Resource
| Id | DNase-seq/ENCSR424JPH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR424JPH [biosample_summary="Homo sapiens CD8-positive, alpha-beta T cell female adult (33 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (33 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 {ENCFF934OOR|/files/ENCFF934OOR/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.39. 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_ENCSR424JPH | float |
DNase-seq_ENCSR424JPH |
DNase-seq ENCSR424JPH [biosample_summary="Homo sapiens CD8-positive, alpha-beta T cell female adult (33 years)"]
|
 |
[0.0474, 36.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 12233119 | 0.38% | 63140 |
| chr1 | 1066017 | 0.43% | 5551 |
| chr2 | 964391 | 0.40% | 4994 |
| chr3 | 575499 | 0.29% | 2985 |
| chr4 | 410233 | 0.22% | 2094 |
| chr5 | 486123 | 0.27% | 2540 |
| chr6 | 514521 | 0.30% | 2765 |
| chr7 | 646886 | 0.41% | 3267 |
| chr8 | 517703 | 0.36% | 2629 |
| chr9 | 554829 | 0.40% | 2862 |
| chr10 | 647090 | 0.48% | 3286 |
| chr11 | 722260 | 0.53% | 3697 |
| chr12 | 458592 | 0.34% | 2403 |
| chr13 | 235483 | 0.21% | 1171 |
| chr14 | 443622 | 0.41% | 2312 |
| chr15 | 374155 | 0.37% | 1970 |
| chr16 | 517766 | 0.57% | 2737 |
| chr17 | 754009 | 0.91% | 3908 |
| chr18 | 190030 | 0.24% | 1000 |
| chr19 | 653786 | 1.12% | 3332 |
| chr20 | 417509 | 0.65% | 2158 |
| chr21 | 236424 | 0.51% | 1167 |
| chr22 | 544542 | 1.07% | 2711 |
| chrX | 300510 | 0.19% | 1592 |
| chrY | 1139 | <0.01% | 9 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 63140 | 1 | 1120 | 193.75 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF887MDX.bed.gz | 674.44 KB | 0f230d4c63f1cd2934686ddaa25758b4 |
| ENCFF887MDX.tabix.bed.gz | 622.14 KB | 4a698adebd741e8e9bf2e44e12cefd30 |
| ENCFF887MDX.tabix.bed.gz.tbi | 203.31 KB | e1f496c12a4a262428d4e00848b948ed |
| genomic_resource.yaml | 2.09 KB | 53c143cddbbcaf18e1263b2b427d4d84 |
| statistics/ |