Resource
| Id | DNase-seq/ENCSR329FHR |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR329FHR [biosample_summary="Homo sapiens with 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 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 {ENCFF508VVI|/files/ENCFF508VVI/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.27. 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_ENCSR329FHR | float |
DNase-seq_ENCSR329FHR |
DNase-seq ENCSR329FHR [biosample_summary="Homo sapiens with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)"]
|
 |
[0.0596, 13.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 12306301 | 0.38% | 63447 |
| chr1 | 1065847 | 0.43% | 5547 |
| chr2 | 1142884 | 0.47% | 5834 |
| chr3 | 601803 | 0.30% | 3125 |
| chr4 | 434565 | 0.23% | 2186 |
| chr5 | 595485 | 0.33% | 3065 |
| chr6 | 477261 | 0.28% | 2516 |
| chr7 | 702751 | 0.44% | 3624 |
| chr8 | 528963 | 0.36% | 2733 |
| chr9 | 534613 | 0.39% | 2797 |
| chr10 | 761204 | 0.57% | 3940 |
| chr11 | 754173 | 0.56% | 3820 |
| chr12 | 451237 | 0.34% | 2289 |
| chr13 | 233200 | 0.20% | 1230 |
| chr14 | 444357 | 0.42% | 2270 |
| chr15 | 470802 | 0.46% | 2450 |
| chr16 | 443862 | 0.49% | 2335 |
| chr17 | 615195 | 0.74% | 3240 |
| chr18 | 189668 | 0.24% | 1013 |
| chr19 | 504911 | 0.86% | 2541 |
| chr20 | 379766 | 0.59% | 1992 |
| chr21 | 190142 | 0.41% | 943 |
| chr22 | 503111 | 0.99% | 2499 |
| chrX | 279461 | 0.18% | 1449 |
| chrY | 1040 | <0.01% | 9 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 63447 | 1 | 1000 | 193.96 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF765WET.bed.gz | 648.65 KB | ab8badac598a960e13a52b36b75f270b |
| ENCFF765WET.tabix.bed.gz | 599.31 KB | 53760b79c2dee5c93de64acbfd44dd93 |
| ENCFF765WET.tabix.bed.gz.tbi | 188.94 KB | 4b30ed6d2f37414eed87c7834dd06bcf |
| genomic_resource.yaml | 2.28 KB | 2ba1e7ad54203807eaf0409bc0a66e5b |
| statistics/ |