Resource
| Id | DNase-seq/ENCSR000EJP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EJP [biosample_summary="Homo sapiens H9"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_error: 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 {ENCFF794AMX|/files/ENCFF794AMX/} 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/}) audit_internal_action: Released analysis {ENCAN242XRV|/analyses/ENCAN242XRV/} has in progress subobject document {1878966f-2d6e-4dca-8d1f-f4fcfde5a111|/documents/1878966f-2d6e-4dca-8d1f-f4fcfde5a111/} |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR000EJP | float |
DNase-seq_ENCSR000EJP |
DNase-seq ENCSR000EJP [biosample_summary="Homo sapiens H9"]
|
 |
[0.174, 8.36] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 10769685 | 0.33% | 62111 |
| chr1 | 1044244 | 0.42% | 5863 |
| chr2 | 818564 | 0.34% | 4774 |
| chr3 | 669301 | 0.34% | 3902 |
| chr4 | 475051 | 0.25% | 2861 |
| chr5 | 552440 | 0.30% | 3260 |
| chr6 | 577814 | 0.34% | 3414 |
| chr7 | 521074 | 0.33% | 3034 |
| chr8 | 465280 | 0.32% | 2736 |
| chr9 | 471444 | 0.34% | 2716 |
| chr10 | 487825 | 0.36% | 2841 |
| chr11 | 586873 | 0.43% | 3357 |
| chr12 | 532159 | 0.40% | 3057 |
| chr13 | 247900 | 0.22% | 1497 |
| chr14 | 336999 | 0.31% | 1925 |
| chr15 | 356510 | 0.35% | 2043 |
| chr16 | 411891 | 0.46% | 2297 |
| chr17 | 505833 | 0.61% | 2822 |
| chr18 | 227014 | 0.28% | 1384 |
| chr19 | 561645 | 0.96% | 2966 |
| chr20 | 309507 | 0.48% | 1769 |
| chr21 | 114481 | 0.25% | 672 |
| chr22 | 230857 | 0.45% | 1285 |
| chrX | 264979 | 0.17% | 1636 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 62111 | 3 | 900 | 173.39 | 172 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF077FEP.bed.gz | 650.42 KB | 36dd244f88bde5a1e2eecc97ac5e6815 |
| ENCFF077FEP.tabix.bed.gz | 580.12 KB | bd2c62c4adf0ae5f898416d77c2eec92 |
| ENCFF077FEP.tabix.bed.gz.tbi | 337.86 KB | 4ad107c2d8d0740e7cdcde5ff6042097 |
| genomic_resource.yaml | 2.11 KB | 9653e65d4a308b8099a9cf1f5571e00a |
| statistics/ |