Resource
| Id | DNase-seq/ENCSR000EQF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EQF [biosample_summary="Homo sapiens T-helper 17 cell"] |
| Description |
status: released biological_replicates: Rep 1 summary: 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 {ENCFF248FBZ|/files/ENCFF248FBZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.29. 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_ENCSR000EQF | float |
DNase-seq_ENCSR000EQF |
DNase-seq ENCSR000EQF [biosample_summary="Homo sapiens T-helper 17 cell"]
|
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[0.0342, 57.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14139880 | 0.44% | 74321 |
| chr1 | 1334208 | 0.54% | 7024 |
| chr2 | 1146270 | 0.47% | 6043 |
| chr3 | 926507 | 0.47% | 4853 |
| chr4 | 597336 | 0.31% | 3169 |
| chr5 | 710246 | 0.39% | 3727 |
| chr6 | 976583 | 0.57% | 5074 |
| chr7 | 665461 | 0.42% | 3531 |
| chr8 | 615257 | 0.42% | 3232 |
| chr9 | 581602 | 0.42% | 3070 |
| chr10 | 693559 | 0.52% | 3663 |
| chr11 | 645535 | 0.48% | 3427 |
| chr12 | 729571 | 0.55% | 3840 |
| chr13 | 345144 | 0.30% | 1804 |
| chr14 | 501161 | 0.47% | 2613 |
| chr15 | 466394 | 0.46% | 2475 |
| chr16 | 495400 | 0.55% | 2581 |
| chr17 | 679890 | 0.82% | 3551 |
| chr18 | 259646 | 0.32% | 1377 |
| chr19 | 589184 | 1.01% | 3005 |
| chr20 | 336517 | 0.52% | 1785 |
| chr21 | 165180 | 0.35% | 863 |
| chr22 | 270397 | 0.53% | 1438 |
| chrX | 408141 | 0.26% | 2171 |
| chrY | 691 | <0.01% | 5 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 74321 | 2 | 660 | 190.25 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF047UUQ.bed.gz | 832.47 KB | 79c2b996a41269190d45d0cf11f36c78 |
| ENCFF047UUQ.tabix.bed.gz | 758.38 KB | 1d121223d8eac015731c0ba57b674ca4 |
| ENCFF047UUQ.tabix.bed.gz.tbi | 316.2 KB | 1eb417f0d5d868dea431b73825dd1933 |
| genomic_resource.yaml | 1.95 KB | d67b90cf2483e86ee6147c54b8a1091f |
| statistics/ |
