Resource
| Id | DNase-seq/ENCSR122NRV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR122NRV [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (78 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (78 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 {ENCFF593VRV|/files/ENCFF593VRV/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.31. 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_ENCSR122NRV | float |
DNase-seq_ENCSR122NRV |
DNase-seq ENCSR122NRV [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (78 years)"]
|
 |
[0.0449, 15.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15000737 | 0.47% | 83759 |
| chr1 | 1428069 | 0.57% | 7932 |
| chr2 | 1202521 | 0.50% | 6812 |
| chr3 | 831576 | 0.42% | 4686 |
| chr4 | 581118 | 0.31% | 3250 |
| chr5 | 703080 | 0.39% | 3978 |
| chr6 | 748049 | 0.44% | 4179 |
| chr7 | 735534 | 0.46% | 4123 |
| chr8 | 645545 | 0.44% | 3631 |
| chr9 | 674235 | 0.49% | 3757 |
| chr10 | 803386 | 0.60% | 4472 |
| chr11 | 839313 | 0.62% | 4683 |
| chr12 | 671884 | 0.50% | 3694 |
| chr13 | 333075 | 0.29% | 1912 |
| chr14 | 482840 | 0.45% | 2708 |
| chr15 | 550153 | 0.54% | 3075 |
| chr16 | 609896 | 0.68% | 3402 |
| chr17 | 742914 | 0.89% | 4071 |
| chr18 | 283117 | 0.35% | 1625 |
| chr19 | 726236 | 1.24% | 3826 |
| chr20 | 478086 | 0.74% | 2699 |
| chr21 | 163482 | 0.35% | 952 |
| chr22 | 411994 | 0.81% | 2292 |
| chrX | 353102 | 0.23% | 1986 |
| chrY | 1532 | <0.01% | 14 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 83759 | 3 | 840 | 179.09 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF825JOD.bed.gz | 916.24 KB | 90d051634dd63016e9ae88def878b861 |
| ENCFF825JOD.tabix.bed.gz | 834.47 KB | 1c3229ef6f155227f7d45670f66c357d |
| ENCFF825JOD.tabix.bed.gz.tbi | 325.35 KB | 08b971b2368a22dbaaed885584736592 |
| genomic_resource.yaml | 2.08 KB | 2d7f32279c8c529ed99b8c2054551ebc |
| statistics/ |