Resource
| Id | DNase-seq/ENCSR563CZB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR563CZB [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus 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 {ENCFF614LDP|/files/ENCFF614LDP/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.27. 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_ENCSR563CZB | float |
DNase-seq_ENCSR563CZB |
DNase-seq ENCSR563CZB [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus tissue female adult (90 or above years)"]
|
 |
[0.0669, 10.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 13650032 | 0.42% | 76787 |
| chr1 | 1246596 | 0.50% | 7005 |
| chr2 | 1142955 | 0.47% | 6491 |
| chr3 | 752847 | 0.38% | 4177 |
| chr4 | 402653 | 0.21% | 2231 |
| chr5 | 657794 | 0.36% | 3758 |
| chr6 | 592424 | 0.35% | 3385 |
| chr7 | 685672 | 0.43% | 3871 |
| chr8 | 592672 | 0.41% | 3357 |
| chr9 | 588386 | 0.43% | 3388 |
| chr10 | 689555 | 0.52% | 3928 |
| chr11 | 746409 | 0.55% | 4162 |
| chr12 | 621431 | 0.47% | 3458 |
| chr13 | 283990 | 0.25% | 1649 |
| chr14 | 448466 | 0.42% | 2503 |
| chr15 | 504935 | 0.50% | 2896 |
| chr16 | 578418 | 0.64% | 3217 |
| chr17 | 740651 | 0.89% | 4140 |
| chr18 | 253147 | 0.31% | 1476 |
| chr19 | 691928 | 1.18% | 3622 |
| chr20 | 476232 | 0.74% | 2724 |
| chr21 | 193996 | 0.42% | 1104 |
| chr22 | 498591 | 0.98% | 2764 |
| chrX | 259217 | 0.17% | 1472 |
| chrY | 1067 | <0.01% | 9 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 76787 | 1 | 880 | 177.76 | 178 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF523TDQ.bed.gz | 815.78 KB | 8d7297b4ff5c3766b4695da9b38cdaba |
| ENCFF523TDQ.tabix.bed.gz | 742.87 KB | 6ea72f422555e20f3ecad74d15d31eca |
| ENCFF523TDQ.tabix.bed.gz.tbi | 278.09 KB | 83a457821d8f4f7b9eb19f8f1cee4e1a |
| genomic_resource.yaml | 2.28 KB | c8f14a7dd56eeac0cd44a092bceb7b26 |
| statistics/ |