Resource
| Id | DNase-seq/ENCSR733YNW |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR733YNW [biosample_summary="Homo sapiens vagina tissue female adult (51 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (51 years) output_type: peaks audit_error: 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 {ENCFF162FHA|/files/ENCFF162FHA/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.24. 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/}) audit_internal_action: Archived analysis {ENCAN214YBM|/analyses/ENCAN214YBM/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR733YNW | float |
DNase-seq_ENCSR733YNW |
DNase-seq ENCSR733YNW [biosample_summary="Homo sapiens vagina tissue female adult (51 years)"]
|
 |
[2, 4.62e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 17360870 | 0.54% | 115072 |
| chr1 | 1502223 | 0.60% | 9960 |
| chr2 | 1781945 | 0.74% | 11820 |
| chr3 | 909995 | 0.46% | 6029 |
| chr4 | 454988 | 0.24% | 3004 |
| chr5 | 865592 | 0.48% | 5737 |
| chr6 | 701398 | 0.41% | 4641 |
| chr7 | 836875 | 0.53% | 5544 |
| chr8 | 737451 | 0.51% | 4888 |
| chr9 | 765520 | 0.55% | 5060 |
| chr10 | 1296075 | 0.97% | 8583 |
| chr11 | 894427 | 0.66% | 5938 |
| chr12 | 553265 | 0.42% | 3671 |
| chr13 | 374451 | 0.33% | 2485 |
| chr14 | 614244 | 0.57% | 4068 |
| chr15 | 708367 | 0.69% | 4697 |
| chr16 | 624054 | 0.69% | 4139 |
| chr17 | 681811 | 0.82% | 4509 |
| chr18 | 408327 | 0.51% | 2709 |
| chr19 | 539419 | 0.92% | 3588 |
| chr20 | 664188 | 1.03% | 4398 |
| chr21 | 275805 | 0.59% | 1832 |
| chr22 | 545307 | 1.07% | 3627 |
| chrX | 613743 | 0.39% | 4069 |
| chrY | 11400 | 0.02% | 76 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 115072 | 3 | 583 | 150.87 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF329QLI.bed.gz | 1.01 MB | 86efb4da16cae739b770f89623d9f88a |
| ENCFF329QLI.tabix.bed.gz | 894.66 KB | f4a27b67660a1ea92d73386d973ac837 |
| ENCFF329QLI.tabix.bed.gz.tbi | 179.06 KB | 167e675a4a7838e12b072467e0b9ab74 |
| genomic_resource.yaml | 2.18 KB | 7b8ca19ddf632da69269f675bf0d4421 |
| statistics/ |