Resource
| Id | DNase-seq/ENCSR128GBN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR128GBN [biosample_summary="Homo sapiens spleen tissue female adult (53 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (53 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 {ENCFF518TQH|/files/ENCFF518TQH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.30. 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_ENCSR128GBN | float |
DNase-seq_ENCSR128GBN |
DNase-seq ENCSR128GBN [biosample_summary="Homo sapiens spleen tissue female adult (53 years)"]
|
 |
[0.0271, 11.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 58667632 | 1.82% | 276026 |
| chr1 | 5014113 | 2.01% | 23303 |
| chr2 | 5379119 | 2.22% | 24914 |
| chr3 | 2842492 | 1.43% | 13411 |
| chr4 | 1618575 | 0.85% | 7560 |
| chr5 | 2881174 | 1.59% | 13324 |
| chr6 | 2252375 | 1.32% | 10867 |
| chr7 | 3432395 | 2.15% | 16115 |
| chr8 | 2658950 | 1.83% | 12517 |
| chr9 | 2424732 | 1.75% | 11394 |
| chr10 | 3905245 | 2.92% | 18142 |
| chr11 | 3131845 | 2.32% | 14429 |
| chr12 | 2233272 | 1.68% | 11008 |
| chr13 | 1132627 | 0.99% | 5368 |
| chr14 | 1861664 | 1.74% | 8683 |
| chr15 | 2221277 | 2.18% | 10438 |
| chr16 | 2460075 | 2.72% | 11804 |
| chr17 | 2978250 | 3.58% | 14200 |
| chr18 | 1374411 | 1.71% | 6496 |
| chr19 | 2063089 | 3.52% | 10000 |
| chr20 | 2030755 | 3.15% | 9712 |
| chr21 | 948382 | 2.03% | 4440 |
| chr22 | 2068505 | 4.07% | 9379 |
| chrX | 1750690 | 1.12% | 8492 |
| chrY | 3620 | 0.01% | 30 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 276026 | 1 | 1200 | 212.54 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF052RRA.bed.gz | 2.58 MB | 314113fb55c43dfc841b0adfcc59739e |
| ENCFF052RRA.tabix.bed.gz | 2.46 MB | e31a5410e9a235a408329681b55771f8 |
| ENCFF052RRA.tabix.bed.gz.tbi | 315.29 KB | 04feb5ffc2beb7e9f2b4e0f7f092f03a |
| genomic_resource.yaml | 2.03 KB | 5dcb58c9776d72f06adf8040d150acb5 |
| statistics/ |