| Id: | DNase-seq/ENCSR943BCO |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR943BCO [biosample_summary="Homo sapiens stimulated activated CD8-positive, alpha-beta memory T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours output_type: peaks audit_warning: Alignment file {ENCFF873RTW|/files/ENCFF873RTW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 28695182 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 {ENCFF873RTW|/files/ENCFF873RTW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.40. 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_ENCSR943BCO | float |
DNase-seq_ENCSR943BCO |
DNase-seq ENCSR943BCO [biosample_summary="Homo sapiens stimulated activated CD8-positive, alpha-beta memory T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 4 hours, 100 ng/mL Interleukin-4 for 4 hours"]
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[0.419, 35.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF633API.bed.gz | 327.67 KB | 92865062f0931df7403f315cd2faeeb5 |
| ENCFF633API.bed.gz.dvc | 100.0 B | 0a1998faa893ee6b48266d2f25b6bce7 |
| ENCFF633API.tabix.bed.gz | 295.76 KB | ebf828596ca88ac6881b537a042ec811 |
| ENCFF633API.tabix.bed.gz.dvc | 106.0 B | f79a5557911ffbc8138e2b275ea2c768 |
| ENCFF633API.tabix.bed.gz.tbi | 174.11 KB | 1a68a5ef0d4929c0b72c1ba61238672d |
| ENCFF633API.tabix.bed.gz.tbi.dvc | 110.0 B | cc0e2c260d36a4594f5bf6c4a6535695 |
| genomic_resource.yaml | 3.27 KB | b8c68b53001a90e4e0a0fc27add07ee9 |
| genomic_resource_original.yaml | 3.04 KB | 31605ba0df551288f84e2684cf95645e |
| statistics/ |