Resource
| Id | DNase-seq/ENCSR305WAA |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR305WAA [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue female adult (90 or above years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (90 or above years) with mild cognitive impairment 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 {ENCFF315HVS|/files/ENCFF315HVS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.32. 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_ENCSR305WAA | float |
DNase-seq_ENCSR305WAA |
DNase-seq ENCSR305WAA [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue female adult (90 or above years)"]
|
 |
[0.0845, 18.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 10582439 | 0.33% | 56361 |
| chr1 | 1030820 | 0.41% | 5493 |
| chr2 | 782031 | 0.32% | 4204 |
| chr3 | 607391 | 0.31% | 3243 |
| chr4 | 405274 | 0.21% | 2116 |
| chr5 | 527626 | 0.29% | 2842 |
| chr6 | 559533 | 0.33% | 2967 |
| chr7 | 510513 | 0.32% | 2764 |
| chr8 | 431577 | 0.30% | 2352 |
| chr9 | 468554 | 0.34% | 2473 |
| chr10 | 504545 | 0.38% | 2742 |
| chr11 | 584946 | 0.43% | 3104 |
| chr12 | 511789 | 0.38% | 2696 |
| chr13 | 211182 | 0.18% | 1138 |
| chr14 | 345035 | 0.32% | 1822 |
| chr15 | 384713 | 0.38% | 2039 |
| chr16 | 403104 | 0.45% | 2171 |
| chr17 | 577409 | 0.69% | 3021 |
| chr18 | 186216 | 0.23% | 1014 |
| chr19 | 594300 | 1.01% | 2985 |
| chr20 | 311513 | 0.48% | 1711 |
| chr21 | 125955 | 0.27% | 678 |
| chr22 | 252507 | 0.50% | 1361 |
| chrX | 265454 | 0.17% | 1421 |
| chrY | 452 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 56361 | 1 | 880 | 187.76 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF034FHR.bed.gz | 624.37 KB | 57031ec2a36ad0a536cff8a958d2b7bd |
| ENCFF034FHR.tabix.bed.gz | 566.75 KB | 59f05adcfb53d39fae3fe0bef7c4df1e |
| ENCFF034FHR.tabix.bed.gz.tbi | 267.48 KB | 8352116f7253ce744a757cd12eba6417 |
| genomic_resource.yaml | 2.29 KB | 5aaf4d0b460897ac44d240d26a368aed |
| statistics/ |