Resource
| Id | DNase-seq/ENCSR127PWK |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR127PWK [biosample_summary="Homo sapiens eye tissue female embryo (76 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (76 days) 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 {ENCFF276XKV|/files/ENCFF276XKV/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR127PWK | float |
DNase-seq_ENCSR127PWK |
DNase-seq ENCSR127PWK [biosample_summary="Homo sapiens eye tissue female embryo (76 days)"]
|
 |
[0.019, 15.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 45294278 | 1.41% | 203182 |
| chr1 | 4071479 | 1.64% | 17862 |
| chr2 | 3706214 | 1.53% | 16633 |
| chr3 | 2881836 | 1.45% | 12919 |
| chr4 | 2387913 | 1.26% | 10818 |
| chr5 | 2627712 | 1.45% | 11686 |
| chr6 | 2716603 | 1.59% | 12064 |
| chr7 | 2285481 | 1.43% | 10305 |
| chr8 | 2106165 | 1.45% | 9551 |
| chr9 | 1920628 | 1.39% | 8700 |
| chr10 | 2246096 | 1.68% | 10051 |
| chr11 | 2349776 | 1.74% | 10553 |
| chr12 | 2136169 | 1.60% | 9576 |
| chr13 | 1347197 | 1.18% | 5997 |
| chr14 | 1490333 | 1.39% | 6607 |
| chr15 | 1458350 | 1.43% | 6487 |
| chr16 | 1465427 | 1.62% | 6716 |
| chr17 | 1860182 | 2.23% | 8334 |
| chr18 | 1167833 | 1.45% | 5188 |
| chr19 | 1364822 | 2.33% | 6151 |
| chr20 | 1182546 | 1.83% | 5415 |
| chr21 | 518117 | 1.11% | 2318 |
| chr22 | 780409 | 1.54% | 3575 |
| chrX | 1221704 | 0.78% | 5665 |
| chrY | 1286 | <0.01% | 11 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 203182 | 1 | 1260 | 222.92 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF292OZN.bed.gz | 2.14 MB | 56c27852fdf74976da08bbd7a9adf366 |
| ENCFF292OZN.tabix.bed.gz | 1.99 MB | f0246e68eda3eae4a86254364543c6ee |
| ENCFF292OZN.tabix.bed.gz.tbi | 633.97 KB | 4413037efa59b8c9bd4ac2761feb97db |
| genomic_resource.yaml | 2.02 KB | 6a2ac5c4bddc9b15b72ab38a16268168 |
| statistics/ |