Resource
| Id | ATAC-seq/ENCSR775KMA |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR775KMA [biosample_summary="Homo sapiens activated T-cell male adult (38 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (38 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN243QOP|/analyses/ENCAN243QOP/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_warning: Alignment file {ENCFF880NEB|/files/ENCFF880NEB/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline has 21803135 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) {ENCFF089LSF|/files/ENCFF089LSF/} (overlap peaks) and {ENCFF760LQQ|/files/ENCFF760LQQ/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline have 99952 and 63133 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR775KMA | float |
ATAC-seq_ENCSR775KMA |
ATAC-seq ENCSR775KMA [biosample_summary="Homo sapiens activated T-cell male adult (38 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours"]
|
 |
[1.53, 42] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 32909311 | 1.02% | 57213 |
| chr1 | 3328481 | 1.34% | 5655 |
| chr2 | 2531910 | 1.05% | 4566 |
| chr3 | 1893225 | 0.95% | 3384 |
| chr4 | 1231922 | 0.65% | 2224 |
| chr5 | 1544918 | 0.85% | 2773 |
| chr6 | 2006615 | 1.17% | 3493 |
| chr7 | 1613542 | 1.01% | 2832 |
| chr8 | 1279643 | 0.88% | 2329 |
| chr9 | 1277882 | 0.92% | 2253 |
| chr10 | 1548230 | 1.16% | 2781 |
| chr11 | 1638095 | 1.21% | 2807 |
| chr12 | 1686383 | 1.27% | 2891 |
| chr13 | 747727 | 0.65% | 1351 |
| chr14 | 1148533 | 1.07% | 1975 |
| chr15 | 1081325 | 1.06% | 1925 |
| chr16 | 1239997 | 1.37% | 2048 |
| chr17 | 1808776 | 2.17% | 2942 |
| chr18 | 561916 | 0.70% | 1062 |
| chr19 | 1704510 | 2.91% | 2726 |
| chr20 | 885315 | 1.37% | 1569 |
| chr21 | 455254 | 0.97% | 759 |
| chr22 | 770132 | 1.52% | 1314 |
| chrX | 882072 | 0.57% | 1473 |
| chrY | 42908 | 0.07% | 81 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 57213 | 150 | 2492 | 575.21 | 478 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF089LSF.bed.gz | 2.35 MB | dabdc1bc6225436dbf36d43da3d2c1e1 |
| ENCFF089LSF.tabix.bed.gz | 644.24 KB | 8b6d834b9d87e45d50c7d6f8b0e6f216 |
| ENCFF089LSF.tabix.bed.gz.tbi | 297.13 KB | 1f9a15572467306f4f6a96d63b78491e |
| genomic_resource.yaml | 2.81 KB | 2f9711d7437e252d820280006b27aeaa |
| statistics/ |