Resource
| Id | DNase-seq/ENCSR531UVE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR531UVE [biosample_summary="Homo sapiens stimulated activated CD4-positive, alpha-beta T cell male adult (42 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (42 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour output_type: peaks audit_warning: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous to the commonly used fraction of reads in peaks metric. ENCODE processed alignment files {ENCFF300YHK|/files/ENCFF300YHK/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. According to ENCODE standards, SPOT1 score of 0.4 or higher is considered a product of high quality data. Any sample with a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample, and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR531UVE | float |
DNase-seq_ENCSR531UVE |
DNase-seq ENCSR531UVE [biosample_summary="Homo sapiens stimulated activated CD4-positive, alpha-beta T cell male adult (42 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 100 ng/mL Interleukin-15 for 1 hour"]
|
 |
[0.154, 33.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 6424851 | 0.20% | 32044 |
| chr1 | 657545 | 0.26% | 3284 |
| chr2 | 430838 | 0.18% | 2132 |
| chr3 | 338911 | 0.17% | 1649 |
| chr4 | 209570 | 0.11% | 1033 |
| chr5 | 282684 | 0.16% | 1408 |
| chr6 | 366429 | 0.21% | 1833 |
| chr7 | 290682 | 0.18% | 1459 |
| chr8 | 236654 | 0.16% | 1217 |
| chr9 | 251210 | 0.18% | 1266 |
| chr10 | 281731 | 0.21% | 1401 |
| chr11 | 330494 | 0.24% | 1668 |
| chr12 | 333419 | 0.25% | 1674 |
| chr13 | 120517 | 0.11% | 582 |
| chr14 | 227952 | 0.21% | 1142 |
| chr15 | 208913 | 0.20% | 1064 |
| chr16 | 276343 | 0.31% | 1360 |
| chr17 | 420872 | 0.51% | 2094 |
| chr18 | 90307 | 0.11% | 446 |
| chr19 | 476516 | 0.81% | 2303 |
| chr20 | 174244 | 0.27% | 896 |
| chr21 | 70935 | 0.15% | 364 |
| chr22 | 158635 | 0.31% | 803 |
| chrX | 181836 | 0.12% | 933 |
| chrY | 7614 | 0.01% | 33 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 32044 | 1 | 840 | 200.5 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF293GJB.bed.gz | 358.9 KB | bb4397a624f7aadd039a218ca2c4daa8 |
| ENCFF293GJB.tabix.bed.gz | 328.09 KB | 32cb9050b163f2e54254b5bc3ff43665 |
| ENCFF293GJB.tabix.bed.gz.tbi | 172.06 KB | 461f3ae8d69938aae71a7ec61f2cc1f6 |
| genomic_resource.yaml | 2.63 KB | 877da81a495d3ee3656cd132a3ab1a01 |
| statistics/ |