DNase-seq_ENCSR522FGG
DNase-seq ENCSR522FGG [biosample_summary="Homo sapiens stomach tissue male embryo (108 days)"]
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| Id: | DNase-seq/ENCSR522FGG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR522FGG [biosample_summary="Homo sapiens stomach tissue male embryo (108 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (108 days) output_type: peaks audit_warning: Alignment file {ENCFF850NKJ|/files/ENCFF850NKJ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 20291832 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 {ENCFF850NKJ|/files/ENCFF850NKJ/} 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_ENCSR522FGG | float |
DNase-seq_ENCSR522FGG |
DNase-seq ENCSR522FGG [biosample_summary="Homo sapiens stomach tissue male embryo (108 days)"]
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[0.396, 12.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF078OQS.bed.gz | 288.21 KB | d979089785646965e91fe5e3297a9d5b |
| ENCFF078OQS.bed.gz.dvc | 100.0 B | 0f686ca67ff0427c34dec127e49ef7e0 |
| ENCFF078OQS.tabix.bed.gz | 256.64 KB | 88347e362ddcd73acca1350f4c55d389 |
| ENCFF078OQS.tabix.bed.gz.dvc | 106.0 B | 9e306ec624b62df7e0007da0701ad4bc |
| ENCFF078OQS.tabix.bed.gz.tbi | 180.97 KB | b4fe4d4b1e2499b3200ab7b3e652c93a |
| ENCFF078OQS.tabix.bed.gz.tbi.dvc | 110.0 B | 6711621a4ef5f6cb9f770f33a6c70294 |
| genomic_resource.yaml | 2.64 KB | a935c3acc004906eb22d1a1572296948 |
| genomic_resource_original.yaml | 2.55 KB | ace247458a014a823b8c1844d81fa406 |
| statistics/ |