Resource
| Id | DNase-seq/ENCSR814DYF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR814DYF [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue male adult (90 or above years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male 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 {ENCFF580TLN|/files/ENCFF580TLN/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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_ENCSR814DYF | float |
DNase-seq_ENCSR814DYF |
DNase-seq ENCSR814DYF [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue male adult (90 or above years)"]
|
 |
[0.057, 20.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 18192862 | 0.57% | 98381 |
| chr1 | 1722450 | 0.69% | 9244 |
| chr2 | 1356831 | 0.56% | 7447 |
| chr3 | 1075627 | 0.54% | 5856 |
| chr4 | 768454 | 0.40% | 4157 |
| chr5 | 925028 | 0.51% | 5045 |
| chr6 | 986116 | 0.58% | 5301 |
| chr7 | 913183 | 0.57% | 5032 |
| chr8 | 795087 | 0.55% | 4297 |
| chr9 | 778024 | 0.56% | 4202 |
| chr10 | 859878 | 0.64% | 4722 |
| chr11 | 1034375 | 0.77% | 5578 |
| chr12 | 885186 | 0.66% | 4754 |
| chr13 | 417300 | 0.36% | 2275 |
| chr14 | 607477 | 0.57% | 3265 |
| chr15 | 604452 | 0.59% | 3236 |
| chr16 | 693695 | 0.77% | 3728 |
| chr17 | 898593 | 1.08% | 4799 |
| chr18 | 359195 | 0.45% | 2009 |
| chr19 | 848877 | 1.45% | 4331 |
| chr20 | 536844 | 0.83% | 2913 |
| chr21 | 210700 | 0.45% | 1174 |
| chr22 | 425123 | 0.84% | 2282 |
| chrX | 471099 | 0.30% | 2621 |
| chrY | 19268 | 0.03% | 113 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 98381 | 1 | 860 | 184.92 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF856OGN.bed.gz | 1.06 MB | c98968e240d7342795d0f17877bd33fc |
| ENCFF856OGN.tabix.bed.gz | 984.95 KB | 2ec1e74b885b3a1e3d627a47707529ba |
| ENCFF856OGN.tabix.bed.gz.tbi | 420.86 KB | 009b542ab2ad336e2913790defbc1554 |
| genomic_resource.yaml | 2.26 KB | dcd95abb76124582c97aa77bf3ca2e7b |
| statistics/ |