DNase-seq_ENCSR962EAP
DNase-seq ENCSR962EAP [biosample_summary="Homo sapiens thymus tissue male embryo (104 days)"]
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| Id: | DNase-seq/ENCSR962EAP |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR962EAP [biosample_summary="Homo sapiens thymus tissue male embryo (104 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (104 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN031DGQ|/analyses/ENCAN031DGQ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF287NZN|/files/ENCFF287NZN/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 46608711 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 {ENCFF483PTN|/files/ENCFF483PTN/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 46246512 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 {ENCFF483PTN|/files/ENCFF483PTN/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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_ENCSR962EAP | float |
DNase-seq_ENCSR962EAP |
DNase-seq ENCSR962EAP [biosample_summary="Homo sapiens thymus tissue male embryo (104 days)"]
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[4, 1.34e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF945ILS.bed.gz | 808.49 KB | b176b352e7aceb4b8fcad095babcae66 |
| ENCFF945ILS.bed.gz.dvc | 100.0 B | d007bb0a6f211a3e172226225a88e8fe |
| ENCFF945ILS.tabix.bed.gz | 695.96 KB | a15a6a4af16963a2552deb9d5d3580bd |
| ENCFF945ILS.tabix.bed.gz.dvc | 106.0 B | c6c42ca925fc7f065c8f79bfab2a9185 |
| ENCFF945ILS.tabix.bed.gz.tbi | 365.33 KB | 2b3e3754e41c66362db5db6ef69d8775 |
| ENCFF945ILS.tabix.bed.gz.tbi.dvc | 110.0 B | 8db833386262f333900d46d0989f338a |
| genomic_resource.yaml | 3.38 KB | a84ff66113575b02961660707c4ddb9c |
| genomic_resource_original.yaml | 3.28 KB | a34cbca6213cfd972e21266e4265c297 |
| statistics/ |