Resource
| Id | DNase-seq/ENCSR746RDJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR746RDJ [biosample_summary="Homo sapiens heart right ventricle tissue female embryo (101 days) and female embryo (103 days)"] |
| Description |
status: released biological_replicates: Rep 2 summary: female embryo (101 days) female embryo (103 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 {ENCFF909FOD|/files/ENCFF909FOD/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.26. 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 {ENCFF061BRY|/files/ENCFF061BRY/} 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_ENCSR746RDJ | float |
DNase-seq_ENCSR746RDJ |
DNase-seq ENCSR746RDJ [biosample_summary="Homo sapiens heart right ventricle tissue female embryo (101 days) and female embryo (103 days)"]
|
 |
[0.0413, 20.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 26491145 | 0.82% | 134654 |
| chr1 | 2546498 | 1.02% | 12823 |
| chr2 | 2136497 | 0.88% | 11053 |
| chr3 | 1794705 | 0.91% | 9105 |
| chr4 | 1394977 | 0.73% | 7083 |
| chr5 | 1514863 | 0.83% | 7695 |
| chr6 | 1630892 | 0.95% | 8203 |
| chr7 | 1353643 | 0.85% | 6948 |
| chr8 | 1224196 | 0.84% | 6290 |
| chr9 | 1092597 | 0.79% | 5530 |
| chr10 | 1312591 | 0.98% | 6653 |
| chr11 | 1368064 | 1.01% | 6967 |
| chr12 | 1291508 | 0.97% | 6499 |
| chr13 | 747914 | 0.65% | 3825 |
| chr14 | 785207 | 0.73% | 3990 |
| chr15 | 910836 | 0.89% | 4612 |
| chr16 | 773078 | 0.86% | 3985 |
| chr17 | 1084940 | 1.30% | 5488 |
| chr18 | 624268 | 0.78% | 3204 |
| chr19 | 895532 | 1.53% | 4299 |
| chr20 | 617342 | 0.96% | 3137 |
| chr21 | 280491 | 0.60% | 1425 |
| chr22 | 462511 | 0.91% | 2388 |
| chrX | 647755 | 0.42% | 3450 |
| chrY | 240 | <0.01% | 2 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 134654 | 2 | 1000 | 196.73 | 191 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF475WPV.bed.gz | 1.43 MB | 81d93ccd2f9a791674e1eb5439cccc9e |
| ENCFF475WPV.tabix.bed.gz | 1.31 MB | db00d0003526d5c8e7caf925e2e9bd72 |
| ENCFF475WPV.tabix.bed.gz.tbi | 505.38 KB | f98006b42f50f3c57002ba317bcf3958 |
| genomic_resource.yaml | 3.04 KB | 2ca51a608edaedbfd83b9e7d81027af8 |
| statistics/ |