | e12f1c1e72df680cb1441b6abd7563bb |
| ENCFF761RSD.tabix.bed.gz.tbi | 440.29 KB | ae15ed1552e09f7af069dc18908401bd |
| genomic_resource.yaml | 2.23 KB | 7f144c5b38b5829eb1bde00015869b3c |
| statistics/ |