Resource
| Id | DNase-seq/ENCSR749WVO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR749WVO [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (89 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (89 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 {ENCFF852OWB|/files/ENCFF852OWB/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR749WVO | float |
DNase-seq_ENCSR749WVO |
DNase-seq ENCSR749WVO [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (89 years)"]
|
 |
[0.0719, 26.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 12636075 | 0.39% | 66686 |
| chr1 | 1163510 | 0.47% | 6190 |
| chr2 | 1076434 | 0.44% | 5670 |
| chr3 | 658520 | 0.33% | 3509 |
| chr4 | 462385 | 0.24% | 2444 |
| chr5 | 613706 | 0.34% | 3232 |
| chr6 | 573381 | 0.34% | 3074 |
| chr7 | 601913 | 0.38% | 3213 |
| chr8 | 565240 | 0.39% | 2993 |
| chr9 | 607476 | 0.44% | 3163 |
| chr10 | 699041 | 0.52% | 3644 |
| chr11 | 723540 | 0.54% | 3813 |
| chr12 | 517551 | 0.39% | 2729 |
| chr13 | 258855 | 0.23% | 1352 |
| chr14 | 463760 | 0.43% | 2462 |
| chr15 | 423453 | 0.42% | 2245 |
| chr16 | 458345 | 0.51% | 2442 |
| chr17 | 634224 | 0.76% | 3335 |
| chr18 | 261944 | 0.33% | 1391 |
| chr19 | 605003 | 1.03% | 3085 |
| chr20 | 392829 | 0.61% | 2055 |
| chr21 | 192598 | 0.41% | 1033 |
| chr22 | 396266 | 0.78% | 2056 |
| chrX | 273732 | 0.18% | 1482 |
| chrY | 12369 | 0.02% | 74 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 66686 | 1 | 1200 | 189.49 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF945ZQU.bed.gz | 727.5 KB | b35a4516669689c3bb6355114c35325d |
| ENCFF945ZQU.tabix.bed.gz | 664.24 KB | ba85d146c660a47da3f0c96d38ab54c9 |
| ENCFF945ZQU.tabix.bed.gz.tbi | 255.91 KB | 4aabc99637974844dfe01d6f720fcb3c |
| genomic_resource.yaml | 2.25 KB | 5c4120c3ab013bca00a16ab897272f1c |
| statistics/ |