Resource
| Id | DNase-seq/ENCSR176KYD |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR176KYD [biosample_summary="Homo sapiens fibroblast of skin of abdomen male embryo (97 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male embryo (97 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN357LPQ|/analyses/ENCAN357LPQ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF396BNI|/files/ENCFF396BNI/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 40282737 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 {ENCFF658JQA|/files/ENCFF658JQA/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 40006712 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_ENCSR176KYD | float |
DNase-seq_ENCSR176KYD |
DNase-seq ENCSR176KYD [biosample_summary="Homo sapiens fibroblast of skin of abdomen male embryo (97 days)"]
|
 |
[2, 1.65e+04] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 17536869 | 0.55% | 116740 |
| chr1 | 1607595 | 0.65% | 10712 |
| chr2 | 1476456 | 0.61% | 9833 |
| chr3 | 1237950 | 0.62% | 8233 |
| chr4 | 996626 | 0.52% | 6629 |
| chr5 | 1098820 | 0.61% | 7317 |
| chr6 | 1107000 | 0.65% | 7371 |
| chr7 | 879300 | 0.55% | 5854 |
| chr8 | 840750 | 0.58% | 5592 |
| chr9 | 754050 | 0.54% | 5016 |
| chr10 | 835534 | 0.62% | 5559 |
| chr11 | 870577 | 0.64% | 5800 |
| chr12 | 867533 | 0.65% | 5777 |
| chr13 | 515850 | 0.45% | 3430 |
| chr14 | 532050 | 0.50% | 3542 |
| chr15 | 558300 | 0.55% | 3715 |
| chr16 | 496906 | 0.55% | 3306 |
| chr17 | 635550 | 0.76% | 4230 |
| chr18 | 433500 | 0.54% | 2888 |
| chr19 | 428030 | 0.73% | 2853 |
| chr20 | 415200 | 0.64% | 2765 |
| chr21 | 214050 | 0.46% | 1425 |
| chr22 | 245700 | 0.48% | 1636 |
| chrX | 467792 | 0.30% | 3113 |
| chrY | 21750 | 0.04% | 144 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 116740 | 66 | 450 | 150.22 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF937WLI.bed.gz | 1.1 MB | ac69c709e9be046f622c94b7de6d27e5 |
| ENCFF937WLI.tabix.bed.gz | 975.59 KB | 48c7c25c0d532fd1fec0620dcb8a2b10 |
| ENCFF937WLI.tabix.bed.gz.tbi | 524.55 KB | 0055065c363115fb56a6cdaa2cee8038 |
| genomic_resource.yaml | 2.63 KB | 6811fb4074791c42769833d9670a9199 |
| statistics/ |