Resource
| Id | DNase-seq/ENCSR872IXQ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR872IXQ [biosample_summary="Homo sapiens T-helper 2 cell male adult (30 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (30 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 {ENCFF984EJT|/files/ENCFF984EJT/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.40. 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_ENCSR872IXQ | float |
DNase-seq_ENCSR872IXQ |
DNase-seq ENCSR872IXQ [biosample_summary="Homo sapiens T-helper 2 cell male adult (30 years)"]
|
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[0.164, 29.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 5872104 | 0.18% | 31013 |
| chr1 | 615375 | 0.25% | 3242 |
| chr2 | 392309 | 0.16% | 2066 |
| chr3 | 316516 | 0.16% | 1662 |
| chr4 | 191297 | 0.10% | 992 |
| chr5 | 251005 | 0.14% | 1320 |
| chr6 | 318528 | 0.19% | 1679 |
| chr7 | 270892 | 0.17% | 1427 |
| chr8 | 219831 | 0.15% | 1190 |
| chr9 | 238964 | 0.17% | 1279 |
| chr10 | 254168 | 0.19% | 1355 |
| chr11 | 319842 | 0.24% | 1699 |
| chr12 | 299483 | 0.22% | 1568 |
| chr13 | 112152 | 0.10% | 568 |
| chr14 | 210696 | 0.20% | 1123 |
| chr15 | 183476 | 0.18% | 979 |
| chr16 | 245945 | 0.27% | 1292 |
| chr17 | 364051 | 0.44% | 1921 |
| chr18 | 80563 | 0.10% | 433 |
| chr19 | 440208 | 0.75% | 2273 |
| chr20 | 161307 | 0.25% | 902 |
| chr21 | 62517 | 0.13% | 343 |
| chr22 | 152189 | 0.30% | 811 |
| chrX | 164953 | 0.11% | 861 |
| chrY | 5837 | 0.01% | 28 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 31013 | 9 | 720 | 189.34 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF583LPJ.bed.gz | 344.89 KB | af936588342611c2a25fea24e08874ee |
| ENCFF583LPJ.tabix.bed.gz | 313.69 KB | b3100302c4eb6e1323ab226c0db75aaa |
| ENCFF583LPJ.tabix.bed.gz.tbi | 159.74 KB | cc5ded0756a5fbaa4a7a02a950808023 |
| genomic_resource.yaml | 2.02 KB | 7550dffd3063ce527e6249c6efa87eb6 |
| statistics/ |
