Resource
| Id | DNase-seq/ENCSR000EJA |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EJA [biosample_summary="Homo sapiens H54"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Released analysis {ENCAN025HUZ|/analyses/ENCAN025HUZ/} has in progress subobject document {ef05f64c-a732-4751-984a-54235e9b5bd8|/documents/ef05f64c-a732-4751-984a-54235e9b5bd8/} 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 {ENCFF418HNN|/files/ENCFF418HNN/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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_ENCSR000EJA | float |
DNase-seq_ENCSR000EJA |
DNase-seq ENCSR000EJA [biosample_summary="Homo sapiens H54"]
|
 |
[0.0854, 16.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15165310 | 0.47% | 83216 |
| chr1 | 1444030 | 0.58% | 7855 |
| chr2 | 1166757 | 0.48% | 6440 |
| chr3 | 972315 | 0.49% | 5318 |
| chr4 | 500317 | 0.26% | 2904 |
| chr5 | 818669 | 0.45% | 4569 |
| chr6 | 785631 | 0.46% | 4405 |
| chr7 | 847887 | 0.53% | 4616 |
| chr8 | 670403 | 0.46% | 3717 |
| chr9 | 765330 | 0.55% | 4140 |
| chr10 | 764656 | 0.57% | 4227 |
| chr11 | 780914 | 0.58% | 4279 |
| chr12 | 765222 | 0.57% | 4229 |
| chr13 | 337701 | 0.30% | 1878 |
| chr14 | 428988 | 0.40% | 2356 |
| chr15 | 442225 | 0.43% | 2483 |
| chr16 | 577299 | 0.64% | 3063 |
| chr17 | 848621 | 1.02% | 4473 |
| chr18 | 240072 | 0.30% | 1415 |
| chr19 | 751771 | 1.28% | 3891 |
| chr20 | 448476 | 0.70% | 2439 |
| chr21 | 198035 | 0.42% | 1069 |
| chr22 | 290648 | 0.57% | 1597 |
| chrX | 314656 | 0.20% | 1823 |
| chrY | 4687 | 0.01% | 30 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 83216 | 2 | 1020 | 182.24 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF224XHZ.bed.gz | 885.77 KB | c2b629dea9029d80a5480d8675197ebc |
| ENCFF224XHZ.tabix.bed.gz | 801.12 KB | df46acf25d0874c1e381e50bfb1523d0 |
| ENCFF224XHZ.tabix.bed.gz.tbi | 377.94 KB | 84718d4c25a8693952cb9a38a931dbe5 |
| genomic_resource.yaml | 2.12 KB | ae760617f45f8366891e68d75acb5a7d |
| statistics/ |