DNase-seq_ENCSR354FBA
DNase-seq ENCSR354FBA [biosample_summary="Homo sapiens small intestine tissue male embryo (115 days)"]
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| Id: | DNase-seq/ENCSR354FBA |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR354FBA [biosample_summary="Homo sapiens small intestine tissue male embryo (115 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (115 days) output_type: peaks audit_error: Alignment file {ENCFF525BED|/files/ENCFF525BED/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 19441139 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 {ENCFF525BED|/files/ENCFF525BED/} 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_ENCSR354FBA | float |
DNase-seq_ENCSR354FBA |
DNase-seq ENCSR354FBA [biosample_summary="Homo sapiens small intestine tissue male embryo (115 days)"]
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[0.361, 16.5] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF835PEV.bed.gz | 425.8 KB | 47b00030e124f75deefbfcf8d76644fc |
| ENCFF835PEV.bed.gz.dvc | 100.0 B | e096f675c9c1006fb2dce46a940930b2 |
| ENCFF835PEV.tabix.bed.gz | 376.34 KB | 82f451bf8282845b64c5b68825963fde |
| ENCFF835PEV.tabix.bed.gz.dvc | 106.0 B | 94f62426d4851c2ffba96d87a94246ae |
| ENCFF835PEV.tabix.bed.gz.tbi | 250.21 KB | c3dbb94a6fdee38849fda327b0956ee8 |
| ENCFF835PEV.tabix.bed.gz.tbi.dvc | 110.0 B | 78b7b724ce47e2c49b8e6afd730147cb |
| genomic_resource.yaml | 2.67 KB | 7736b2640e5d99b446c488aee81eadbd |
| genomic_resource_original.yaml | 2.56 KB | 695d7e7e957f483a422d12399e2b67b1 |
| statistics/ |