Resource
| Id | DNase-seq/ENCSR683YLO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR683YLO [biosample_summary="Homo sapiens stomach tissue female embryo (96 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (96 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN790XTS|/analyses/ENCAN790XTS/} 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 {ENCFF244EYZ|/files/ENCFF244EYZ/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR683YLO | float |
DNase-seq_ENCSR683YLO |
DNase-seq ENCSR683YLO [biosample_summary="Homo sapiens stomach tissue female embryo (96 days)"]
|
 |
[4, 2.48e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 17085896 | 0.53% | 113399 |
| chr1 | 1566186 | 0.63% | 10398 |
| chr2 | 1356633 | 0.56% | 9005 |
| chr3 | 1114607 | 0.56% | 7393 |
| chr4 | 887494 | 0.47% | 5878 |
| chr5 | 941961 | 0.52% | 6243 |
| chr6 | 1028114 | 0.60% | 6825 |
| chr7 | 870479 | 0.55% | 5767 |
| chr8 | 766619 | 0.53% | 5088 |
| chr9 | 717018 | 0.52% | 4762 |
| chr10 | 810555 | 0.61% | 5386 |
| chr11 | 865276 | 0.64% | 5749 |
| chr12 | 839064 | 0.63% | 5573 |
| chr13 | 475775 | 0.42% | 3151 |
| chr14 | 556366 | 0.52% | 3693 |
| chr15 | 563261 | 0.55% | 3739 |
| chr16 | 545655 | 0.60% | 3618 |
| chr17 | 717009 | 0.86% | 4774 |
| chr18 | 390404 | 0.49% | 2578 |
| chr19 | 616813 | 1.05% | 4102 |
| chr20 | 441924 | 0.69% | 2940 |
| chr21 | 205757 | 0.44% | 1367 |
| chr22 | 297874 | 0.59% | 1975 |
| chrX | 509252 | 0.33% | 3383 |
| chrY | 1800 | <0.01% | 12 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 113399 | 5 | 450 | 150.67 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF227HYU.bed.gz | 1.07 MB | aa0417274d25fbfc7702694541c4c4c5 |
| ENCFF227HYU.tabix.bed.gz | 942.94 KB | 24a2c5f28f97898148063152024508c5 |
| ENCFF227HYU.tabix.bed.gz.tbi | 481.16 KB | e352beaaeff221150b25f3b1e3c96305 |
| genomic_resource.yaml | 2.19 KB | 3fdf38f5285e6ae6830f0ff4d5477357 |
| statistics/ |