Resource
| Id | DNase-seq/ENCSR000EIJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EIJ [biosample_summary="Homo sapiens cerebellum tissue male adult (27 years) and male adult (35 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (35 years) male adult (27 years) output_type: peaks audit_internal_action: Released analysis {ENCAN215ESR|/analyses/ENCAN215ESR/} has in progress subobject document {55959ab2-3b02-44bb-9971-096824d98519|/documents/55959ab2-3b02-44bb-9971-096824d98519/} 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 {ENCFF379EFG|/files/ENCFF379EFG/} processed by DNase-seq ENCODE4 v3.0.0 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/}) 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 {ENCFF884JDV|/files/ENCFF884JDV/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR000EIJ | float |
DNase-seq_ENCSR000EIJ |
DNase-seq ENCSR000EIJ [biosample_summary="Homo sapiens cerebellum tissue male adult (27 years) and male adult (35 years)"]
|
 |
[0.0478, 20] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 20604332 | 0.64% | 104930 |
| chr1 | 1944825 | 0.78% | 9870 |
| chr2 | 1521122 | 0.63% | 7753 |
| chr3 | 1296054 | 0.65% | 6600 |
| chr4 | 876977 | 0.46% | 4489 |
| chr5 | 1115360 | 0.61% | 5641 |
| chr6 | 1141155 | 0.67% | 5827 |
| chr7 | 1091222 | 0.68% | 5562 |
| chr8 | 946320 | 0.65% | 4830 |
| chr9 | 960652 | 0.69% | 4846 |
| chr10 | 921294 | 0.69% | 4664 |
| chr11 | 1122526 | 0.83% | 5675 |
| chr12 | 995176 | 0.75% | 5061 |
| chr13 | 511596 | 0.45% | 2595 |
| chr14 | 669792 | 0.63% | 3391 |
| chr15 | 695521 | 0.68% | 3546 |
| chr16 | 752027 | 0.83% | 3795 |
| chr17 | 1006886 | 1.21% | 5150 |
| chr18 | 433406 | 0.54% | 2217 |
| chr19 | 824711 | 1.41% | 4218 |
| chr20 | 574391 | 0.89% | 2970 |
| chr21 | 209463 | 0.45% | 1049 |
| chr22 | 449412 | 0.88% | 2303 |
| chrX | 521059 | 0.33% | 2746 |
| chrY | 23385 | 0.04% | 132 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 104930 | 1 | 840 | 196.36 | 187 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF109NJY.bed.gz | 1.11 MB | 6bf22bdc67ffe61ed7e1fa8c77afefa8 |
| ENCFF109NJY.tabix.bed.gz | 1.02 MB | 78dd8a43466222003336d6549670a85b |
| ENCFF109NJY.tabix.bed.gz.tbi | 411.71 KB | 3ad337ae2e19268bd1be2ac250bef920 |
| genomic_resource.yaml | 3.17 KB | 510fbf3ea2b283dd0972ea6847683026 |
| statistics/ |