DNase-seq_ENCSR499PZA
DNase-seq ENCSR499PZA [biosample_summary="Homo sapiens kidney tissue male embryo (105 days)"]
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| Id: | DNase-seq/ENCSR499PZA |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR499PZA [biosample_summary="Homo sapiens kidney tissue male embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (105 days) output_type: peaks audit_warning: Alignment file {ENCFF813DOG|/files/ENCFF813DOG/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 28043677 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 {ENCFF813DOG|/files/ENCFF813DOG/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR499PZA | float |
DNase-seq_ENCSR499PZA |
DNase-seq ENCSR499PZA [biosample_summary="Homo sapiens kidney tissue male embryo (105 days)"]
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[0.346, 85.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF302YHA.bed.gz | 295.37 KB | a2d003506d1b91aa493b15fa2b9f8c69 |
| ENCFF302YHA.bed.gz.dvc | 100.0 B | 51013b17088dbfc933acb51b59915bb1 |
| ENCFF302YHA.tabix.bed.gz | 264.01 KB | e4ca41c8bd62935df5c02c50f9ec6909 |
| ENCFF302YHA.tabix.bed.gz.dvc | 106.0 B | 1e98536f2af3eee94803c0704fc5fc1f |
| ENCFF302YHA.tabix.bed.gz.tbi | 176.17 KB | c5143fb94f97cc450d4053a04afb1178 |
| ENCFF302YHA.tabix.bed.gz.tbi.dvc | 110.0 B | 7f427ae93bc29822e05e9ec3ca5b7aec |
| genomic_resource.yaml | 2.64 KB | b4385e08396830318c45c044155c6ab4 |
| genomic_resource_original.yaml | 2.55 KB | 5a643db08de3e0812995a582129df816 |
| statistics/ |