Resource
| Id | ATAC-seq/ENCSR094QFZ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR094QFZ [biosample_summary="Homo sapiens activated CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN627RPS|/analyses/ENCAN627RPS/} 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 {ENCFF250KLY|/files/ENCFF250KLY/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with NRF value of 0.86968. 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 {ENCFF250KLY|/files/ENCFF250KLY/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with a PBC1 value of 0.88. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR094QFZ | float |
ATAC-seq_ENCSR094QFZ |
ATAC-seq ENCSR094QFZ [biosample_summary="Homo sapiens activated CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours"]
|
 |
[1.42, 40.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 38334226 | 1.19% | 73471 |
| chr1 | 3814555 | 1.53% | 7291 |
| chr2 | 3043068 | 1.26% | 6016 |
| chr3 | 2426366 | 1.22% | 4766 |
| chr4 | 1489022 | 0.78% | 2869 |
| chr5 | 1825187 | 1.01% | 3569 |
| chr6 | 2385253 | 1.40% | 4635 |
| chr7 | 1892424 | 1.19% | 3628 |
| chr8 | 1559843 | 1.07% | 3051 |
| chr9 | 1480441 | 1.07% | 2853 |
| chr10 | 1835959 | 1.37% | 3576 |
| chr11 | 1866192 | 1.38% | 3573 |
| chr12 | 1972690 | 1.48% | 3768 |
| chr13 | 904070 | 0.79% | 1794 |
| chr14 | 1332835 | 1.25% | 2585 |
| chr15 | 1246609 | 1.22% | 2426 |
| chr16 | 1393429 | 1.54% | 2526 |
| chr17 | 1950510 | 2.34% | 3553 |
| chr18 | 688496 | 0.86% | 1381 |
| chr19 | 1751205 | 2.99% | 3020 |
| chr20 | 962002 | 1.49% | 1850 |
| chr21 | 516236 | 1.11% | 995 |
| chr22 | 838398 | 1.65% | 1558 |
| chrX | 1094281 | 0.70% | 2054 |
| chrY | 65155 | 0.11% | 134 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 73471 | 150 | 2616 | 521.76 | 427 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF267DDX.bed.gz | 2.75 MB | a48f381ff211b4a9194e4926f7ed8fd4 |
| ENCFF267DDX.tabix.bed.gz | 820.58 KB | 879da266e13d7beb4baa622514a7550f |
| ENCFF267DDX.tabix.bed.gz.tbi | 331.75 KB | a45256fb0ae3272d827af23612bd4602 |
| genomic_resource.yaml | 3.21 KB | a1017886e9211988010967836511fbd2 |
| statistics/ |