DNase-seq_ENCSR240TZG
DNase-seq ENCSR240TZG [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (42 years)"]
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| Id: | DNase-seq/ENCSR240TZG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR240TZG [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 {ENCFF862ZLM|/files/ENCFF862ZLM/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 47145902 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 {ENCFF862ZLM|/files/ENCFF862ZLM/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.32. 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_ENCSR240TZG | float |
DNase-seq_ENCSR240TZG |
DNase-seq ENCSR240TZG [biosample_summary="Homo sapiens CD4-positive, alpha-beta T cell male adult (42 years)"]
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[0.192, 28.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF835RUA.bed.gz | 372.18 KB | 8f67b120b3180bd3b871a5e3cddc12d9 |
| ENCFF835RUA.bed.gz.dvc | 100.0 B | 4b85ccb6101627f3d10cf628130aaace |
| ENCFF835RUA.tabix.bed.gz | 338.29 KB | 67e7a000db34c3002e3128a9c838eed7 |
| ENCFF835RUA.tabix.bed.gz.dvc | 106.0 B | 3afcdbfe0f0f1fb11669ee2194d97779 |
| ENCFF835RUA.tabix.bed.gz.tbi | 189.89 KB | c3acc882dbd337966f592f92d4b9b4a9 |
| ENCFF835RUA.tabix.bed.gz.tbi.dvc | 110.0 B | 1be4f355ee61224a271ca78f89ca0553 |
| genomic_resource.yaml | 2.7 KB | 03ec4d67c6abce1a9f0cd80c552aeb0b |
| genomic_resource_original.yaml | 2.59 KB | 55326eb814a51bf9306e014cabb80bcc |
| statistics/ |