DNase-seq_ENCSR712PYJ
DNase-seq ENCSR712PYJ [biosample_summary="Homo sapiens ovary tissue female adult (30 years)"]
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| Id: | DNase-seq/ENCSR712PYJ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR712PYJ [biosample_summary="Homo sapiens ovary tissue female adult (30 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (30 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN414TJN|/analyses/ENCAN414TJN/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF946WRC|/files/ENCFF946WRC/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 47591014 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 {ENCFF764PYL|/files/ENCFF764PYL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 47193769 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 {ENCFF764PYL|/files/ENCFF764PYL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.32. 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_ENCSR712PYJ | float |
DNase-seq_ENCSR712PYJ |
DNase-seq ENCSR712PYJ [biosample_summary="Homo sapiens ovary tissue female adult (30 years)"]
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[5, 1.01e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF936ENC.bed.gz | 853.32 KB | 9e564cc5860cb209c81260040435c022 |
| ENCFF936ENC.bed.gz.dvc | 100.0 B | a744636faf4ff324bebdceac30ed73d6 |
| ENCFF936ENC.tabix.bed.gz | 732.72 KB | d65bc8082f341710bb89bdd7216bc7d4 |
| ENCFF936ENC.tabix.bed.gz.dvc | 106.0 B | 8a3d4681ba913a85467bf3c73e0cd293 |
| ENCFF936ENC.tabix.bed.gz.tbi | 410.98 KB | 1176a6c834695715093f27cea325d2b8 |
| ENCFF936ENC.tabix.bed.gz.tbi.dvc | 110.0 B | a646fcf4aee161ad9cf7cac3e938f5b5 |
| genomic_resource.yaml | 3.38 KB | 33078f39b4794ad508316eb0238019cf |
| genomic_resource_original.yaml | 3.29 KB | da3327c831744faf8822bf47a89bdda3 |
| statistics/ |