Resource
| Id | DNase-seq/ENCSR515PDV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR515PDV [biosample_summary="Homo sapiens activated naive CD4-positive, alpha-beta T cell male adult (50 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (50 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours 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 {ENCFF030PNE|/files/ENCFF030PNE/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.39. 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_ENCSR515PDV | float |
DNase-seq_ENCSR515PDV |
DNase-seq ENCSR515PDV [biosample_summary="Homo sapiens activated naive CD4-positive, alpha-beta T cell male adult (50 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours"]
|
 |
[0.0502, 21.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 16706714 | 0.52% | 78312 |
| chr1 | 1649555 | 0.66% | 7735 |
| chr2 | 1389806 | 0.57% | 6571 |
| chr3 | 789117 | 0.40% | 3762 |
| chr4 | 486006 | 0.26% | 2238 |
| chr5 | 751278 | 0.41% | 3511 |
| chr6 | 711009 | 0.42% | 3247 |
| chr7 | 765801 | 0.48% | 3648 |
| chr8 | 686280 | 0.47% | 3279 |
| chr9 | 749871 | 0.54% | 3525 |
| chr10 | 884416 | 0.66% | 4299 |
| chr11 | 1092156 | 0.81% | 5058 |
| chr12 | 694416 | 0.52% | 3258 |
| chr13 | 290088 | 0.25% | 1351 |
| chr14 | 560276 | 0.52% | 2604 |
| chr15 | 621701 | 0.61% | 2964 |
| chr16 | 742391 | 0.82% | 3412 |
| chr17 | 1048165 | 1.26% | 4912 |
| chr18 | 272345 | 0.34% | 1300 |
| chr19 | 805049 | 1.37% | 3595 |
| chr20 | 518171 | 0.80% | 2446 |
| chr21 | 266979 | 0.57% | 1279 |
| chr22 | 613929 | 1.21% | 2911 |
| chrX | 309507 | 0.20% | 1367 |
| chrY | 8402 | 0.01% | 40 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 78312 | 1 | 1300 | 213.34 | 201 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF092DWH.bed.gz | 802.95 KB | 63f4ff7e294de6a26afd70bd82a89673 |
| ENCFF092DWH.tabix.bed.gz | 748.16 KB | 37aa336d8e30514556c61bc178118185 |
| ENCFF092DWH.tabix.bed.gz.tbi | 197.86 KB | 929b979f2887c8cfe0346287dee31f61 |
| genomic_resource.yaml | 2.61 KB | e71fd2a27ec406d0a4fba5f9031c37fb |
| statistics/ |