Resource
| Id | DNase-seq/ENCSR200BNM |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR200BNM [biosample_summary="Homo sapiens head of caudate nucleus tissue male adult (71 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (71 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 {ENCFF772FON|/files/ENCFF772FON/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. 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_ENCSR200BNM | float |
DNase-seq_ENCSR200BNM |
DNase-seq ENCSR200BNM [biosample_summary="Homo sapiens head of caudate nucleus tissue male adult (71 years)"]
|
 |
[0.0368, 14.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 21812599 | 0.68% | 113833 |
| chr1 | 2013376 | 0.81% | 10423 |
| chr2 | 1813804 | 0.75% | 9469 |
| chr3 | 1113060 | 0.56% | 5870 |
| chr4 | 821189 | 0.43% | 4224 |
| chr5 | 1126355 | 0.62% | 5846 |
| chr6 | 937497 | 0.55% | 4992 |
| chr7 | 1181972 | 0.74% | 6128 |
| chr8 | 961890 | 0.66% | 5064 |
| chr9 | 971780 | 0.70% | 5022 |
| chr10 | 1287650 | 0.96% | 6634 |
| chr11 | 1255859 | 0.93% | 6499 |
| chr12 | 829049 | 0.62% | 4360 |
| chr13 | 437664 | 0.38% | 2333 |
| chr14 | 766405 | 0.72% | 3960 |
| chr15 | 799924 | 0.78% | 4225 |
| chr16 | 818128 | 0.91% | 4300 |
| chr17 | 1109895 | 1.33% | 5846 |
| chr18 | 467094 | 0.58% | 2462 |
| chr19 | 968384 | 1.65% | 4896 |
| chr20 | 712866 | 1.11% | 3776 |
| chr21 | 337652 | 0.72% | 1794 |
| chr22 | 634672 | 1.25% | 3326 |
| chrX | 432823 | 0.28% | 2303 |
| chrY | 13611 | 0.02% | 81 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 113833 | 2 | 1000 | 191.62 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF211WGV.bed.gz | 1.18 MB | fcacd63980ada2d1af0150a9cd8ed543 |
| ENCFF211WGV.tabix.bed.gz | 1.09 MB | 1c839e7871a182c897beac3b9dc51247 |
| ENCFF211WGV.tabix.bed.gz.tbi | 325.63 KB | 037d27753d4d57b788144fccdd7cb86f |
| genomic_resource.yaml | 2.07 KB | 77dbf6c8a9bcd57bd0f34ea27b0786e6 |
| statistics/ |