DNase-seq_ENCSR956ZHU
DNase-seq ENCSR956ZHU [biosample_summary="Homo sapiens renal pelvis tissue male embryo (113 days)"]
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| Id: | DNase-seq/ENCSR956ZHU |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR956ZHU [biosample_summary="Homo sapiens renal pelvis tissue male embryo (113 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (113 days) output_type: peaks audit_warning: Alignment file {ENCFF246LGF|/files/ENCFF246LGF/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 34793316 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 {ENCFF246LGF|/files/ENCFF246LGF/} 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_ENCSR956ZHU | float |
DNase-seq_ENCSR956ZHU |
DNase-seq ENCSR956ZHU [biosample_summary="Homo sapiens renal pelvis tissue male embryo (113 days)"]
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[0.231, 21.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF474VCE.bed.gz | 506.54 KB | bc3dea9c34f47cbcfa953ed89f25fb17 |
| ENCFF474VCE.bed.gz.dvc | 100.0 B | a5565cdb5caf1cae1ba689d2cc9ca025 |
| ENCFF474VCE.tabix.bed.gz | 454.15 KB | 3ab8a3cc286519ec87453acf892cd5f8 |
| ENCFF474VCE.tabix.bed.gz.dvc | 106.0 B | d171bd13a3c1d9e6cbe06d21cc4bd5b3 |
| ENCFF474VCE.tabix.bed.gz.tbi | 266.34 KB | badcb38cddf12aeba19908de170a04f3 |
| ENCFF474VCE.tabix.bed.gz.tbi.dvc | 110.0 B | 690d24d0e71164cef7d47fdb9f48ba70 |
| genomic_resource.yaml | 2.66 KB | f4e3b9afc6305a2ed563c5070c35ed59 |
| genomic_resource_original.yaml | 2.56 KB | a713178bf0d37ee0212ad7fd152caddb |
| statistics/ |