Resource
| Id | DNase-seq/ENCSR466SUZ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR466SUZ [biosample_summary="Homo sapiens activated T-cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 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 {ENCFF301BIC|/files/ENCFF301BIC/} 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_ENCSR466SUZ | float |
DNase-seq_ENCSR466SUZ |
DNase-seq ENCSR466SUZ [biosample_summary="Homo sapiens activated T-cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 1 hour, 50 U/mL Interleukin-2 for 1 hour"]
|
 |
[0.0816, 33] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 12817525 | 0.40% | 68443 |
| chr1 | 1289260 | 0.52% | 6855 |
| chr2 | 948141 | 0.39% | 5060 |
| chr3 | 744379 | 0.38% | 4005 |
| chr4 | 493215 | 0.26% | 2619 |
| chr5 | 615961 | 0.34% | 3292 |
| chr6 | 797711 | 0.47% | 4195 |
| chr7 | 595787 | 0.37% | 3176 |
| chr8 | 483307 | 0.33% | 2622 |
| chr9 | 503125 | 0.36% | 2705 |
| chr10 | 606902 | 0.45% | 3254 |
| chr11 | 631963 | 0.47% | 3375 |
| chr12 | 673879 | 0.51% | 3588 |
| chr13 | 300240 | 0.26% | 1589 |
| chr14 | 460024 | 0.43% | 2439 |
| chr15 | 418131 | 0.41% | 2265 |
| chr16 | 464310 | 0.51% | 2490 |
| chr17 | 704030 | 0.85% | 3733 |
| chr18 | 217243 | 0.27% | 1170 |
| chr19 | 692955 | 1.18% | 3613 |
| chr20 | 348051 | 0.54% | 1902 |
| chr21 | 153864 | 0.33% | 829 |
| chr22 | 276895 | 0.54% | 1499 |
| chrX | 380373 | 0.24% | 2070 |
| chrY | 17779 | 0.03% | 98 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 68443 | 2 | 880 | 187.27 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF871OII.bed.gz | 751.44 KB | 731a944654907f2fc5b844f96a9d090f |
| ENCFF871OII.tabix.bed.gz | 694.39 KB | c9d07950fac4946b6c06acd87bc3c5fa |
| ENCFF871OII.tabix.bed.gz.tbi | 294.1 KB | b5c0f147b937382f5a1b1fa436fe1e86 |
| genomic_resource.yaml | 2.51 KB | 5db7b3c420ad938732eb79330395fc4d |
| statistics/ |