Resource
| Id | DNase-seq/ENCSR579KDC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR579KDC [biosample_summary="Homo sapiens lower leg skin tissue female adult (53 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (53 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 {ENCFF449PFL|/files/ENCFF449PFL/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.29. 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_ENCSR579KDC | float |
DNase-seq_ENCSR579KDC |
DNase-seq ENCSR579KDC [biosample_summary="Homo sapiens lower leg skin tissue female adult (53 years)"]
|
 |
[0.0227, 11.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 72759493 | 2.26% | 349149 |
| chr1 | 6466018 | 2.60% | 30447 |
| chr2 | 6734918 | 2.78% | 31716 |
| chr3 | 3462152 | 1.75% | 16792 |
| chr4 | 1972501 | 1.04% | 9596 |
| chr5 | 3495369 | 1.93% | 16732 |
| chr6 | 2900007 | 1.70% | 14235 |
| chr7 | 3845465 | 2.41% | 18699 |
| chr8 | 3432722 | 2.37% | 16393 |
| chr9 | 3154785 | 2.28% | 15093 |
| chr10 | 4674858 | 3.49% | 22404 |
| chr11 | 3748204 | 2.77% | 17516 |
| chr12 | 2840250 | 2.13% | 14021 |
| chr13 | 1505214 | 1.32% | 7333 |
| chr14 | 2394475 | 2.24% | 11400 |
| chr15 | 3076583 | 3.02% | 14699 |
| chr16 | 2901970 | 3.21% | 14253 |
| chr17 | 3798724 | 4.56% | 18305 |
| chr18 | 1695005 | 2.11% | 8192 |
| chr19 | 2460275 | 4.20% | 12048 |
| chr20 | 2792272 | 4.33% | 13390 |
| chr21 | 1289592 | 2.76% | 6051 |
| chr22 | 2316857 | 4.56% | 10793 |
| chrX | 1797878 | 1.15% | 9014 |
| chrY | 3399 | 0.01% | 27 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 349149 | 1 | 1180 | 208.39 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF669VJK.bed.gz | 3.23 MB | 75a124bf44e02e19e81a209c5ac0d631 |
| ENCFF669VJK.tabix.bed.gz | 3.07 MB | 5eedc676156300741da5724e9287ca1d |
| ENCFF669VJK.tabix.bed.gz.tbi | 333.04 KB | e5231d6f2205ec3a33ad1ca4d4933bc3 |
| genomic_resource.yaml | 2.05 KB | 6433820ae46c480230daf30164fb08b4 |
| statistics/ |