Resource
| Id | DNase-seq/ENCSR164TBP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR164TBP [biosample_summary="Homo sapiens right lobe of liver tissue female child (16 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female child (16 years) output_type: peaks audit_warning: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous to the commonly used fraction of reads in peaks metric. ENCODE processed alignment files {ENCFF892VLK|/files/ENCFF892VLK/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.37. According to ENCODE standards, SPOT1 score of 0.4 or higher is considered a product of high quality data. Any sample with a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample, and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR164TBP | float |
DNase-seq_ENCSR164TBP |
DNase-seq ENCSR164TBP [biosample_summary="Homo sapiens right lobe of liver tissue female child (16 years)"]
|
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[0.0443, 25.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15850493 | 0.49% | 81111 |
| chr1 | 1577002 | 0.63% | 7986 |
| chr2 | 1233161 | 0.51% | 6384 |
| chr3 | 886006 | 0.45% | 4616 |
| chr4 | 596850 | 0.31% | 3114 |
| chr5 | 744016 | 0.41% | 3861 |
| chr6 | 823546 | 0.48% | 4245 |
| chr7 | 810614 | 0.51% | 4131 |
| chr8 | 706071 | 0.49% | 3636 |
| chr9 | 757250 | 0.55% | 3844 |
| chr10 | 807731 | 0.60% | 4175 |
| chr11 | 865640 | 0.64% | 4388 |
| chr12 | 691872 | 0.52% | 3555 |
| chr13 | 324574 | 0.28% | 1635 |
| chr14 | 565642 | 0.53% | 2871 |
| chr15 | 580439 | 0.57% | 3000 |
| chr16 | 577565 | 0.64% | 2923 |
| chr17 | 844240 | 1.01% | 4200 |
| chr18 | 269640 | 0.34% | 1441 |
| chr19 | 776798 | 1.33% | 3821 |
| chr20 | 458153 | 0.71% | 2364 |
| chr21 | 213382 | 0.46% | 1118 |
| chr22 | 382504 | 0.75% | 1948 |
| chrX | 357246 | 0.23% | 1850 |
| chrY | 551 | <0.01% | 5 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 81111 | 1 | 1200 | 195.42 | 187 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF629FBJ.bed.gz | 885.09 KB | 137a9bc6b9218772c7f7787e458cddd3 |
| ENCFF629FBJ.tabix.bed.gz | 813.68 KB | 754595c27d4340667746c5de8de94004 |
| ENCFF629FBJ.tabix.bed.gz.tbi | 293.8 KB | 3f67297e8b69fd6beca2bfec387100b0 |
| genomic_resource.yaml | 2.06 KB | d970ed45883de5f11ed1f0d4d930d6db |
| statistics/ |
