Resource
| Id | DNase-seq/ENCSR000EOF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EOF [biosample_summary="Homo sapiens non-pigmented ciliary epithelial cell"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Archived analysis {ENCAN622TCM|/analyses/ENCAN622TCM/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF613MGD|/files/ENCFF613MGD/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 30586736 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) audit_warning: Alignment file {ENCFF997VPL|/files/ENCFF997VPL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 30196009 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) audit_warning: Alignment file {ENCFF644BXG|/files/ENCFF644BXG/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 30025065 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) audit_warning: Alignment file {ENCFF188SZW|/files/ENCFF188SZW/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 30456089 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR000EOF | float |
DNase-seq_ENCSR000EOF |
DNase-seq ENCSR000EOF [biosample_summary="Homo sapiens non-pigmented ciliary epithelial cell"]
|
 |
[2, 3.78e+04] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 16886955 | 0.52% | 112478 |
| chr1 | 1508377 | 0.61% | 10052 |
| chr2 | 1423950 | 0.59% | 9479 |
| chr3 | 1197229 | 0.60% | 7976 |
| chr4 | 1059721 | 0.56% | 7059 |
| chr5 | 1046388 | 0.58% | 6971 |
| chr6 | 1078711 | 0.63% | 7178 |
| chr7 | 867000 | 0.54% | 5770 |
| chr8 | 853531 | 0.59% | 5686 |
| chr9 | 725187 | 0.52% | 4831 |
| chr10 | 785700 | 0.59% | 5234 |
| chr11 | 812578 | 0.60% | 5412 |
| chr12 | 869823 | 0.65% | 5794 |
| chr13 | 545929 | 0.48% | 3638 |
| chr14 | 518400 | 0.48% | 3454 |
| chr15 | 514950 | 0.50% | 3428 |
| chr16 | 452042 | 0.50% | 3016 |
| chr17 | 571950 | 0.69% | 3810 |
| chr18 | 407700 | 0.51% | 2714 |
| chr19 | 420000 | 0.72% | 2799 |
| chr20 | 372300 | 0.58% | 2480 |
| chr21 | 204600 | 0.44% | 1360 |
| chr22 | 227439 | 0.45% | 1516 |
| chrX | 409500 | 0.26% | 2728 |
| chrY | 13950 | 0.02% | 93 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 112478 | 31 | 300 | 150.14 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF240YXY.bed.gz | 1.06 MB | 1a93f7f957d3ef657572b55102afa266 |
| ENCFF240YXY.tabix.bed.gz | 937.57 KB | 1e5a5e7d740017d0e929a1f76f874787 |
| ENCFF240YXY.tabix.bed.gz.tbi | 529.64 KB | 4032d3ca8e47bbd3e707fe4a13ee8075 |
| genomic_resource.yaml | 3.83 KB | 507f609f926299d7cbe8acff087956e8 |
| statistics/ |