Resource
| Id | DNase-seq/ENCSR944JCE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR944JCE [biosample_summary="Homo sapiens esophagus muscularis mucosa tissue male adult (37 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (37 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 {ENCFF685OUP|/files/ENCFF685OUP/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.21. 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 {ENCAN961YYV|/analyses/ENCAN961YYV/} 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_ENCSR944JCE | float |
DNase-seq_ENCSR944JCE |
DNase-seq ENCSR944JCE [biosample_summary="Homo sapiens esophagus muscularis mucosa tissue male adult (37 years)"]
|
 |
[3, 8.22e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 54897561 | 1.71% | 364333 |
| chr1 | 4487297 | 1.80% | 29793 |
| chr2 | 5696784 | 2.35% | 37815 |
| chr3 | 3561175 | 1.80% | 23621 |
| chr4 | 2154051 | 1.13% | 14286 |
| chr5 | 3485531 | 1.92% | 23132 |
| chr6 | 3090896 | 1.81% | 20516 |
| chr7 | 2762975 | 1.73% | 18323 |
| chr8 | 2998753 | 2.07% | 19898 |
| chr9 | 2433243 | 1.76% | 16146 |
| chr10 | 3573825 | 2.67% | 23717 |
| chr11 | 2736755 | 2.03% | 18162 |
| chr12 | 2091526 | 1.57% | 13891 |
| chr13 | 1627551 | 1.42% | 10793 |
| chr14 | 1683342 | 1.57% | 11168 |
| chr15 | 2265350 | 2.22% | 15051 |
| chr16 | 1697594 | 1.88% | 11274 |
| chr17 | 1490083 | 1.79% | 9894 |
| chr18 | 1727132 | 2.15% | 11451 |
| chr19 | 1201369 | 2.05% | 7988 |
| chr20 | 1798875 | 2.79% | 11927 |
| chr21 | 732994 | 1.57% | 4868 |
| chr22 | 939501 | 1.85% | 6228 |
| chrX | 582833 | 0.37% | 3870 |
| chrY | 78126 | 0.14% | 521 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 364333 | 3 | 591 | 150.68 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF146AEB.bed.gz | 3.18 MB | f039b347b6d942075bc44766cfe1d01a |
| ENCFF146AEB.tabix.bed.gz | 2.75 MB | 247324352e02e14638ec621df7d9ae74 |
| ENCFF146AEB.tabix.bed.gz.tbi | 420.68 KB | 1df22143d26f7abeeb3d4197ac0b638b |
| genomic_resource.yaml | 2.24 KB | 11c7e1db67b5acf622a73a02069e7ac4 |
| statistics/ |