Resource
| Id | DNase-seq/ENCSR889WKL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR889WKL [biosample_summary="Homo sapiens HL-60"] |
| Description |
status: released biological_replicates: Rep 2 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 {ENCFF924PTR|/files/ENCFF924PTR/} 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_ENCSR889WKL | float |
DNase-seq_ENCSR889WKL |
DNase-seq ENCSR889WKL [biosample_summary="Homo sapiens HL-60"]
|
 |
[0.0369, 143] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 24228752 | 0.75% | 128393 |
| chr1 | 2332857 | 0.94% | 12347 |
| chr2 | 1803769 | 0.74% | 9681 |
| chr3 | 1463557 | 0.74% | 7838 |
| chr4 | 990774 | 0.52% | 5369 |
| chr5 | 1076038 | 0.59% | 5821 |
| chr6 | 1345062 | 0.79% | 7143 |
| chr7 | 1152867 | 0.72% | 6156 |
| chr8 | 1467966 | 1.01% | 7405 |
| chr9 | 1007869 | 0.73% | 5377 |
| chr10 | 1038312 | 0.78% | 5554 |
| chr11 | 1208928 | 0.89% | 6382 |
| chr12 | 1209627 | 0.91% | 6460 |
| chr13 | 595877 | 0.52% | 3194 |
| chr14 | 722762 | 0.68% | 3837 |
| chr15 | 813867 | 0.80% | 4358 |
| chr16 | 901842 | 1.00% | 4728 |
| chr17 | 1225930 | 1.47% | 6388 |
| chr18 | 495298 | 0.62% | 2630 |
| chr19 | 1126498 | 1.92% | 5747 |
| chr20 | 709609 | 1.10% | 3798 |
| chr21 | 292653 | 0.63% | 1546 |
| chr22 | 532067 | 1.05% | 2799 |
| chrX | 713486 | 0.46% | 3825 |
| chrY | 1237 | <0.01% | 10 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 128393 | 1 | 920 | 188.71 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF773SFA.bed.gz | 1.39 MB | bcf149031a45ab3aed8b48ef5c30ccaa |
| ENCFF773SFA.tabix.bed.gz | 1.27 MB | d63892ea00474f8223ba09b49552f95f |
| ENCFF773SFA.tabix.bed.gz.tbi | 458.44 KB | f5dd08c65f320d525d24e91b0e3f9483 |
| genomic_resource.yaml | 1.91 KB | adc3b1611ed8b5f12cb7a7bf2f773ac5 |
| statistics/ |