DNase-seq_ENCSR000EMU
DNase-seq ENCSR000EMU [biosample_summary="Homo sapiens H1"]
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| Id: | DNase-seq/ENCSR000EMU |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000EMU [biosample_summary="Homo sapiens H1"] |
| Description: |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Archived analysis {ENCAN956AZA|/analyses/ENCAN956AZA/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF742AKX|/files/ENCFF742AKX/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 24393501 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/}) audit_warning: Alignment file {ENCFF546PJU|/files/ENCFF546PJU/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 24119556 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/}) 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 {ENCFF546PJU|/files/ENCFF546PJU/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) 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/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR000EMU | float |
DNase-seq_ENCSR000EMU |
DNase-seq ENCSR000EMU [biosample_summary="Homo sapiens H1"]
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[3, 1.41e+04] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF030XPN.bed.gz | 583.29 KB | b0e8beca06f8f5ae796191b62e462988 |
| ENCFF030XPN.bed.gz.dvc | 100.0 B | 69f64456608f96ac6bdfb378197d7fc2 |
| ENCFF030XPN.tabix.bed.gz | 501.76 KB | d81ef404ed67fb1a33d3a0f09aa5209d |
| ENCFF030XPN.tabix.bed.gz.dvc | 106.0 B | 71355bd34302f07c2f20d0716ef8a57b |
| ENCFF030XPN.tabix.bed.gz.tbi | 353.6 KB | 621b5d22df47e00da8257b06b3163cf6 |
| ENCFF030XPN.tabix.bed.gz.tbi.dvc | 110.0 B | 24c0c97a5b8284345b05f9516da7ce8a |
| genomic_resource.yaml | 3.32 KB | 915fcd2c8673d65a31030444f4625199 |
| genomic_resource_original.yaml | 3.25 KB | 1d80840d8ec147e5c839f8ef6a87ae64 |
| statistics/ |