DNase-seq_ENCSR666YVE
DNase-seq ENCSR666YVE [biosample_summary="Homo sapiens large intestine tissue male embryo (105 days)"]
×
| Id: | DNase-seq/ENCSR666YVE |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR666YVE [biosample_summary="Homo sapiens large intestine tissue male embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (105 days) output_type: peaks audit_warning: Alignment file {ENCFF508JHO|/files/ENCFF508JHO/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 34978678 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (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 {ENCFF508JHO|/files/ENCFF508JHO/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.27. 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: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR666YVE | float |
DNase-seq_ENCSR666YVE |
DNase-seq ENCSR666YVE [biosample_summary="Homo sapiens large intestine tissue male embryo (105 days)"]
|
|
[0.23, 11.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF082MXZ.bed.gz | 290.71 KB | 169d0ef696376c6cfb44ae16838582c3 |
| ENCFF082MXZ.bed.gz.dvc | 100.0 B | 5543f94db84ae7f7f38b8854a1ce4a77 |
| ENCFF082MXZ.tabix.bed.gz | 264.55 KB | c88b04c28b8bbc96e4eea190e69d2671 |
| ENCFF082MXZ.tabix.bed.gz.dvc | 106.0 B | e45591196e35769f8ecd18a43c8d8750 |
| ENCFF082MXZ.tabix.bed.gz.tbi | 159.31 KB | 225aadc7ea205e7070216799c2e01515 |
| ENCFF082MXZ.tabix.bed.gz.tbi.dvc | 110.0 B | 1eff98c4eaf1a2221e471851847dac19 |
| genomic_resource.yaml | 2.67 KB | 01bf6a8c07243e90f631344cfca69ec6 |
| genomic_resource_original.yaml | 2.56 KB | c383067b9a67d6ceccccccada5d0a14a |
| statistics/ |