Resource
| Id | DNase-seq/ENCSR000EIN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EIN [biosample_summary="Homo sapiens COLO829"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Released analysis {ENCAN323PJD|/analyses/ENCAN323PJD/} has in progress subobject document {0a28abd2-e8e1-4ba6-aaa5-1657df948771|/documents/0a28abd2-e8e1-4ba6-aaa5-1657df948771/} 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 {ENCFF570YYW|/files/ENCFF570YYW/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.25. 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_ENCSR000EIN | float |
DNase-seq_ENCSR000EIN |
DNase-seq ENCSR000EIN [biosample_summary="Homo sapiens COLO829"]
|
 |
[0.0514, 13.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 21221442 | 0.66% | 113033 |
| chr1 | 1938176 | 0.78% | 10309 |
| chr2 | 1734284 | 0.72% | 9248 |
| chr3 | 1588779 | 0.80% | 8331 |
| chr4 | 1235650 | 0.65% | 6601 |
| chr5 | 996460 | 0.55% | 5441 |
| chr6 | 1358314 | 0.80% | 7165 |
| chr7 | 1174886 | 0.74% | 6194 |
| chr8 | 1033888 | 0.71% | 5467 |
| chr9 | 918005 | 0.66% | 4866 |
| chr10 | 852305 | 0.64% | 4624 |
| chr11 | 1066613 | 0.79% | 5698 |
| chr12 | 1085317 | 0.81% | 5797 |
| chr13 | 603504 | 0.53% | 3210 |
| chr14 | 679596 | 0.63% | 3589 |
| chr15 | 590305 | 0.58% | 3162 |
| chr16 | 555817 | 0.62% | 2995 |
| chr17 | 806692 | 0.97% | 4293 |
| chr18 | 445561 | 0.55% | 2422 |
| chr19 | 663232 | 1.13% | 3492 |
| chr20 | 581824 | 0.90% | 3068 |
| chr21 | 240262 | 0.51% | 1264 |
| chr22 | 361982 | 0.71% | 1913 |
| chrX | 709916 | 0.45% | 3883 |
| chrY | 74 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 113033 | 1 | 820 | 187.75 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF199VFY.bed.gz | 1.18 MB | 95f544714b136e7848443fd89284c743 |
| ENCFF199VFY.tabix.bed.gz | 1.07 MB | 86bd4d496ddd384ece56e0a600660257 |
| ENCFF199VFY.tabix.bed.gz.tbi | 512.32 KB | 4e4436b665bf4961772416f6f07e4785 |
| genomic_resource.yaml | 2.13 KB | 79d0b6f06291d538c431df1e25baf478 |
| statistics/ |