Resource
| Id | ATAC-seq/ENCSR736CIN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR736CIN [biosample_summary="Homo sapiens left cardiac atrium tissue female adult (66 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (66 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN778YTF|/analyses/ENCAN778YTF/} 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. {ENCFF407YHM|/files/ENCFF407YHM/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.17. 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 {ENCFF493IIE|/files/ENCFF493IIE/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.871826. 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) {ENCFF407YHM|/files/ENCFF407YHM/} (overlap peaks) and {ENCFF239PZJ|/files/ENCFF239PZJ/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 108670 and 48544 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR736CIN | float |
ATAC-seq_ENCSR736CIN |
ATAC-seq ENCSR736CIN [biosample_summary="Homo sapiens left cardiac atrium tissue female adult (66 years)"]
|
 |
[1.5, 28.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 36535814 | 1.14% | 72565 |
| chr1 | 3626964 | 1.46% | 7084 |
| chr2 | 2753910 | 1.14% | 5563 |
| chr3 | 2224076 | 1.12% | 4546 |
| chr4 | 1410231 | 0.74% | 2912 |
| chr5 | 1871425 | 1.03% | 3795 |
| chr6 | 1984888 | 1.16% | 4019 |
| chr7 | 1771519 | 1.11% | 3637 |
| chr8 | 1499880 | 1.03% | 3088 |
| chr9 | 1612646 | 1.17% | 3195 |
| chr10 | 1836295 | 1.37% | 3744 |
| chr11 | 1989330 | 1.47% | 3863 |
| chr12 | 1775327 | 1.33% | 3490 |
| chr13 | 826458 | 0.72% | 1684 |
| chr14 | 1137156 | 1.06% | 2244 |
| chr15 | 1301144 | 1.28% | 2594 |
| chr16 | 1375780 | 1.52% | 2637 |
| chr17 | 1896975 | 2.28% | 3540 |
| chr18 | 730302 | 0.91% | 1542 |
| chr19 | 1697893 | 2.90% | 3014 |
| chr20 | 1031060 | 1.60% | 2094 |
| chr21 | 481652 | 1.03% | 972 |
| chr22 | 862691 | 1.70% | 1713 |
| chrX | 837438 | 0.54% | 1592 |
| chrY | 774 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 72565 | 150 | 2880 | 503.49 | 408 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF407YHM.bed.gz | 2.63 MB | cc240db6bb673d1f9ddcf3104c1e65e7 |
| ENCFF407YHM.tabix.bed.gz | 813.65 KB | b97a6504ff7df95b622cadb8bdf7167b |
| ENCFF407YHM.tabix.bed.gz.tbi | 353.16 KB | 8d3a246d692af9bced4aa0f09c26b0eb |
| genomic_resource.yaml | 3.27 KB | 7bf772c2aef267e8500a91d218d62630 |
| statistics/ |