Resource
| Id | DNase-seq/ENCSR398CXD |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR398CXD [biosample_summary="Homo sapiens CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult (24 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (24 years) 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 {ENCFF560EBB|/files/ENCFF560EBB/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR398CXD | float |
DNase-seq_ENCSR398CXD |
DNase-seq ENCSR398CXD [biosample_summary="Homo sapiens CD4-positive, CD25-positive, alpha-beta regulatory T cell male adult (24 years)"]
|
 |
[0.158, 35.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 5588619 | 0.17% | 29095 |
| chr1 | 572498 | 0.23% | 2982 |
| chr2 | 377037 | 0.16% | 1932 |
| chr3 | 297863 | 0.15% | 1545 |
| chr4 | 183822 | 0.10% | 957 |
| chr5 | 242933 | 0.13% | 1271 |
| chr6 | 322983 | 0.19% | 1684 |
| chr7 | 252097 | 0.16% | 1320 |
| chr8 | 196404 | 0.14% | 1044 |
| chr9 | 219351 | 0.16% | 1157 |
| chr10 | 235205 | 0.18% | 1239 |
| chr11 | 288665 | 0.21% | 1513 |
| chr12 | 288798 | 0.22% | 1494 |
| chr13 | 109642 | 0.10% | 551 |
| chr14 | 203897 | 0.19% | 1053 |
| chr15 | 176863 | 0.17% | 938 |
| chr16 | 239361 | 0.26% | 1253 |
| chr17 | 358501 | 0.43% | 1875 |
| chr18 | 78067 | 0.10% | 415 |
| chr19 | 425536 | 0.73% | 2137 |
| chr20 | 152382 | 0.24% | 826 |
| chr21 | 59360 | 0.13% | 310 |
| chr22 | 142997 | 0.28% | 753 |
| chrX | 157280 | 0.10% | 813 |
| chrY | 7077 | 0.01% | 33 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 29095 | 2 | 720 | 192.08 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF213LJI.bed.gz | 327.69 KB | 65709f68d39433e38eccddc886c29d5a |
| ENCFF213LJI.tabix.bed.gz | 297.62 KB | 2e27b4475dfbaaf58a78ebffaa250d59 |
| ENCFF213LJI.tabix.bed.gz.tbi | 161.54 KB | c771eb9062bc0c75ef098b45f3c6ad8e |
| genomic_resource.yaml | 2.15 KB | b7d3e9a91b4572d87e449304483e53c1 |
| statistics/ |