Resource
| Id | DNase-seq/ENCSR437AYW |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR437AYW [biosample_summary="Homo sapiens vagina 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 {ENCAN845FHY|/analyses/ENCAN845FHY/} 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 {ENCFF244BRN|/files/ENCFF244BRN/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.26. 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_ENCSR437AYW | float |
DNase-seq_ENCSR437AYW |
DNase-seq ENCSR437AYW [biosample_summary="Homo sapiens vagina tissue female adult (53 years)"]
|
 |
[2, 7.15e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 33271716 | 1.03% | 220607 |
| chr1 | 2848841 | 1.14% | 18892 |
| chr2 | 3203505 | 1.32% | 21224 |
| chr3 | 1918588 | 0.97% | 12730 |
| chr4 | 1053903 | 0.55% | 6992 |
| chr5 | 1796314 | 0.99% | 11905 |
| chr6 | 1655487 | 0.97% | 10986 |
| chr7 | 1610687 | 1.01% | 10676 |
| chr8 | 1694813 | 1.17% | 11249 |
| chr9 | 1357681 | 0.98% | 9010 |
| chr10 | 2204140 | 1.65% | 14623 |
| chr11 | 1717906 | 1.27% | 11378 |
| chr12 | 1228481 | 0.92% | 8148 |
| chr13 | 892547 | 0.78% | 5922 |
| chr14 | 1071449 | 1.00% | 7099 |
| chr15 | 1324295 | 1.30% | 8793 |
| chr16 | 1066153 | 1.18% | 7056 |
| chr17 | 1223735 | 1.47% | 8113 |
| chr18 | 971946 | 1.21% | 6434 |
| chr19 | 923352 | 1.58% | 6127 |
| chr20 | 1174192 | 1.82% | 7800 |
| chr21 | 547334 | 1.17% | 3624 |
| chr22 | 736582 | 1.45% | 4882 |
| chrX | 1028065 | 0.66% | 6799 |
| chrY | 21720 | 0.04% | 145 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 220607 | 1 | 600 | 150.82 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF018IDK.bed.gz | 1.97 MB | 0421211e0792f8c31682186ddf568448 |
| ENCFF018IDK.tabix.bed.gz | 1.69 MB | 9fa83e2dcf2d33ac8e5e6c5ab8e8e114 |
| ENCFF018IDK.tabix.bed.gz.tbi | 330.43 KB | bc3757a6528f499cc30e089c71d44abe |
| genomic_resource.yaml | 2.19 KB | 852f09c5713539a2daf17a6f77032ace |
| statistics/ |