Resource
| Id | DNase-seq/ENCSR080ISA |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR080ISA [biosample_summary="Homo sapiens tibial artery tissue female adult (53 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (53 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN263JGZ|/analyses/ENCAN263JGZ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} 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 {ENCFF656IUA|/files/ENCFF656IUA/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR080ISA | float |
DNase-seq_ENCSR080ISA |
DNase-seq ENCSR080ISA [biosample_summary="Homo sapiens tibial artery tissue female adult (53 years)"]
|
 |
[1, 7.07e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 49539444 | 1.54% | 329051 |
| chr1 | 4348506 | 1.75% | 28891 |
| chr2 | 4473694 | 1.85% | 29706 |
| chr3 | 2616895 | 1.32% | 17375 |
| chr4 | 1752496 | 0.92% | 11633 |
| chr5 | 2740266 | 1.51% | 18194 |
| chr6 | 2230031 | 1.31% | 14809 |
| chr7 | 2252474 | 1.41% | 14978 |
| chr8 | 2226551 | 1.53% | 14788 |
| chr9 | 1977780 | 1.43% | 13124 |
| chr10 | 3218242 | 2.41% | 21366 |
| chr11 | 2773527 | 2.05% | 18428 |
| chr12 | 2018677 | 1.51% | 13407 |
| chr13 | 1190683 | 1.04% | 7913 |
| chr14 | 1645900 | 1.54% | 10948 |
| chr15 | 1865781 | 1.83% | 12412 |
| chr16 | 1886062 | 2.09% | 12522 |
| chr17 | 2169147 | 2.61% | 14415 |
| chr18 | 1255274 | 1.56% | 8335 |
| chr19 | 1374178 | 2.34% | 9131 |
| chr20 | 1653327 | 2.57% | 10986 |
| chr21 | 813792 | 1.74% | 5403 |
| chr22 | 1466357 | 2.89% | 9740 |
| chrX | 1553354 | 1.00% | 10306 |
| chrY | 36450 | 0.06% | 241 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 329051 | 1 | 600 | 150.55 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF048ZGK.bed.gz | 2.93 MB | 774813e78bd8c94a62880791062307ea |
| ENCFF048ZGK.tabix.bed.gz | 2.51 MB | 195b560e6f7297ca94026b46f6c66a41 |
| ENCFF048ZGK.tabix.bed.gz.tbi | 463.26 KB | 1989318dc1c5ce690761a7bb95f839ee |
| genomic_resource.yaml | 2.21 KB | 34b9d3749cfda58651ad319d645a7df3 |
| statistics/ |