DNase-seq_ENCSR840TVG
DNase-seq ENCSR840TVG [biosample_summary="Homo sapiens CD8-positive, alpha-beta T cell female adult (33 years)"]
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| Id: | DNase-seq/ENCSR840TVG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR840TVG [biosample_summary="Homo sapiens CD8-positive, alpha-beta T cell female adult (33 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (33 years) output_type: peaks audit_warning: Replicate 1_2 has no significant footprints detected. audit_warning: Alignment file {ENCFF083TMS|/files/ENCFF083TMS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 36299512 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 {ENCFF083TMS|/files/ENCFF083TMS/} 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: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR840TVG | float |
DNase-seq_ENCSR840TVG |
DNase-seq ENCSR840TVG [biosample_summary="Homo sapiens CD8-positive, alpha-beta T cell female adult (33 years)"]
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[0.166, 12.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF953UPF.bed.gz | 324.32 KB | 4d1aabe576bcc983e2f6cfba0d72a0d7 |
| ENCFF953UPF.bed.gz.dvc | 100.0 B | e33ab9914d689a15b780452fa2dcaec5 |
| ENCFF953UPF.tabix.bed.gz | 294.82 KB | c1a1ed4199540358762a31d4c3ece488 |
| ENCFF953UPF.tabix.bed.gz.dvc | 106.0 B | 025194fd133f676aeddc4698987b4b6c |
| ENCFF953UPF.tabix.bed.gz.tbi | 176.29 KB | 1d5f61e9379b0bd574b3061541e2a0b0 |
| ENCFF953UPF.tabix.bed.gz.tbi.dvc | 110.0 B | 1196b17c4a2e88bdc91f10e4e0b139f3 |
| genomic_resource.yaml | 2.79 KB | 43a1bb88fea357b5da35c31fcc4bcea9 |
| genomic_resource_original.yaml | 2.67 KB | 9b5b0eaea885832326b98d3b586f7886 |
| statistics/ |