Resource
| Id | DNase-seq/ENCSR671YPX |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR671YPX [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (77 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (77 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 {ENCFF796UYJ|/files/ENCFF796UYJ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.28. 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_ENCSR671YPX | float |
DNase-seq_ENCSR671YPX |
DNase-seq ENCSR671YPX [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (77 years)"]
|
 |
[0.06, 11.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 11936226 | 0.37% | 62679 |
| chr1 | 1178592 | 0.47% | 6179 |
| chr2 | 898943 | 0.37% | 4843 |
| chr3 | 652585 | 0.33% | 3420 |
| chr4 | 425302 | 0.22% | 2190 |
| chr5 | 584393 | 0.32% | 3084 |
| chr6 | 610590 | 0.36% | 3192 |
| chr7 | 578233 | 0.36% | 3072 |
| chr8 | 486289 | 0.34% | 2592 |
| chr9 | 508994 | 0.37% | 2665 |
| chr10 | 621593 | 0.46% | 3278 |
| chr11 | 674023 | 0.50% | 3553 |
| chr12 | 572572 | 0.43% | 2922 |
| chr13 | 239619 | 0.21% | 1262 |
| chr14 | 397611 | 0.37% | 2052 |
| chr15 | 405740 | 0.40% | 2134 |
| chr16 | 476664 | 0.53% | 2531 |
| chr17 | 637546 | 0.77% | 3276 |
| chr18 | 210734 | 0.26% | 1137 |
| chr19 | 669176 | 1.14% | 3354 |
| chr20 | 362782 | 0.56% | 1979 |
| chr21 | 130109 | 0.28% | 711 |
| chr22 | 318676 | 0.63% | 1686 |
| chrX | 294650 | 0.19% | 1561 |
| chrY | 810 | <0.01% | 6 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 62679 | 1 | 880 | 190.43 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF980SGP.bed.gz | 687.61 KB | abde09ecd67108fd7c35e14f6480e456 |
| ENCFF980SGP.tabix.bed.gz | 628.82 KB | 443556a1c8290a832929abe2f83edd93 |
| ENCFF980SGP.tabix.bed.gz.tbi | 270.32 KB | 6184a1a96b3c2a4acbd3e9d72252686b |
| genomic_resource.yaml | 2.08 KB | dbedd36b35da47a0f6eb2b158fd54918 |
| statistics/ |