Resource
| Id | DNase-seq/ENCSR059NIN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR059NIN [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (90 or above years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male 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 {ENCFF397NNU|/files/ENCFF397NNU/} 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_ENCSR059NIN | float |
DNase-seq_ENCSR059NIN |
DNase-seq ENCSR059NIN [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue male adult (90 or above years)"]
|
 |
[0.0631, 15.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 13992605 | 0.43% | 74344 |
| chr1 | 1291072 | 0.52% | 6858 |
| chr2 | 1203042 | 0.50% | 6397 |
| chr3 | 789941 | 0.40% | 4200 |
| chr4 | 508717 | 0.27% | 2676 |
| chr5 | 726892 | 0.40% | 3837 |
| chr6 | 694141 | 0.41% | 3686 |
| chr7 | 696205 | 0.44% | 3715 |
| chr8 | 619968 | 0.43% | 3321 |
| chr9 | 623061 | 0.45% | 3286 |
| chr10 | 825480 | 0.62% | 4392 |
| chr11 | 772649 | 0.57% | 4132 |
| chr12 | 563603 | 0.42% | 2979 |
| chr13 | 284886 | 0.25% | 1536 |
| chr14 | 481082 | 0.45% | 2495 |
| chr15 | 517174 | 0.51% | 2765 |
| chr16 | 475584 | 0.53% | 2552 |
| chr17 | 671426 | 0.81% | 3602 |
| chr18 | 279562 | 0.35% | 1500 |
| chr19 | 652167 | 1.11% | 3338 |
| chr20 | 441725 | 0.69% | 2410 |
| chr21 | 162940 | 0.35% | 866 |
| chr22 | 389974 | 0.77% | 2078 |
| chrX | 308911 | 0.20% | 1658 |
| chrY | 12403 | 0.02% | 65 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 74344 | 1 | 1040 | 188.21 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF562TNJ.bed.gz | 801.05 KB | fd30c644f1bc1665b6b9408338386271 |
| ENCFF562TNJ.tabix.bed.gz | 732.92 KB | 8b8c89a5ba279da0b597a285370fd838 |
| ENCFF562TNJ.tabix.bed.gz.tbi | 280.95 KB | ce85071ec0bf5afc5bd70bf619dfe601 |
| genomic_resource.yaml | 2.29 KB | e851d9e7911e9ec927e06fe035c0b24c |
| statistics/ |