Resource
| Id | DNase-seq/ENCSR888ZIZ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR888ZIZ [biosample_summary="Homo sapiens head of caudate nucleus tissue male adult (85 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (85 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 {ENCFF491SNH|/files/ENCFF491SNH/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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_ENCSR888ZIZ | float |
DNase-seq_ENCSR888ZIZ |
DNase-seq ENCSR888ZIZ [biosample_summary="Homo sapiens head of caudate nucleus tissue male adult (85 years)"]
|
 |
[0.0554, 16.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 16429516 | 0.51% | 89283 |
| chr1 | 1493940 | 0.60% | 8095 |
| chr2 | 1387130 | 0.57% | 7493 |
| chr3 | 857477 | 0.43% | 4709 |
| chr4 | 530405 | 0.28% | 2877 |
| chr5 | 861175 | 0.47% | 4661 |
| chr6 | 863767 | 0.51% | 4659 |
| chr7 | 795875 | 0.50% | 4443 |
| chr8 | 716536 | 0.49% | 3986 |
| chr9 | 729655 | 0.53% | 3926 |
| chr10 | 962612 | 0.72% | 5293 |
| chr11 | 950240 | 0.70% | 5148 |
| chr12 | 688847 | 0.52% | 3682 |
| chr13 | 334630 | 0.29% | 1839 |
| chr14 | 591986 | 0.55% | 3187 |
| chr15 | 625261 | 0.61% | 3402 |
| chr16 | 604789 | 0.67% | 3324 |
| chr17 | 811886 | 0.98% | 4376 |
| chr18 | 335182 | 0.42% | 1855 |
| chr19 | 761288 | 1.30% | 3956 |
| chr20 | 520051 | 0.81% | 2861 |
| chr21 | 213232 | 0.46% | 1168 |
| chr22 | 469900 | 0.92% | 2579 |
| chrX | 310891 | 0.20% | 1695 |
| chrY | 12761 | 0.02% | 69 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 89283 | 1 | 980 | 184.02 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF570VBF.bed.gz | 954.22 KB | 2ff0f26b40378ab3938d6c85ee6e6e4f |
| ENCFF570VBF.tabix.bed.gz | 873.29 KB | 57ba150fa0c62f6b58471976fc7bc142 |
| ENCFF570VBF.tabix.bed.gz.tbi | 290.96 KB | eebaec1ba716f2375371f986b72da77c |
| genomic_resource.yaml | 2.06 KB | 81e137aa3394f1c418de3d8c9595d171 |
| statistics/ |