DNase-seq_ENCSR246PXX
DNase-seq ENCSR246PXX [biosample_summary="Homo sapiens stomach tissue male child (3 years)"]
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| Id: | DNase-seq/ENCSR246PXX |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR246PXX [biosample_summary="Homo sapiens stomach tissue male child (3 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male child (3 years) output_type: peaks audit_warning: Alignment file {ENCFF525YME|/files/ENCFF525YME/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 44440112 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 {ENCFF525YME|/files/ENCFF525YME/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.28. 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_ENCSR246PXX | float |
DNase-seq_ENCSR246PXX |
DNase-seq ENCSR246PXX [biosample_summary="Homo sapiens stomach tissue male child (3 years)"]
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[0.158, 14.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF981ICF.bed.gz | 602.63 KB | 33dee29a47611b6b7b92c1e6bfac642a |
| ENCFF981ICF.bed.gz.dvc | 100.0 B | e890975f8f8a4ea88f982091d2a200b2 |
| ENCFF981ICF.tabix.bed.gz | 538.23 KB | 7bca2685cfe2d591d2d89f56e8536905 |
| ENCFF981ICF.tabix.bed.gz.dvc | 106.0 B | d213a86463730761307690bc89901204 |
| ENCFF981ICF.tabix.bed.gz.tbi | 311.32 KB | 5d00839d7574399275ae448f1da8becd |
| ENCFF981ICF.tabix.bed.gz.tbi.dvc | 110.0 B | 76410726feb2197ce7af6821045aacf3 |
| genomic_resource.yaml | 2.63 KB | ec517ac828099d9656c23bd6970934cc |
| genomic_resource_original.yaml | 2.54 KB | ef655deaa09ac9d7b1bdaedbdbbf93fb |
| statistics/ |