Resource
| Id | DNase-seq/ENCSR000EKE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EKE [biosample_summary="Homo sapiens HuH-7.5"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Released analysis {ENCAN334PDP|/analyses/ENCAN334PDP/} has in progress subobject document {420fc820-d6f6-46c0-9fac-f9ad1540e634|/documents/420fc820-d6f6-46c0-9fac-f9ad1540e634/} 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 {ENCFF406BXB|/files/ENCFF406BXB/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.40. 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_ENCSR000EKE | float |
DNase-seq_ENCSR000EKE |
DNase-seq ENCSR000EKE [biosample_summary="Homo sapiens HuH-7.5"]
|
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[0.086, 59.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 13380537 | 0.42% | 75012 |
| chr1 | 1258426 | 0.51% | 7009 |
| chr2 | 987584 | 0.41% | 5669 |
| chr3 | 825336 | 0.42% | 4669 |
| chr4 | 523265 | 0.28% | 3053 |
| chr5 | 618078 | 0.34% | 3557 |
| chr6 | 670326 | 0.39% | 3892 |
| chr7 | 712587 | 0.45% | 4008 |
| chr8 | 501159 | 0.35% | 2900 |
| chr9 | 590860 | 0.43% | 3269 |
| chr10 | 552967 | 0.41% | 3190 |
| chr11 | 756650 | 0.56% | 4104 |
| chr12 | 711236 | 0.53% | 3938 |
| chr13 | 242268 | 0.21% | 1418 |
| chr14 | 425239 | 0.40% | 2399 |
| chr15 | 507353 | 0.50% | 2754 |
| chr16 | 518202 | 0.57% | 2857 |
| chr17 | 733772 | 0.88% | 3997 |
| chr18 | 243402 | 0.30% | 1394 |
| chr19 | 834517 | 1.42% | 4371 |
| chr20 | 483632 | 0.75% | 2625 |
| chr21 | 121869 | 0.26% | 708 |
| chr22 | 316219 | 0.62% | 1723 |
| chrX | 245496 | 0.16% | 1507 |
| chrY | 94 | <0.01% | 1 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 75012 | 2 | 802 | 178.38 | 176 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF628BKW.bed.gz | 805.81 KB | f0f6b33fcd8fd2a90ede22b9593792f7 |
| ENCFF628BKW.tabix.bed.gz | 735.37 KB | 4c607d5897bd1338d5f254f80dc37871 |
| ENCFF628BKW.tabix.bed.gz.tbi | 309.86 KB | 1b07c383cb0b975ffb39de068959c8b3 |
| genomic_resource.yaml | 2.13 KB | 4e1786728203f8f79ac47187098eb4b3 |
| statistics/ |
