| Id: | DNase-seq/ENCSR933VOY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR933VOY [biosample_summary="Homo sapiens activated CD8-positive, alpha-beta memory T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 24 hours"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 24 hours output_type: peaks audit_warning: Alignment file {ENCFF835QKX|/files/ENCFF835QKX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 48520876 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 {ENCFF835QKX|/files/ENCFF835QKX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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_ENCSR933VOY | float |
DNase-seq_ENCSR933VOY |
DNase-seq ENCSR933VOY [biosample_summary="Homo sapiens activated CD8-positive, alpha-beta memory T cell male adult (38 years) treated with anti-CD3 and anti-CD28 coated beads for 24 hours"]
|
 |
[0.289, 17.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF401WTQ.bed.gz | 354.29 KB | d57f1690cb836ec449955df04fa1a6eb |
| ENCFF401WTQ.bed.gz.dvc | 100.0 B | acdacc37e41cfdfd83245cb32a849939 |
| ENCFF401WTQ.tabix.bed.gz | 322.94 KB | b5e2f81dc5ec62112451fb7e876d6a97 |
| ENCFF401WTQ.tabix.bed.gz.dvc | 106.0 B | e4d21db3ea7603630cd0824c30f08839 |
| ENCFF401WTQ.tabix.bed.gz.tbi | 177.08 KB | c0ba1b50823ab2c665c66936d02d2832 |
| ENCFF401WTQ.tabix.bed.gz.tbi.dvc | 110.0 B | 9d3e22239a0c397b1fa792b9499437f4 |
| genomic_resource.yaml | 3.07 KB | 45c71ae1f8c1ee06df9a85b4a6ca7bc1 |
| genomic_resource_original.yaml | 2.88 KB | f4768ce4582c98c34f6db5c501292f6b |
| statistics/ |