Resource
| Id | ATAC-seq/ENCSR731ODJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR731ODJ [biosample_summary="Homo sapiens left cardiac atrium tissue female adult (58 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (58 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN619NEY|/analyses/ENCAN619NEY/} has in progress subobject document {0495e15f-47ee-4528-9713-69ac10bc5e3e|/documents/0495e15f-47ee-4528-9713-69ac10bc5e3e/} audit_internal_action: Released analysis {ENCAN619NEY|/analyses/ENCAN619NEY/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_not_compliant: Alignment file {ENCFF956OQF|/files/ENCFF956OQF/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has 15967206 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: 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 {ENCFF956OQF|/files/ENCFF956OQF/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.861273. 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) {ENCFF515EVC|/files/ENCFF515EVC/} (overlap peaks) and {ENCFF991MKU|/files/ENCFF991MKU/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 116652 and 53182 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR731ODJ | float |
ATAC-seq_ENCSR731ODJ |
ATAC-seq ENCSR731ODJ [biosample_summary="Homo sapiens left cardiac atrium tissue female adult (58 years)"]
|
 |
[1.52, 30.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 39635434 | 1.23% | 77555 |
| chr1 | 3886231 | 1.56% | 7517 |
| chr2 | 3040077 | 1.26% | 6094 |
| chr3 | 2502431 | 1.26% | 4977 |
| chr4 | 1630278 | 0.86% | 3229 |
| chr5 | 2088254 | 1.15% | 4174 |
| chr6 | 2200721 | 1.29% | 4347 |
| chr7 | 1943641 | 1.22% | 3878 |
| chr8 | 1656041 | 1.14% | 3303 |
| chr9 | 1723659 | 1.25% | 3370 |
| chr10 | 2027585 | 1.52% | 4064 |
| chr11 | 2111345 | 1.56% | 4074 |
| chr12 | 1924992 | 1.44% | 3751 |
| chr13 | 910993 | 0.80% | 1836 |
| chr14 | 1206647 | 1.13% | 2358 |
| chr15 | 1423919 | 1.40% | 2802 |
| chr16 | 1478356 | 1.64% | 2806 |
| chr17 | 2003537 | 2.41% | 3772 |
| chr18 | 829580 | 1.03% | 1735 |
| chr19 | 1693729 | 2.89% | 2970 |
| chr20 | 1059210 | 1.64% | 2139 |
| chr21 | 477292 | 1.02% | 924 |
| chr22 | 910902 | 1.79% | 1792 |
| chrX | 905774 | 0.58% | 1642 |
| chrY | 240 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 77555 | 150 | 2663 | 511.06 | 418 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF515EVC.bed.gz | 2.84 MB | 67db93f88088e1fdc047e3b77971f642 |
| ENCFF515EVC.tabix.bed.gz | 872.83 KB | 2668bd0ae0eb6e952a864fd7a1bb8885 |
| ENCFF515EVC.tabix.bed.gz.tbi | 363.98 KB | 94179be758a43933280f731b3f1c2900 |
| genomic_resource.yaml | 3.09 KB | fd0871b5764857a00ee69dbabe1b1ca5 |
| statistics/ |