Resource
| Id | DNase-seq/ENCSR276MDV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR276MDV [biosample_summary="Homo sapiens head of caudate nucleus tissue male adult (87 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (87 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 {ENCFF595CQR|/files/ENCFF595CQR/} processed by DNase-seq ENCODE4 v3.0.0 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_ENCSR276MDV | float |
DNase-seq_ENCSR276MDV |
DNase-seq ENCSR276MDV [biosample_summary="Homo sapiens head of caudate nucleus tissue male adult (87 years)"]
|
 |
[0.0761, 21.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 13846751 | 0.43% | 74174 |
| chr1 | 1274993 | 0.51% | 6806 |
| chr2 | 1040051 | 0.43% | 5677 |
| chr3 | 770914 | 0.39% | 4087 |
| chr4 | 522501 | 0.27% | 2781 |
| chr5 | 687872 | 0.38% | 3703 |
| chr6 | 696116 | 0.41% | 3713 |
| chr7 | 650419 | 0.41% | 3557 |
| chr8 | 582954 | 0.40% | 3154 |
| chr9 | 630193 | 0.46% | 3379 |
| chr10 | 708419 | 0.53% | 3865 |
| chr11 | 780273 | 0.58% | 4143 |
| chr12 | 635588 | 0.48% | 3343 |
| chr13 | 279378 | 0.24% | 1532 |
| chr14 | 478495 | 0.45% | 2566 |
| chr15 | 461793 | 0.45% | 2483 |
| chr16 | 539957 | 0.60% | 2894 |
| chr17 | 752079 | 0.90% | 3951 |
| chr18 | 264357 | 0.33% | 1452 |
| chr19 | 734424 | 1.25% | 3725 |
| chr20 | 437036 | 0.68% | 2375 |
| chr21 | 187679 | 0.40% | 1019 |
| chr22 | 373005 | 0.73% | 2030 |
| chrX | 345150 | 0.22% | 1868 |
| chrY | 13105 | 0.02% | 71 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 74174 | 2 | 916 | 186.68 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF290LOQ.bed.gz | 814.71 KB | 70f964fa4e2ba33799b45d7f3de202dc |
| ENCFF290LOQ.tabix.bed.gz | 738.9 KB | 0d03f006b22b83138cf5a63231db7d99 |
| ENCFF290LOQ.tabix.bed.gz.tbi | 305.36 KB | 6cec8a269660a1561929bb3c917ecb4a |
| genomic_resource.yaml | 2.06 KB | bdd2f1b5ac8341c98edb8e9f83aee8a9 |
| statistics/ |