Resource
| Id | DNase-seq/ENCSR729DRB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR729DRB [biosample_summary="Homo sapiens testis tissue male embryo"] |
| Description |
status: released biological_replicates: Rep 1 summary: male embryo output_type: peaks audit_internal_action: Archived analysis {ENCAN356ROA|/analyses/ENCAN356ROA/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF089BVK|/files/ENCFF089BVK/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 43243655 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 {ENCFF188DIT|/files/ENCFF188DIT/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 42923516 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_ENCSR729DRB | float |
DNase-seq_ENCSR729DRB |
DNase-seq ENCSR729DRB [biosample_summary="Homo sapiens testis tissue male embryo"]
|
 |
[3, 2.52e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 16999734 | 0.53% | 112969 |
| chr1 | 1555971 | 0.62% | 10345 |
| chr2 | 1353441 | 0.56% | 8989 |
| chr3 | 1113786 | 0.56% | 7403 |
| chr4 | 920024 | 0.48% | 6112 |
| chr5 | 934264 | 0.51% | 6212 |
| chr6 | 1001737 | 0.59% | 6659 |
| chr7 | 870884 | 0.55% | 5784 |
| chr8 | 800300 | 0.55% | 5314 |
| chr9 | 724706 | 0.52% | 4820 |
| chr10 | 845504 | 0.63% | 5620 |
| chr11 | 837445 | 0.62% | 5567 |
| chr12 | 829720 | 0.62% | 5504 |
| chr13 | 471982 | 0.41% | 3134 |
| chr14 | 534988 | 0.50% | 3546 |
| chr15 | 550826 | 0.54% | 3662 |
| chr16 | 525218 | 0.58% | 3495 |
| chr17 | 679335 | 0.82% | 4521 |
| chr18 | 403537 | 0.50% | 2678 |
| chr19 | 586082 | 1.00% | 3903 |
| chr20 | 449195 | 0.70% | 2986 |
| chr21 | 195364 | 0.42% | 1297 |
| chr22 | 298369 | 0.59% | 1984 |
| chrX | 493356 | 0.32% | 3276 |
| chrY | 23700 | 0.04% | 158 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 112969 | 18 | 521 | 150.48 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF618EIJ.bed.gz | 1.07 MB | 750f48bda5fc29c49152ddca38932dd1 |
| ENCFF618EIJ.tabix.bed.gz | 939.02 KB | 61028a8463751f613b7a0541aa1fd033 |
| ENCFF618EIJ.tabix.bed.gz.tbi | 502.64 KB | 1012637a7069d147dca60d63a926fe88 |
| genomic_resource.yaml | 2.52 KB | a866eb0948b05fde90751c742dd4f237 |
| statistics/ |