DNase-seq_ENCSR627KFV
DNase-seq ENCSR627KFV [biosample_summary="Homo sapiens stomach tissue female embryo (110 days)"]
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| Id: | DNase-seq/ENCSR627KFV |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR627KFV [biosample_summary="Homo sapiens stomach tissue female embryo (110 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (110 days) output_type: peaks audit_warning: Alignment file {ENCFF895DTV|/files/ENCFF895DTV/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 28929175 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 {ENCFF895DTV|/files/ENCFF895DTV/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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_ENCSR627KFV | float |
DNase-seq_ENCSR627KFV |
DNase-seq ENCSR627KFV [biosample_summary="Homo sapiens stomach tissue female embryo (110 days)"]
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[0.208, 10.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF012IZP.bed.gz | 362.34 KB | bb8370085d0e9bf398f43609f89d1970 |
| ENCFF012IZP.bed.gz.dvc | 100.0 B | 75e4d6d4c04eb3352ea7df12f27dc779 |
| ENCFF012IZP.tabix.bed.gz | 332.68 KB | bbd33c8b3da0428261f3dff515074f38 |
| ENCFF012IZP.tabix.bed.gz.dvc | 106.0 B | 2e9914cc9118315aa5262bb151cbcbec |
| ENCFF012IZP.tabix.bed.gz.tbi | 190.68 KB | 74ad3322b5ee5bbc50073d571941b735 |
| ENCFF012IZP.tabix.bed.gz.tbi.dvc | 110.0 B | 16e745d26ee8f5eba9509efad9d78523 |
| genomic_resource.yaml | 2.65 KB | d0cc3f55f6d0793724c600a02eb7c9cb |
| genomic_resource_original.yaml | 2.56 KB | ab671c93744083b8d81edf4cd8495e41 |
| statistics/ |