Resource
| Id | DNase-seq/ENCSR289GZQ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR289GZQ [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (38 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (38 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 {ENCFF822DKY|/files/ENCFF822DKY/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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_ENCSR289GZQ | float |
DNase-seq_ENCSR289GZQ |
DNase-seq ENCSR289GZQ [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (38 years)"]
|
 |
[0.0713, 20.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 13722638 | 0.43% | 67637 |
| chr1 | 1252006 | 0.50% | 6168 |
| chr2 | 1344587 | 0.56% | 6704 |
| chr3 | 689186 | 0.35% | 3359 |
| chr4 | 361759 | 0.19% | 1741 |
| chr5 | 631395 | 0.35% | 3108 |
| chr6 | 627969 | 0.37% | 3032 |
| chr7 | 718548 | 0.45% | 3585 |
| chr8 | 570360 | 0.39% | 2739 |
| chr9 | 599220 | 0.43% | 2965 |
| chr10 | 859333 | 0.64% | 4216 |
| chr11 | 772776 | 0.57% | 3843 |
| chr12 | 480182 | 0.36% | 2411 |
| chr13 | 287875 | 0.25% | 1427 |
| chr14 | 509121 | 0.48% | 2532 |
| chr15 | 560619 | 0.55% | 2779 |
| chr16 | 473848 | 0.52% | 2363 |
| chr17 | 728173 | 0.87% | 3631 |
| chr18 | 266050 | 0.33% | 1287 |
| chr19 | 613453 | 1.05% | 2984 |
| chr20 | 441174 | 0.68% | 2216 |
| chr21 | 227640 | 0.49% | 1093 |
| chr22 | 485524 | 0.96% | 2369 |
| chrX | 215144 | 0.14% | 1054 |
| chrY | 6696 | 0.01% | 31 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 67637 | 1 | 1124 | 202.89 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF652LBN.bed.gz | 683.26 KB | 1a8a59f01a85e10a40d4748422aed2d0 |
| ENCFF652LBN.tabix.bed.gz | 631.49 KB | e8a5e2ae0dcb47f9e33993537768c460 |
| ENCFF652LBN.tabix.bed.gz.tbi | 184.29 KB | 59f82fcc9e23a501469cec0fe25e6bf1 |
| genomic_resource.yaml | 2.08 KB | ba45c23b5252a542b544e852173652e3 |
| statistics/ |