Resource
| Id | DNase-seq/ENCSR520WTV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR520WTV [biosample_summary="Homo sapiens SJSA1"] |
| 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 {ENCFF177HIF|/files/ENCFF177HIF/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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_ENCSR520WTV | float |
DNase-seq_ENCSR520WTV |
DNase-seq ENCSR520WTV [biosample_summary="Homo sapiens SJSA1"]
|
 |
[0.0287, 215] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 29623103 | 0.92% | 147264 |
| chr1 | 2461436 | 0.99% | 12194 |
| chr2 | 2665973 | 1.10% | 13226 |
| chr3 | 1077096 | 0.54% | 5673 |
| chr4 | 679546 | 0.36% | 3650 |
| chr5 | 2212274 | 1.22% | 10684 |
| chr6 | 1268362 | 0.74% | 6580 |
| chr7 | 1345921 | 0.84% | 6833 |
| chr8 | 1586016 | 1.09% | 7769 |
| chr9 | 891628 | 0.64% | 4556 |
| chr10 | 1666785 | 1.25% | 8388 |
| chr11 | 1493894 | 1.11% | 7256 |
| chr12 | 1954091 | 1.47% | 9269 |
| chr13 | 1494535 | 1.31% | 6904 |
| chr14 | 673219 | 0.63% | 3487 |
| chr15 | 1038075 | 1.02% | 5272 |
| chr16 | 1055915 | 1.17% | 5328 |
| chr17 | 1520728 | 1.83% | 7526 |
| chr18 | 609449 | 0.76% | 3063 |
| chr19 | 1089821 | 1.86% | 5466 |
| chr20 | 878112 | 1.36% | 4396 |
| chr21 | 450631 | 0.96% | 2245 |
| chr22 | 955087 | 1.88% | 4586 |
| chrX | 532339 | 0.34% | 2780 |
| chrY | 22170 | 0.04% | 133 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 147264 | 1 | 1131 | 201.16 | 182 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF317YIX.bed.gz | 1.5 MB | 1980d41992b28a5faeb42ae408db0f14 |
| ENCFF317YIX.tabix.bed.gz | 1.4 MB | 236c597af17d9698aac8c82c712535ab |
| ENCFF317YIX.tabix.bed.gz.tbi | 349.96 KB | b4d668b4e63feb4a9651ef1261ad4655 |
| genomic_resource.yaml | 1.91 KB | 7bfe4c1d60e622201788dfcb3b97f1ab |
| statistics/ |