Resource
| Id | DNase-seq/ENCSR154NOT |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR154NOT [biosample_summary="Homo sapiens activated CD4-positive, alpha-beta 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: 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 {ENCFF879KDW|/files/ENCFF879KDW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. 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_ENCSR154NOT | float |
DNase-seq_ENCSR154NOT |
DNase-seq ENCSR154NOT [biosample_summary="Homo sapiens activated CD4-positive, alpha-beta 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"]
|
 |
[0.18, 24] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 9491532 | 0.30% | 51209 |
| chr1 | 972844 | 0.39% | 5211 |
| chr2 | 680822 | 0.28% | 3687 |
| chr3 | 554155 | 0.28% | 3007 |
| chr4 | 356532 | 0.19% | 1926 |
| chr5 | 441776 | 0.24% | 2413 |
| chr6 | 576573 | 0.34% | 3091 |
| chr7 | 423883 | 0.27% | 2343 |
| chr8 | 361035 | 0.25% | 1971 |
| chr9 | 379004 | 0.27% | 2044 |
| chr10 | 438049 | 0.33% | 2390 |
| chr11 | 468994 | 0.35% | 2556 |
| chr12 | 502159 | 0.38% | 2687 |
| chr13 | 206099 | 0.18% | 1113 |
| chr14 | 337975 | 0.32% | 1795 |
| chr15 | 307855 | 0.30% | 1680 |
| chr16 | 374134 | 0.41% | 2010 |
| chr17 | 534065 | 0.64% | 2829 |
| chr18 | 152540 | 0.19% | 841 |
| chr19 | 565536 | 0.96% | 2928 |
| chr20 | 249268 | 0.39% | 1392 |
| chr21 | 117416 | 0.25% | 631 |
| chr22 | 210841 | 0.41% | 1143 |
| chrX | 268195 | 0.17% | 1463 |
| chrY | 11782 | 0.02% | 58 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 51209 | 1 | 920 | 185.35 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF659TJW.bed.gz | 559.42 KB | a4c9cb77ed1f6fc2fe957d0765ce7397 |
| ENCFF659TJW.tabix.bed.gz | 507.46 KB | 9edd19b1d7a06f32ef2c5a823493460a |
| ENCFF659TJW.tabix.bed.gz.tbi | 254.04 KB | bbf2e0a0674f734a23a51c96180b2762 |
| genomic_resource.yaml | 2.6 KB | e26e6dfc08b06168d394c082a6971f4e |
| statistics/ |