Resource
| Id | DNase-seq/ENCSR923BEY |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR923BEY [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 {ENCFF610GJO|/files/ENCFF610GJO/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.30. 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_ENCSR923BEY | float |
DNase-seq_ENCSR923BEY |
DNase-seq ENCSR923BEY [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue female adult (90 or above years)"]
|
 |
[0.0721, 12.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 9717838 | 0.30% | 51738 |
| chr1 | 933050 | 0.37% | 4955 |
| chr2 | 692723 | 0.29% | 3738 |
| chr3 | 546488 | 0.28% | 2898 |
| chr4 | 404742 | 0.21% | 2120 |
| chr5 | 473696 | 0.26% | 2515 |
| chr6 | 517987 | 0.30% | 2730 |
| chr7 | 494264 | 0.31% | 2667 |
| chr8 | 435752 | 0.30% | 2330 |
| chr9 | 417234 | 0.30% | 2214 |
| chr10 | 457683 | 0.34% | 2441 |
| chr11 | 558805 | 0.41% | 3005 |
| chr12 | 474501 | 0.36% | 2518 |
| chr13 | 198893 | 0.17% | 1073 |
| chr14 | 326413 | 0.30% | 1785 |
| chr15 | 313943 | 0.31% | 1661 |
| chr16 | 374235 | 0.41% | 1996 |
| chr17 | 521848 | 0.63% | 2783 |
| chr18 | 165530 | 0.21% | 914 |
| chr19 | 575149 | 0.98% | 2906 |
| chr20 | 260247 | 0.40% | 1425 |
| chr21 | 111730 | 0.24% | 597 |
| chr22 | 233922 | 0.46% | 1271 |
| chrX | 228066 | 0.15% | 1189 |
| chrY | 937 | <0.01% | 7 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 51738 | 1 | 840 | 187.83 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF243HGU.bed.gz | 565.59 KB | 422237b4c397db469a7e704a41b7bb0f |
| ENCFF243HGU.tabix.bed.gz | 515.47 KB | d17778a49596223fad5c38fda9df5d0a |
| ENCFF243HGU.tabix.bed.gz.tbi | 246.75 KB | 46b4138cf83975b27a305e460123b419 |
| genomic_resource.yaml | 2.28 KB | a0f02eaa095b591ac1053d82f0627e3e |
| statistics/ |