DNase-seq_ENCSR871APX
DNase-seq ENCSR871APX [biosample_summary="Homo sapiens right kidney tissue female embryo (147 days)"]
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| Id: | DNase-seq/ENCSR871APX |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR871APX [biosample_summary="Homo sapiens right kidney tissue female embryo (147 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (147 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN328QEC|/analyses/ENCAN328QEC/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF289TZA|/files/ENCFF289TZA/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 37881644 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/}) audit_warning: Alignment file {ENCFF685FBO|/files/ENCFF685FBO/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 37587071 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/}) 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 {ENCFF685FBO|/files/ENCFF685FBO/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR871APX | float |
DNase-seq_ENCSR871APX |
DNase-seq ENCSR871APX [biosample_summary="Homo sapiens right kidney tissue female embryo (147 days)"]
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[4, 755] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF929WJR.bed.gz | 813.8 KB | 6c21d0eaf087d7bc5e5d4a25cb4aa8e8 |
| ENCFF929WJR.bed.gz.dvc | 100.0 B | d82312f2dec96bed30e6f97f26d92ab1 |
| ENCFF929WJR.tabix.bed.gz | 697.75 KB | 2d22461315dcb03c1ee16cad1a62e413 |
| ENCFF929WJR.tabix.bed.gz.dvc | 106.0 B | b5102d9720bf530cbaf0c9c9b9325380 |
| ENCFF929WJR.tabix.bed.gz.tbi | 421.59 KB | b222343ea4dc0fe457c2f39607308623 |
| ENCFF929WJR.tabix.bed.gz.tbi.dvc | 110.0 B | 21a7d6bbb9bcdd57e2a8d2f1b75bc621 |
| genomic_resource.yaml | 3.41 KB | bed9768cf5e87482d7facab85c7b4326 |
| genomic_resource_original.yaml | 3.3 KB | 0ac40be06935fcc0036628d0918103c9 |
| statistics/ |