Resource
| Id | DNase-seq/ENCSR946DXB |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR946DXB [biosample_summary="Homo sapiens heart left 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 {ENCFF166EZK|/files/ENCFF166EZK/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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 {ENCFF004ISN|/files/ENCFF004ISN/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 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_ENCSR946DXB | float |
DNase-seq_ENCSR946DXB |
DNase-seq ENCSR946DXB [biosample_summary="Homo sapiens heart left ventricle tissue female embryo (101 days) and female embryo (103 days)"]
|
 |
[0.047, 20.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 20602813 | 0.64% | 108607 |
| chr1 | 2021818 | 0.81% | 10576 |
| chr2 | 1628664 | 0.67% | 8659 |
| chr3 | 1378305 | 0.70% | 7279 |
| chr4 | 1063099 | 0.56% | 5621 |
| chr5 | 1133856 | 0.62% | 5998 |
| chr6 | 1271812 | 0.74% | 6667 |
| chr7 | 1070726 | 0.67% | 5692 |
| chr8 | 924497 | 0.64% | 4901 |
| chr9 | 837602 | 0.61% | 4394 |
| chr10 | 1008630 | 0.75% | 5329 |
| chr11 | 1093644 | 0.81% | 5772 |
| chr12 | 1032928 | 0.78% | 5421 |
| chr13 | 545773 | 0.48% | 2920 |
| chr14 | 607070 | 0.57% | 3169 |
| chr15 | 716723 | 0.70% | 3798 |
| chr16 | 618226 | 0.68% | 3282 |
| chr17 | 884384 | 1.06% | 4581 |
| chr18 | 471093 | 0.59% | 2516 |
| chr19 | 753710 | 1.29% | 3764 |
| chr20 | 475029 | 0.74% | 2569 |
| chr21 | 215253 | 0.46% | 1122 |
| chr22 | 371675 | 0.73% | 1968 |
| chrX | 477575 | 0.31% | 2605 |
| chrY | 721 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 108607 | 1 | 920 | 189.7 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF017CCG.bed.gz | 1.16 MB | 0da5d14c51e25d7d42a7084d1c9b74aa |
| ENCFF017CCG.tabix.bed.gz | 1.06 MB | 1b53dbdd180224d5e056f31a4f119389 |
| ENCFF017CCG.tabix.bed.gz.tbi | 443.79 KB | 17c6d366e046e2389efce9a6a482eca0 |
| genomic_resource.yaml | 3.28 KB | 10c3af1a9e46babcd83461afc8b35654 |
| statistics/ |