Resource
| Id | DNase-seq/ENCSR971MMF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR971MMF [biosample_summary="Homo sapiens activated CD8-positive, alpha-beta memory T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 48 hours"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 48 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 {ENCFF942JCU|/files/ENCFF942JCU/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.31. 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_ENCSR971MMF | float |
DNase-seq_ENCSR971MMF |
DNase-seq ENCSR971MMF [biosample_summary="Homo sapiens activated CD8-positive, alpha-beta memory T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 48 hours"]
|
 |
[0.152, 14.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 7151550 | 0.22% | 35288 |
| chr1 | 728127 | 0.29% | 3556 |
| chr2 | 488601 | 0.20% | 2414 |
| chr3 | 409219 | 0.21% | 1982 |
| chr4 | 259138 | 0.14% | 1238 |
| chr5 | 317649 | 0.17% | 1572 |
| chr6 | 421581 | 0.25% | 2060 |
| chr7 | 323607 | 0.20% | 1605 |
| chr8 | 255849 | 0.18% | 1304 |
| chr9 | 305989 | 0.22% | 1495 |
| chr10 | 307450 | 0.23% | 1535 |
| chr11 | 371699 | 0.28% | 1856 |
| chr12 | 370024 | 0.28% | 1803 |
| chr13 | 143489 | 0.13% | 709 |
| chr14 | 245018 | 0.23% | 1199 |
| chr15 | 239540 | 0.23% | 1210 |
| chr16 | 306745 | 0.34% | 1507 |
| chr17 | 424903 | 0.51% | 2107 |
| chr18 | 107611 | 0.13% | 562 |
| chr19 | 502352 | 0.86% | 2392 |
| chr20 | 196364 | 0.30% | 1023 |
| chr21 | 78912 | 0.17% | 402 |
| chr22 | 169092 | 0.33% | 848 |
| chrX | 170967 | 0.11% | 873 |
| chrY | 7624 | 0.01% | 36 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 35288 | 2 | 940 | 202.66 | 193 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF108GBD.bed.gz | 378.28 KB | 261164ac0895f4e8a1d6dfa4d31202f3 |
| ENCFF108GBD.tabix.bed.gz | 345.44 KB | 882f997a88efdd841be9c015ae597baf |
| ENCFF108GBD.tabix.bed.gz.tbi | 192.33 KB | 0a8069cd0e6551a13a2196a173c1c115 |
| genomic_resource.yaml | 2.45 KB | ac17a3c8b529a50a2a827ad73faee441 |
| statistics/ |