Resource
| Id | ATAC-seq/ENCSR991PBP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR991PBP [biosample_summary="Homo sapiens activated CD4-positive, alpha-beta T cell male adult (20 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (20 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN257GEQ|/analyses/ENCAN257GEQ/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} 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 {ENCFF818AXT|/files/ENCFF818AXT/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.742488. audit_warning: PBC1 (PCR Bottlenecking Coefficient 1, M1/M_distinct) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where some reads map (M_distinct). A PBC1 value in the range 0 - 0.5 is severe bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking, and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF818AXT|/files/ENCFF818AXT/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.76. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR991PBP | float |
ATAC-seq_ENCSR991PBP |
ATAC-seq ENCSR991PBP [biosample_summary="Homo sapiens activated CD4-positive, alpha-beta T cell male adult (20 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours"]
|
 |
[1.35, 40.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 60972839 | 1.90% | 114223 |
| chr1 | 5982407 | 2.40% | 11056 |
| chr2 | 4956104 | 2.05% | 9476 |
| chr3 | 3908975 | 1.97% | 7466 |
| chr4 | 2490211 | 1.31% | 4822 |
| chr5 | 3048062 | 1.68% | 5867 |
| chr6 | 3766044 | 2.20% | 7137 |
| chr7 | 3056249 | 1.92% | 5783 |
| chr8 | 2631966 | 1.81% | 5093 |
| chr9 | 2397771 | 1.73% | 4482 |
| chr10 | 2910484 | 2.18% | 5479 |
| chr11 | 2942464 | 2.18% | 5496 |
| chr12 | 3056840 | 2.29% | 5658 |
| chr13 | 1473694 | 1.29% | 2847 |
| chr14 | 2089713 | 1.95% | 3939 |
| chr15 | 2022288 | 1.98% | 3836 |
| chr16 | 2144293 | 2.37% | 3844 |
| chr17 | 2960102 | 3.56% | 5264 |
| chr18 | 1131507 | 1.41% | 2243 |
| chr19 | 2449344 | 4.18% | 4139 |
| chr20 | 1583196 | 2.46% | 2973 |
| chr21 | 806580 | 1.73% | 1519 |
| chr22 | 1218819 | 2.40% | 2172 |
| chrX | 1813983 | 1.16% | 3365 |
| chrY | 131743 | 0.23% | 267 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 114223 | 150 | 2986 | 533.81 | 439 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF418SHH.bed.gz | 4.32 MB | 6fe98a4b18fd17aaf049b790c0f13db1 |
| ENCFF418SHH.tabix.bed.gz | 1.24 MB | 88f37cc84cf342f6776675fed943b0bf |
| ENCFF418SHH.tabix.bed.gz.tbi | 426.58 KB | 843de6701f69aaac00c3ddc271b7a1b3 |
| genomic_resource.yaml | 2.95 KB | f9d3a8c59a843765175e45ddbfdf49d5 |
| statistics/ |