Resource
| Id | DNase-seq/ENCSR000EKG |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EKG [biosample_summary="Homo sapiens IMR-90"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Released analysis {ENCAN408ZIC|/analyses/ENCAN408ZIC/} has in progress subobject document {672c1dad-41c7-412f-a462-698230c5c2fe|/documents/672c1dad-41c7-412f-a462-698230c5c2fe/} 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 {ENCFF530KLY|/files/ENCFF530KLY/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR000EKG | float |
DNase-seq_ENCSR000EKG |
DNase-seq ENCSR000EKG [biosample_summary="Homo sapiens IMR-90"]
|
 |
[0.0391, 21.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 32587220 | 1.01% | 165562 |
| chr1 | 3020632 | 1.21% | 15307 |
| chr2 | 2601763 | 1.07% | 13249 |
| chr3 | 1874382 | 0.95% | 9615 |
| chr4 | 1398724 | 0.74% | 7244 |
| chr5 | 1681733 | 0.93% | 8642 |
| chr6 | 1806933 | 1.06% | 9263 |
| chr7 | 1559699 | 0.98% | 8046 |
| chr8 | 1477393 | 1.02% | 7476 |
| chr9 | 1515422 | 1.09% | 7568 |
| chr10 | 1602547 | 1.20% | 8085 |
| chr11 | 1902315 | 1.41% | 9554 |
| chr12 | 1554855 | 1.17% | 7972 |
| chr13 | 777089 | 0.68% | 4048 |
| chr14 | 1045636 | 0.98% | 5298 |
| chr15 | 1121284 | 1.10% | 5650 |
| chr16 | 1097278 | 1.21% | 5576 |
| chr17 | 1619729 | 1.95% | 8105 |
| chr18 | 642967 | 0.80% | 3321 |
| chr19 | 1451073 | 2.48% | 7160 |
| chr20 | 892529 | 1.38% | 4514 |
| chr21 | 407984 | 0.87% | 2023 |
| chr22 | 740577 | 1.46% | 3739 |
| chrX | 794125 | 0.51% | 4101 |
| chrY | 551 | <0.01% | 6 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 165562 | 1 | 1200 | 196.83 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF221SZF.bed.gz | 1.74 MB | 9acc7385e4f1efcca071e9e17bcd86c5 |
| ENCFF221SZF.tabix.bed.gz | 1.61 MB | fcfb0fa6b3ca63635305e2ba0ec7b320 |
| ENCFF221SZF.tabix.bed.gz.tbi | 506.26 KB | 7ea5219ccd42abc0eb486e52d80b9105 |
| genomic_resource.yaml | 2.17 KB | 92667c6e35b64965b3a704336e589b12 |
| statistics/ |