Resource
| Id | DNase-seq/ENCSR502FPR |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR502FPR [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus 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 {ENCFF936XZE|/files/ENCFF936XZE/} processed by DNase-seq ENCODE4 v3.0.0 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_ENCSR502FPR | float |
DNase-seq_ENCSR502FPR |
DNase-seq ENCSR502FPR [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus tissue female adult (90 or above years)"]
|
 |
[0.0636, 10.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15339596 | 0.48% | 80231 |
| chr1 | 1368949 | 0.55% | 7145 |
| chr2 | 1315491 | 0.54% | 6846 |
| chr3 | 766564 | 0.39% | 4094 |
| chr4 | 474317 | 0.25% | 2470 |
| chr5 | 726655 | 0.40% | 3722 |
| chr6 | 634842 | 0.37% | 3318 |
| chr7 | 840768 | 0.53% | 4393 |
| chr8 | 675419 | 0.47% | 3450 |
| chr9 | 702835 | 0.51% | 3696 |
| chr10 | 892190 | 0.67% | 4679 |
| chr11 | 898287 | 0.66% | 4684 |
| chr12 | 565710 | 0.42% | 2954 |
| chr13 | 269509 | 0.24% | 1444 |
| chr14 | 536946 | 0.50% | 2820 |
| chr15 | 512640 | 0.50% | 2741 |
| chr16 | 614172 | 0.68% | 3303 |
| chr17 | 864293 | 1.04% | 4565 |
| chr18 | 255275 | 0.32% | 1343 |
| chr19 | 712781 | 1.22% | 3623 |
| chr20 | 482900 | 0.75% | 2637 |
| chr21 | 242626 | 0.52% | 1256 |
| chr22 | 694868 | 1.37% | 3580 |
| chrX | 290507 | 0.19% | 1459 |
| chrY | 1052 | <0.01% | 9 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 80231 | 2 | 1160 | 191.19 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF222KPO.bed.gz | 820.93 KB | 6b59290c663dc8282202cbd7a51cee25 |
| ENCFF222KPO.tabix.bed.gz | 755.63 KB | 18e8df02f669b9f0d00433d4c9d418ca |
| ENCFF222KPO.tabix.bed.gz.tbi | 226.98 KB | a01f319e01a7d9edce33d395bcb290c2 |
| genomic_resource.yaml | 2.28 KB | bcdfccb28f9c19ea421e9439dba6080e |
| statistics/ |