Resource
| Id | DNase-seq/ENCSR444VTC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR444VTC [biosample_summary="Homo sapiens large intestine tissue female embryo (105 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (105 days) output_type: peaks audit_warning: Alignment file {ENCFF762TQR|/files/ENCFF762TQR/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 26444729 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-encode4/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR444VTC | float |
DNase-seq_ENCSR444VTC |
DNase-seq ENCSR444VTC [biosample_summary="Homo sapiens large intestine tissue female embryo (105 days)"]
|
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[0.303, 21.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 7843479 | 0.24% | 43369 |
| chr1 | 739847 | 0.30% | 4061 |
| chr2 | 607376 | 0.25% | 3467 |
| chr3 | 498872 | 0.25% | 2805 |
| chr4 | 374107 | 0.20% | 2116 |
| chr5 | 396704 | 0.22% | 2199 |
| chr6 | 467370 | 0.27% | 2590 |
| chr7 | 382698 | 0.24% | 2114 |
| chr8 | 346703 | 0.24% | 1946 |
| chr9 | 330866 | 0.24% | 1842 |
| chr10 | 353318 | 0.26% | 1973 |
| chr11 | 409559 | 0.30% | 2274 |
| chr12 | 402077 | 0.30% | 2236 |
| chr13 | 190667 | 0.17% | 1055 |
| chr14 | 256045 | 0.24% | 1402 |
| chr15 | 249768 | 0.24% | 1385 |
| chr16 | 278118 | 0.31% | 1538 |
| chr17 | 353949 | 0.43% | 1893 |
| chr18 | 167963 | 0.21% | 927 |
| chr19 | 400951 | 0.68% | 1998 |
| chr20 | 197993 | 0.31% | 1119 |
| chr21 | 88330 | 0.19% | 482 |
| chr22 | 142042 | 0.28% | 799 |
| chrX | 207932 | 0.13% | 1146 |
| chrY | 224 | <0.01% | 2 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 43369 | 2 | 680 | 180.85 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF665SPS.bed.gz | 463.77 KB | 04adddc5e3e99698383d2d6da3a71dcf |
| ENCFF665SPS.tabix.bed.gz | 410.44 KB | c0c41c1b309e8dd1c93dbeb0c016420a |
| ENCFF665SPS.tabix.bed.gz.tbi | 255.71 KB | 7b454478638af0fa353900f88041ea92 |
| genomic_resource.yaml | 1.85 KB | 9ae545594590f8d758179500fb48e6cb |
| statistics/ |
