Resource
| Id | DNase-seq/ENCSR000EJX |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EJX [biosample_summary="Homo sapiens HPDE6-E6E7"] |
| 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 {ENCFF908JAN|/files/ENCFF908JAN/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.21. 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 {ENCAN448GGM|/analyses/ENCAN448GGM/} has in progress subobject document {6219c330-069c-401f-90f7-8d67307f3f23|/documents/6219c330-069c-401f-90f7-8d67307f3f23/} audit_warning: Replicate 1_2 has no significant footprints detected. audit_warning: Replicate 1_1 has no significant footprints detected. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR000EJX | float |
DNase-seq_ENCSR000EJX |
DNase-seq ENCSR000EJX [biosample_summary="Homo sapiens HPDE6-E6E7"]
|
 |
[0.102, 8.18] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 16241398 | 0.50% | 92184 |
| chr1 | 1583262 | 0.64% | 8903 |
| chr2 | 1316994 | 0.54% | 7533 |
| chr3 | 928672 | 0.47% | 5328 |
| chr4 | 902394 | 0.47% | 5246 |
| chr5 | 927862 | 0.51% | 5304 |
| chr6 | 1031238 | 0.60% | 5898 |
| chr7 | 791192 | 0.50% | 4523 |
| chr8 | 735389 | 0.51% | 4222 |
| chr9 | 700391 | 0.51% | 3957 |
| chr10 | 664570 | 0.50% | 3839 |
| chr11 | 821836 | 0.61% | 4650 |
| chr12 | 821762 | 0.62% | 4634 |
| chr13 | 346700 | 0.30% | 2072 |
| chr14 | 539765 | 0.50% | 3020 |
| chr15 | 530152 | 0.52% | 2996 |
| chr16 | 551225 | 0.61% | 3033 |
| chr17 | 701027 | 0.84% | 3872 |
| chr18 | 365337 | 0.45% | 2129 |
| chr19 | 599165 | 1.02% | 3219 |
| chr20 | 536838 | 0.83% | 2952 |
| chr21 | 186911 | 0.40% | 1067 |
| chr22 | 277304 | 0.55% | 1544 |
| chrX | 381412 | 0.24% | 2243 |
| 3343 contigs with no values (186304500 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 92184 | 2 | 880 | 176.18 | 179 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF062RTM.bed.gz | 965.57 KB | 7a5c73348cf8b7e9bb667fe744c2b588 |
| ENCFF062RTM.tabix.bed.gz | 873.63 KB | 91bb6999b43e07e98431910d1e659f22 |
| ENCFF062RTM.tabix.bed.gz.tbi | 427.17 KB | 31c17f468d64f0ac4a0c7f855246495f |
| genomic_resource.yaml | 2.31 KB | 0dd07a1e0b99765b228167553e3f5d63 |
| statistics/ |