Resource
| Id | DNase-seq/ENCSR729TYE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR729TYE [biosample_summary="Homo sapiens posterior cingulate gyrus tissue female adult (90 or above years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (90 or above years) 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 {ENCFF793FTR|/files/ENCFF793FTR/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. 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_ENCSR729TYE | float |
DNase-seq_ENCSR729TYE |
DNase-seq ENCSR729TYE [biosample_summary="Homo sapiens posterior cingulate gyrus tissue female adult (90 or above years)"]
|
 |
[0.0615, 14.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19926682 | 0.62% | 103892 |
| chr1 | 1801659 | 0.72% | 9321 |
| chr2 | 1751344 | 0.72% | 9106 |
| chr3 | 1007895 | 0.51% | 5248 |
| chr4 | 630350 | 0.33% | 3183 |
| chr5 | 947351 | 0.52% | 4985 |
| chr6 | 843730 | 0.49% | 4399 |
| chr7 | 1011713 | 0.63% | 5329 |
| chr8 | 909171 | 0.63% | 4720 |
| chr9 | 921740 | 0.67% | 4813 |
| chr10 | 1168882 | 0.87% | 6001 |
| chr11 | 1130211 | 0.84% | 5830 |
| chr12 | 773006 | 0.58% | 4086 |
| chr13 | 435095 | 0.38% | 2191 |
| chr14 | 699964 | 0.65% | 3706 |
| chr15 | 798983 | 0.78% | 4167 |
| chr16 | 772862 | 0.86% | 4106 |
| chr17 | 1109206 | 1.33% | 5859 |
| chr18 | 410671 | 0.51% | 2122 |
| chr19 | 795970 | 1.36% | 4056 |
| chr20 | 631466 | 0.98% | 3390 |
| chr21 | 282687 | 0.61% | 1503 |
| chr22 | 750546 | 1.48% | 3927 |
| chrX | 341588 | 0.22% | 1839 |
| chrY | 592 | <0.01% | 5 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 103892 | 1 | 1120 | 191.8 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF488OCQ.bed.gz | 1.03 MB | 23e63bbb3e049ad4cde2d784afd94a0a |
| ENCFF488OCQ.tabix.bed.gz | 977.37 KB | 0d0a0d4cf4176cdc6d5e1d1c94d99c35 |
| ENCFF488OCQ.tabix.bed.gz.tbi | 258.56 KB | a2c9ada6f1dcaedc65b5f2f17fc6d9b5 |
| genomic_resource.yaml | 2.12 KB | 3ba59b2a50d176dcfa9fefb73eb4eb37 |
| statistics/ |