DNase-seq_ENCSR282QFE
DNase-seq ENCSR282QFE [biosample_summary="Homo sapiens stomach tissue female embryo (121 days)"]
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| Id: | DNase-seq/ENCSR282QFE |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR282QFE [biosample_summary="Homo sapiens stomach tissue female embryo (121 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (121 days) output_type: peaks audit_warning: Alignment file {ENCFF343DHM|/files/ENCFF343DHM/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 31731786 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 {ENCFF343DHM|/files/ENCFF343DHM/} 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_ENCSR282QFE | float |
DNase-seq_ENCSR282QFE |
DNase-seq ENCSR282QFE [biosample_summary="Homo sapiens stomach tissue female embryo (121 days)"]
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[0.253, 16.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF520NPY.bed.gz | 568.49 KB | cab24bcd9197462c91d03826d56a36e3 |
| ENCFF520NPY.bed.gz.dvc | 100.0 B | 585661956e81549a07b356220809bd82 |
| ENCFF520NPY.tabix.bed.gz | 508.11 KB | 23c059be822ba390d460362b2a7ff858 |
| ENCFF520NPY.tabix.bed.gz.dvc | 106.0 B | a974c917798aaca417c591c2b8c5ff84 |
| ENCFF520NPY.tabix.bed.gz.tbi | 297.5 KB | b81ce531332f07c6bb5d0c274af37270 |
| ENCFF520NPY.tabix.bed.gz.tbi.dvc | 110.0 B | 8fb9ba43e6318b7e79a36b19a81414b5 |
| genomic_resource.yaml | 2.65 KB | 2199dfba4cd56b7db29b72b02daf1dc5 |
| genomic_resource_original.yaml | 2.56 KB | 322012deebbb3c8cdc5bce66e5a6928a |
| statistics/ |