Resource
| Id | DNase-seq/ENCSR412NMI |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR412NMI [biosample_summary="Homo sapiens left cardiac atrium tissue female embryo (101 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (101 days) output_type: peaks audit_internal_action: Released analysis {ENCAN031NME|/analyses/ENCAN031NME/} has in progress subobject document {e34079a8-4e19-45aa-a0f4-bad3944e775e|/documents/e34079a8-4e19-45aa-a0f4-bad3944e775e/} 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 {ENCFF014DVT|/files/ENCFF014DVT/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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_ENCSR412NMI | float |
DNase-seq_ENCSR412NMI |
DNase-seq ENCSR412NMI [biosample_summary="Homo sapiens left cardiac atrium tissue female embryo (101 days)"]
|
 |
[0.0538, 17.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 20323769 | 0.63% | 108737 |
| chr1 | 2004866 | 0.81% | 10632 |
| chr2 | 1614626 | 0.67% | 8732 |
| chr3 | 1342694 | 0.68% | 7201 |
| chr4 | 1040422 | 0.55% | 5598 |
| chr5 | 1162233 | 0.64% | 6252 |
| chr6 | 1246588 | 0.73% | 6610 |
| chr7 | 1025734 | 0.64% | 5605 |
| chr8 | 912861 | 0.63% | 4888 |
| chr9 | 842091 | 0.61% | 4510 |
| chr10 | 1015649 | 0.76% | 5463 |
| chr11 | 1069737 | 0.79% | 5716 |
| chr12 | 1011102 | 0.76% | 5386 |
| chr13 | 533401 | 0.47% | 2883 |
| chr14 | 603730 | 0.56% | 3211 |
| chr15 | 687099 | 0.67% | 3664 |
| chr16 | 612719 | 0.68% | 3288 |
| chr17 | 892256 | 1.07% | 4725 |
| chr18 | 476265 | 0.59% | 2551 |
| chr19 | 723014 | 1.23% | 3645 |
| chr20 | 472164 | 0.73% | 2538 |
| chr21 | 209135 | 0.45% | 1138 |
| chr22 | 382012 | 0.75% | 2037 |
| chrX | 441988 | 0.28% | 2451 |
| chrY | 1383 | <0.01% | 13 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 108737 | 1 | 800 | 186.91 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF393UZI.bed.gz | 1.16 MB | 8fb39fc74b637beddaf80bb137ddd697 |
| ENCFF393UZI.tabix.bed.gz | 1.06 MB | 450e1d0505db98dd7da1d2b1575d37a6 |
| ENCFF393UZI.tabix.bed.gz.tbi | 438.3 KB | 50eff1d28bf7e5d782dbdb433d4cb222 |
| genomic_resource.yaml | 2.29 KB | 150bd0018a7d70593fff5d3090ea4651 |
| statistics/ |