Resource
| Id | DNase-seq/ENCSR239MQN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR239MQN [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (82 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (82 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 {ENCFF265VQM|/files/ENCFF265VQM/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR239MQN | float |
DNase-seq_ENCSR239MQN |
DNase-seq ENCSR239MQN [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (82 years)"]
|
 |
[0.0944, 24.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 13762271 | 0.43% | 75299 |
| chr1 | 1320786 | 0.53% | 7155 |
| chr2 | 1027679 | 0.42% | 5749 |
| chr3 | 840660 | 0.42% | 4629 |
| chr4 | 570794 | 0.30% | 3166 |
| chr5 | 688314 | 0.38% | 3813 |
| chr6 | 744138 | 0.44% | 4103 |
| chr7 | 698751 | 0.44% | 3845 |
| chr8 | 602653 | 0.42% | 3359 |
| chr9 | 588145 | 0.42% | 3187 |
| chr10 | 655206 | 0.49% | 3610 |
| chr11 | 774329 | 0.57% | 4220 |
| chr12 | 688690 | 0.52% | 3736 |
| chr13 | 316217 | 0.28% | 1768 |
| chr14 | 450138 | 0.42% | 2485 |
| chr15 | 456588 | 0.45% | 2513 |
| chr16 | 530725 | 0.59% | 2841 |
| chr17 | 687589 | 0.83% | 3685 |
| chr18 | 267853 | 0.33% | 1537 |
| chr19 | 679273 | 1.16% | 3445 |
| chr20 | 388384 | 0.60% | 2142 |
| chr21 | 151754 | 0.32% | 843 |
| chr22 | 303025 | 0.60% | 1641 |
| chrX | 330340 | 0.21% | 1824 |
| chrY | 240 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 75299 | 1 | 900 | 182.77 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF067LRX.bed.gz | 828.67 KB | 811983c3b4f93d1839cd00ceb520c1c4 |
| ENCFF067LRX.tabix.bed.gz | 747.78 KB | 728c183fca230379eb137762a01d5098 |
| ENCFF067LRX.tabix.bed.gz.tbi | 365.48 KB | 6eb80d994866032eb38f371a9b273ee9 |
| genomic_resource.yaml | 2.07 KB | 6e91fb4c609539985dd3f214dc154a67 |
| statistics/ |