DNase-seq_ENCSR502NDK
DNase-seq ENCSR502NDK [biosample_summary="Homo sapiens small intestine tissue female embryo (108 days)"]
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| Id: | DNase-seq/ENCSR502NDK |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR502NDK [biosample_summary="Homo sapiens small intestine tissue female embryo (108 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (108 days) output_type: peaks audit_warning: Alignment file {ENCFF645ZJZ|/files/ENCFF645ZJZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 44834849 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 {ENCFF645ZJZ|/files/ENCFF645ZJZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.30. 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_ENCSR502NDK | float |
DNase-seq_ENCSR502NDK |
DNase-seq ENCSR502NDK [biosample_summary="Homo sapiens small intestine tissue female embryo (108 days)"]
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[0.179, 15.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF107WTD.bed.gz | 579.94 KB | af14714e73ab92d1d12c1bc41cc0b166 |
| ENCFF107WTD.bed.gz.dvc | 100.0 B | d00aeec3f416092cf6b0b3033af2f7e3 |
| ENCFF107WTD.tabix.bed.gz | 519.79 KB | 9783f242e90d517a50583caae29db86e |
| ENCFF107WTD.tabix.bed.gz.dvc | 106.0 B | d4f8a5cfe605f4efe1e4e3ae1e232cb9 |
| ENCFF107WTD.tabix.bed.gz.tbi | 294.15 KB | d5328d2862171d02750866622c96c2d4 |
| ENCFF107WTD.tabix.bed.gz.tbi.dvc | 110.0 B | ed1b50173ba7b8610a77205ba41a7be6 |
| genomic_resource.yaml | 2.68 KB | 2901db25e4e2baf86337c64cf0f49a38 |
| genomic_resource_original.yaml | 2.57 KB | 4ae2440847aaedb33eba0611d54ca956 |
| statistics/ |