Resource
| Id | DNase-seq/ENCSR856XLJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR856XLJ [biosample_summary="Homo sapiens gastrocnemius medialis tissue female adult (51 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (51 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN718WPR|/analyses/ENCAN718WPR/} 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 {ENCFF901FRT|/files/ENCFF901FRT/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) 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/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR856XLJ | float |
DNase-seq_ENCSR856XLJ |
DNase-seq ENCSR856XLJ [biosample_summary="Homo sapiens gastrocnemius medialis tissue female adult (51 years)"]
|
 |
[5, 1.63e+04] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 11021287 | 0.34% | 73360 |
| chr1 | 1090297 | 0.44% | 7258 |
| chr2 | 878349 | 0.36% | 5847 |
| chr3 | 728392 | 0.37% | 4845 |
| chr4 | 446976 | 0.23% | 2974 |
| chr5 | 568450 | 0.31% | 3783 |
| chr6 | 661367 | 0.39% | 4401 |
| chr7 | 527961 | 0.33% | 3518 |
| chr8 | 484368 | 0.33% | 3225 |
| chr9 | 474425 | 0.34% | 3161 |
| chr10 | 552446 | 0.41% | 3678 |
| chr11 | 553466 | 0.41% | 3686 |
| chr12 | 549810 | 0.41% | 3664 |
| chr13 | 254542 | 0.22% | 1694 |
| chr14 | 335296 | 0.31% | 2232 |
| chr15 | 393570 | 0.39% | 2617 |
| chr16 | 394671 | 0.44% | 2623 |
| chr17 | 535926 | 0.64% | 3569 |
| chr18 | 211796 | 0.26% | 1406 |
| chr19 | 444288 | 0.76% | 2959 |
| chr20 | 299362 | 0.46% | 1991 |
| chr21 | 125131 | 0.27% | 831 |
| chr22 | 232235 | 0.46% | 1547 |
| chrX | 276513 | 0.18% | 1840 |
| chrY | 1650 | <0.01% | 11 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 73360 | 31 | 387 | 150.24 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF370NBX.bed.gz | 738.04 KB | 6eee951ee328718c00c28bd8bc4aaf76 |
| ENCFF370NBX.tabix.bed.gz | 628.4 KB | dd2749fddf463792daa2907e15b53ea5 |
| ENCFF370NBX.tabix.bed.gz.tbi | 332.11 KB | 42437f6ea7bc15b50b0620dd3642f03b |
| genomic_resource.yaml | 2.24 KB | fb8f2cdf6a5ceb6e22a9ce04714957bf |
| statistics/ |