Resource
| Id | DNase-seq/ENCSR324NVG |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR324NVG [biosample_summary="Homo sapiens posterior vena cava tissue female adult (47 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (47 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 {ENCFF019WJX|/files/ENCFF019WJX/} 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_ENCSR324NVG | float |
DNase-seq_ENCSR324NVG |
DNase-seq ENCSR324NVG [biosample_summary="Homo sapiens posterior vena cava tissue female adult (47 years)"]
|
 |
[0.0309, 16.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 52858618 | 1.64% | 267654 |
| chr1 | 4642609 | 1.86% | 23463 |
| chr2 | 4304171 | 1.78% | 21672 |
| chr3 | 2500689 | 1.26% | 12811 |
| chr4 | 1653606 | 0.87% | 8431 |
| chr5 | 2162034 | 1.19% | 11055 |
| chr6 | 1936364 | 1.13% | 10096 |
| chr7 | 3013363 | 1.89% | 15087 |
| chr8 | 2088219 | 1.44% | 10510 |
| chr9 | 2395698 | 1.73% | 12045 |
| chr10 | 2879546 | 2.15% | 14651 |
| chr11 | 3439956 | 2.55% | 16879 |
| chr12 | 2240692 | 1.68% | 11545 |
| chr13 | 811435 | 0.71% | 4286 |
| chr14 | 1792836 | 1.67% | 8855 |
| chr15 | 1892177 | 1.86% | 9641 |
| chr16 | 2543154 | 2.82% | 12957 |
| chr17 | 3424100 | 4.11% | 17329 |
| chr18 | 775256 | 0.96% | 4095 |
| chr19 | 2090058 | 3.57% | 10468 |
| chr20 | 2012644 | 3.12% | 10203 |
| chr21 | 983893 | 2.11% | 4854 |
| chr22 | 2081959 | 4.10% | 10293 |
| chrX | 1189164 | 0.76% | 6387 |
| chrY | 4995 | 0.01% | 41 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 267654 | 1 | 1080 | 197.49 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF619MAD.bed.gz | 2.55 MB | 358ac0510b925704765baec0ce6b2521 |
| ENCFF619MAD.tabix.bed.gz | 2.4 MB | 2a167c15f476502205a309e832e9c421 |
| ENCFF619MAD.tabix.bed.gz.tbi | 353.44 KB | 76172937732d468e22baa4831826d91a |
| genomic_resource.yaml | 2.06 KB | da51bb1320306f302fca05f5d2f9412e |
| statistics/ |