DNase-seq_ENCSR129GCL
DNase-seq ENCSR129GCL [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (42 years)"]
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| Id: | DNase-seq/ENCSR129GCL |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR129GCL [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (42 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (42 years) output_type: peaks audit_warning: Alignment file {ENCFF012FEK|/files/ENCFF012FEK/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 35688072 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 {ENCFF012FEK|/files/ENCFF012FEK/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR129GCL | float |
DNase-seq_ENCSR129GCL |
DNase-seq ENCSR129GCL [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (42 years)"]
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[0.365, 37.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF859OCM.bed.gz | 364.46 KB | ccfb9a2a60cc06a32375cda4c1e8b2bc |
| ENCFF859OCM.bed.gz.dvc | 100.0 B | fed9df3079188651041663fbc984a9e0 |
| ENCFF859OCM.tabix.bed.gz | 330.13 KB | e258e3e2ba417ec7ca2905fc3f6b6b33 |
| ENCFF859OCM.tabix.bed.gz.dvc | 106.0 B | 17aaa19dfed649ae28d5088a560682ae |
| ENCFF859OCM.tabix.bed.gz.tbi | 187.1 KB | 01e46024e38c21231585f7292d13d48e |
| ENCFF859OCM.tabix.bed.gz.tbi.dvc | 110.0 B | 7bd6170579c8c2fdf621674de9f1c5b1 |
| genomic_resource.yaml | 2.7 KB | 25f94097d41bb2c33df3e7722724ca1c |
| genomic_resource_original.yaml | 2.59 KB | 254a474534054af5d445f62ec597854c |
| statistics/ |