Resource
| Id | DNase-seq/ENCSR709IYR |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR709IYR [biosample_summary="Homo sapiens suprapubic skin tissue male adult (54 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (54 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN676PEN|/analyses/ENCAN676PEN/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} 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 {ENCFF842PJM|/files/ENCFF842PJM/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) 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/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR709IYR | float |
DNase-seq_ENCSR709IYR |
DNase-seq ENCSR709IYR [biosample_summary="Homo sapiens suprapubic skin tissue male adult (54 years)"]
|
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[6, 2.51e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 1961962 | 0.06% | 13058 |
| chr1 | 200749 | 0.08% | 1338 |
| chr2 | 129278 | 0.05% | 862 |
| chr3 | 116046 | 0.06% | 771 |
| chr4 | 68657 | 0.04% | 457 |
| chr5 | 85427 | 0.05% | 570 |
| chr6 | 99087 | 0.06% | 655 |
| chr7 | 91449 | 0.06% | 610 |
| chr8 | 83938 | 0.06% | 559 |
| chr9 | 75849 | 0.05% | 506 |
| chr10 | 82347 | 0.06% | 546 |
| chr11 | 105000 | 0.08% | 699 |
| chr12 | 105227 | 0.08% | 696 |
| chr13 | 35092 | 0.03% | 235 |
| chr14 | 68722 | 0.06% | 456 |
| chr15 | 61339 | 0.06% | 408 |
| chr16 | 84956 | 0.09% | 565 |
| chr17 | 115442 | 0.14% | 771 |
| chr18 | 27000 | 0.03% | 180 |
| chr19 | 156000 | 0.27% | 1040 |
| chr20 | 51856 | 0.08% | 345 |
| chr21 | 25800 | 0.06% | 169 |
| chr22 | 39544 | 0.08% | 264 |
| chrX | 49857 | 0.03% | 334 |
| chrY | 3300 | 0.01% | 22 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 13058 | 37 | 300 | 150.25 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF752SEF.bed.gz | 134.02 KB | 6781dfaa8222ea8ee23930cbfee32a35 |
| ENCFF752SEF.tabix.bed.gz | 113.56 KB | 6f3d6f14a3182c566ce5ae64942849e1 |
| ENCFF752SEF.tabix.bed.gz.tbi | 91.38 KB | 968f6c2425bee7cf3c9d0cbec391bb48 |
| genomic_resource.yaml | 2.2 KB | 88464487ff486be6c428ea1f9ca50ef4 |
| statistics/ |
