Resource
| Id | DNase-seq/ENCSR859HEW |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR859HEW [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 {ENCFF988IAR|/files/ENCFF988IAR/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.26. 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_ENCSR859HEW | float |
DNase-seq_ENCSR859HEW |
DNase-seq ENCSR859HEW [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus tissue female adult (90 or above years)"]
|
 |
[0.0881, 10.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 5761209 | 0.18% | 32097 |
| chr1 | 553930 | 0.22% | 3080 |
| chr2 | 410508 | 0.17% | 2322 |
| chr3 | 338832 | 0.17% | 1903 |
| chr4 | 219841 | 0.12% | 1214 |
| chr5 | 279355 | 0.15% | 1593 |
| chr6 | 303110 | 0.18% | 1689 |
| chr7 | 259696 | 0.16% | 1460 |
| chr8 | 255331 | 0.18% | 1480 |
| chr9 | 275491 | 0.20% | 1541 |
| chr10 | 256186 | 0.19% | 1446 |
| chr11 | 358880 | 0.27% | 2000 |
| chr12 | 292411 | 0.22% | 1596 |
| chr13 | 106297 | 0.09% | 602 |
| chr14 | 191827 | 0.18% | 1073 |
| chr15 | 184829 | 0.18% | 1034 |
| chr16 | 229135 | 0.25% | 1247 |
| chr17 | 307147 | 0.37% | 1698 |
| chr18 | 92427 | 0.11% | 554 |
| chr19 | 351695 | 0.60% | 1784 |
| chr20 | 156620 | 0.24% | 900 |
| chr21 | 56548 | 0.12% | 332 |
| chr22 | 140746 | 0.28% | 798 |
| chrX | 139992 | 0.09% | 748 |
| chrY | 375 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 32097 | 1 | 840 | 179.49 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF881MYD.bed.gz | 353.74 KB | 35133c12d18c065f00e02f093cac0710 |
| ENCFF881MYD.tabix.bed.gz | 318.36 KB | f9e46d7edd44eb092d2856244638175e |
| ENCFF881MYD.tabix.bed.gz.tbi | 188.32 KB | 46df16596e19960fe133c91874157c1e |
| genomic_resource.yaml | 2.28 KB | 26ed2b6007a1ae6ddd0823c8543e3c05 |
| statistics/ |