Resource
| Id | DNase-seq/ENCSR022UVL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR022UVL [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex 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 {ENCFF143UWH|/files/ENCFF143UWH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.31. 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_ENCSR022UVL | float |
DNase-seq_ENCSR022UVL |
DNase-seq ENCSR022UVL [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)"]
|
 |
[0.0511, 15.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14934253 | 0.46% | 82455 |
| chr1 | 1355615 | 0.54% | 7473 |
| chr2 | 1285197 | 0.53% | 7077 |
| chr3 | 786731 | 0.40% | 4341 |
| chr4 | 482246 | 0.25% | 2673 |
| chr5 | 746316 | 0.41% | 4183 |
| chr6 | 721132 | 0.42% | 4023 |
| chr7 | 744519 | 0.47% | 4149 |
| chr8 | 654363 | 0.45% | 3614 |
| chr9 | 667104 | 0.48% | 3686 |
| chr10 | 879089 | 0.66% | 4895 |
| chr11 | 843454 | 0.62% | 4633 |
| chr12 | 662983 | 0.50% | 3603 |
| chr13 | 269915 | 0.24% | 1531 |
| chr14 | 490228 | 0.46% | 2729 |
| chr15 | 508230 | 0.50% | 2866 |
| chr16 | 573036 | 0.63% | 3129 |
| chr17 | 826484 | 0.99% | 4571 |
| chr18 | 274354 | 0.34% | 1557 |
| chr19 | 704046 | 1.20% | 3625 |
| chr20 | 504815 | 0.78% | 2829 |
| chr21 | 190204 | 0.41% | 1060 |
| chr22 | 476437 | 0.94% | 2622 |
| chrX | 286905 | 0.18% | 1578 |
| chrY | 850 | <0.01% | 8 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 82455 | 2 | 1000 | 181.12 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF303YZV.bed.gz | 877.94 KB | c6d8f86a47894e5444783018363e64bf |
| ENCFF303YZV.tabix.bed.gz | 798.84 KB | b7f87dcabc7309ebca14bcc800c87fe4 |
| ENCFF303YZV.tabix.bed.gz.tbi | 288.02 KB | d345d2682389a793010d5225bd917f26 |
| genomic_resource.yaml | 2.31 KB | 745a4194fb2d1454c36f5613af2ee459 |
| statistics/ |