Resource
| Id | DNase-seq/ENCSR000EKZ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EKZ [biosample_summary="Homo sapiens MCF-7"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Released analysis {ENCAN379VEV|/analyses/ENCAN379VEV/} has in progress subobject document {d99d6ef0-ecd0-4999-9286-f62ac227f1ea|/documents/d99d6ef0-ecd0-4999-9286-f62ac227f1ea/} 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 {ENCFF408IOA|/files/ENCFF408IOA/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.27. 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_ENCSR000EKZ | float |
DNase-seq_ENCSR000EKZ |
DNase-seq ENCSR000EKZ [biosample_summary="Homo sapiens MCF-7"]
|
 |
[0.114, 52] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14379023 | 0.45% | 81759 |
| chr1 | 1226927 | 0.49% | 7011 |
| chr2 | 1161710 | 0.48% | 6688 |
| chr3 | 939493 | 0.47% | 5334 |
| chr4 | 625059 | 0.33% | 3688 |
| chr5 | 748630 | 0.41% | 4286 |
| chr6 | 794911 | 0.47% | 4585 |
| chr7 | 758413 | 0.48% | 4311 |
| chr8 | 643333 | 0.44% | 3727 |
| chr9 | 648339 | 0.47% | 3625 |
| chr10 | 647974 | 0.48% | 3740 |
| chr11 | 650854 | 0.48% | 3703 |
| chr12 | 742246 | 0.56% | 4198 |
| chr13 | 321343 | 0.28% | 1851 |
| chr14 | 521437 | 0.49% | 2931 |
| chr15 | 484352 | 0.47% | 2742 |
| chr16 | 541224 | 0.60% | 3005 |
| chr17 | 700577 | 0.84% | 3833 |
| chr18 | 245586 | 0.31% | 1454 |
| chr19 | 550179 | 0.94% | 3009 |
| chr20 | 582554 | 0.90% | 3107 |
| chr21 | 174805 | 0.37% | 984 |
| chr22 | 248330 | 0.49% | 1447 |
| chrX | 420747 | 0.27% | 2500 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 81759 | 1 | 871 | 175.87 | 178 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF438LQM.bed.gz | 863.64 KB | c992707622b1cc2c3d851391d6dcf169 |
| ENCFF438LQM.tabix.bed.gz | 779.78 KB | fa7cf18b3f3a943eccc8d69e5912d32d |
| ENCFF438LQM.tabix.bed.gz.tbi | 406.28 KB | 621d18f3cf30e55579746ddb9aa1d6de |
| genomic_resource.yaml | 2.12 KB | db7fe5b0776eeb0e591fa569572b0c8b |
| statistics/ |