Resource
| Id | DNase-seq/ENCSR534RXN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR534RXN [biosample_summary="Homo sapiens CD4-positive, CD25-positive, alpha-beta regulatory T cell female adult (21 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (21 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 {ENCFF363YTA|/files/ENCFF363YTA/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.26. 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_ENCSR534RXN | float |
DNase-seq_ENCSR534RXN |
DNase-seq ENCSR534RXN [biosample_summary="Homo sapiens CD4-positive, CD25-positive, alpha-beta regulatory T cell female adult (21 years)"]
|
 |
[0.0535, 28] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 8572615 | 0.27% | 41921 |
| chr1 | 870139 | 0.35% | 4237 |
| chr2 | 602883 | 0.25% | 2946 |
| chr3 | 463295 | 0.23% | 2307 |
| chr4 | 279589 | 0.15% | 1334 |
| chr5 | 382386 | 0.21% | 1867 |
| chr6 | 499141 | 0.29% | 2408 |
| chr7 | 387654 | 0.24% | 1932 |
| chr8 | 335456 | 0.23% | 1678 |
| chr9 | 329054 | 0.24% | 1618 |
| chr10 | 385796 | 0.29% | 1889 |
| chr11 | 438681 | 0.32% | 2170 |
| chr12 | 443036 | 0.33% | 2134 |
| chr13 | 172963 | 0.15% | 808 |
| chr14 | 309001 | 0.29% | 1495 |
| chr15 | 272858 | 0.27% | 1359 |
| chr16 | 343010 | 0.38% | 1693 |
| chr17 | 542087 | 0.65% | 2616 |
| chr18 | 123144 | 0.15% | 612 |
| chr19 | 561894 | 0.96% | 2657 |
| chr20 | 229274 | 0.36% | 1166 |
| chr21 | 113258 | 0.24% | 574 |
| chr22 | 225915 | 0.44% | 1112 |
| chrX | 261757 | 0.17% | 1306 |
| chrY | 344 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 41921 | 1 | 940 | 204.49 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF478ZBE.bed.gz | 470.14 KB | e3014546a2f76a22f3b759cef28f9312 |
| ENCFF478ZBE.tabix.bed.gz | 431.38 KB | b790a22f59cd64320ab225c2989e833d |
| ENCFF478ZBE.tabix.bed.gz.tbi | 202.85 KB | 1900fef6eba2b4552d903b9ee2f05f72 |
| genomic_resource.yaml | 2.15 KB | c050b9eabcc24e6c3f23a85b7b6d7a02 |
| statistics/ |