Resource
| Id | DNase-seq/ENCSR670VQZ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR670VQZ [biosample_summary="Homo sapiens fibroblast of upper back skin male embryo (97 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male embryo (97 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN570KAP|/analyses/ENCAN570KAP/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF268FTA|/files/ENCFF268FTA/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 31859799 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 {ENCFF228NEM|/files/ENCFF228NEM/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 31703827 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_ENCSR670VQZ | float |
DNase-seq_ENCSR670VQZ |
DNase-seq ENCSR670VQZ [biosample_summary="Homo sapiens fibroblast of upper back skin male embryo (97 days)"]
|
 |
[2, 1.64e+04] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 17306754 | 0.54% | 115256 |
| chr1 | 1562531 | 0.63% | 10405 |
| chr2 | 1480627 | 0.61% | 9858 |
| chr3 | 1222795 | 0.62% | 8141 |
| chr4 | 997291 | 0.52% | 6639 |
| chr5 | 1065670 | 0.59% | 7098 |
| chr6 | 1101352 | 0.64% | 7336 |
| chr7 | 871500 | 0.55% | 5801 |
| chr8 | 837562 | 0.58% | 5573 |
| chr9 | 750000 | 0.54% | 4994 |
| chr10 | 823200 | 0.62% | 5485 |
| chr11 | 853568 | 0.63% | 5685 |
| chr12 | 864064 | 0.65% | 5756 |
| chr13 | 517789 | 0.45% | 3448 |
| chr14 | 516520 | 0.48% | 3442 |
| chr15 | 556322 | 0.55% | 3704 |
| chr16 | 480261 | 0.53% | 3200 |
| chr17 | 608918 | 0.73% | 4058 |
| chr18 | 433270 | 0.54% | 2885 |
| chr19 | 420450 | 0.72% | 2802 |
| chr20 | 402450 | 0.62% | 2679 |
| chr21 | 206214 | 0.44% | 1374 |
| chr22 | 243450 | 0.48% | 1623 |
| chrX | 468000 | 0.30% | 3117 |
| chrY | 22950 | 0.04% | 153 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 115256 | 62 | 300 | 150.16 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF207HFD.bed.gz | 1.09 MB | dddea62edc4022db8b3a78d120ed2c26 |
| ENCFF207HFD.tabix.bed.gz | 965.03 KB | 77449ed58bdcccb47485f14411a8fa21 |
| ENCFF207HFD.tabix.bed.gz.tbi | 524.69 KB | 2140b91ac3118884274281077a14e2b2 |
| genomic_resource.yaml | 2.63 KB | 5e90070f13b8793a2260ccff7152725a |
| statistics/ |