Resource
| Id | DNase-seq/ENCSR410MFU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR410MFU [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue female adult (88 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (88 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 {ENCFF389DQK|/files/ENCFF389DQK/} 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_ENCSR410MFU | float |
DNase-seq_ENCSR410MFU |
DNase-seq ENCSR410MFU [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue female adult (88 years)"]
|
 |
[0.0349, 20.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 29767194 | 0.93% | 143234 |
| chr1 | 2725100 | 1.09% | 12891 |
| chr2 | 2584281 | 1.07% | 12522 |
| chr3 | 1678012 | 0.85% | 8096 |
| chr4 | 1039524 | 0.55% | 4973 |
| chr5 | 1449345 | 0.80% | 7033 |
| chr6 | 1533449 | 0.90% | 7310 |
| chr7 | 1555129 | 0.98% | 7530 |
| chr8 | 1346255 | 0.93% | 6478 |
| chr9 | 1278093 | 0.92% | 6146 |
| chr10 | 1737814 | 1.30% | 8388 |
| chr11 | 1608005 | 1.19% | 7692 |
| chr12 | 1254700 | 0.94% | 6005 |
| chr13 | 699589 | 0.61% | 3393 |
| chr14 | 989817 | 0.92% | 4733 |
| chr15 | 1104938 | 1.08% | 5416 |
| chr16 | 1076193 | 1.19% | 5219 |
| chr17 | 1369594 | 1.65% | 6510 |
| chr18 | 703528 | 0.88% | 3454 |
| chr19 | 1184035 | 2.02% | 5561 |
| chr20 | 999789 | 1.55% | 4815 |
| chr21 | 373275 | 0.80% | 1826 |
| chr22 | 780362 | 1.54% | 3789 |
| chrX | 695468 | 0.45% | 3447 |
| chrY | 899 | <0.01% | 7 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 143234 | 1 | 1080 | 207.82 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF903YKY.bed.gz | 1.49 MB | debf7fed2de4aa62466746dac89eb999 |
| ENCFF903YKY.tabix.bed.gz | 1.37 MB | b1bdb9c74327d137473a679fb70cb190 |
| ENCFF903YKY.tabix.bed.gz.tbi | 434.62 KB | ecb572878202868cd83b1b4517387510 |
| genomic_resource.yaml | 2.23 KB | e5721e572aaf2ffffeab5e6c84d5b927 |
| statistics/ |