Resource
| Id | ATAC-seq/ENCSR831KAH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR831KAH [biosample_summary="Homo sapiens tibial nerve tissue female adult (51 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (51 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN540JRV|/analyses/ENCAN540JRV/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN540JRV|/analyses/ENCAN540JRV/} has in progress subobject document {67cd13ee-283c-4db5-b014-84fbdd77acf9|/documents/67cd13ee-283c-4db5-b014-84fbdd77acf9/} 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. {ENCFF512THA|/files/ENCFF512THA/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.06. 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) {ENCFF512THA|/files/ENCFF512THA/} (overlap peaks) and {ENCFF623GOH|/files/ENCFF623GOH/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 74075 and 28971 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR831KAH | float |
ATAC-seq_ENCSR831KAH |
ATAC-seq ENCSR831KAH [biosample_summary="Homo sapiens tibial nerve tissue female adult (51 years)"]
|
 |
[1.53, 23.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 23771670 | 0.74% | 51163 |
| chr1 | 2225912 | 0.89% | 4626 |
| chr2 | 1829584 | 0.76% | 4065 |
| chr3 | 1432936 | 0.72% | 3116 |
| chr4 | 1144212 | 0.60% | 2583 |
| chr5 | 1238261 | 0.68% | 2780 |
| chr6 | 1301437 | 0.76% | 2835 |
| chr7 | 1223545 | 0.77% | 2674 |
| chr8 | 1075660 | 0.74% | 2407 |
| chr9 | 1059129 | 0.77% | 2253 |
| chr10 | 1096058 | 0.82% | 2401 |
| chr11 | 1230637 | 0.91% | 2620 |
| chr12 | 1144933 | 0.86% | 2401 |
| chr13 | 582097 | 0.51% | 1282 |
| chr14 | 732705 | 0.68% | 1516 |
| chr15 | 774335 | 0.76% | 1644 |
| chr16 | 842315 | 0.93% | 1778 |
| chr17 | 1085758 | 1.30% | 2171 |
| chr18 | 509818 | 0.63% | 1174 |
| chr19 | 1056617 | 1.80% | 2026 |
| chr20 | 607853 | 0.94% | 1306 |
| chr21 | 306416 | 0.66% | 669 |
| chr22 | 501978 | 0.99% | 1057 |
| chrX | 767773 | 0.49% | 1772 |
| chrY | 1701 | <0.01% | 7 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 51163 | 150 | 2267 | 464.63 | 375 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF512THA.bed.gz | 1.72 MB | b786d4d249b311903fd7795ac0f99058 |
| ENCFF512THA.tabix.bed.gz | 566.42 KB | ea52a70763ea2bdb2ad0f8a83f9ef35c |
| ENCFF512THA.tabix.bed.gz.tbi | 310.24 KB | c191971bc99d4799f7e751768e39487c |
| genomic_resource.yaml | 2.59 KB | a8fe78ab3c040942dc9ef2a255c5caf8 |
| statistics/ |