DNase-seq_ENCSR062DUU
DNase-seq ENCSR062DUU [biosample_summary="Homo sapiens stomach tissue female embryo (105 days)"]
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| Id: | DNase-seq/ENCSR062DUU |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR062DUU [biosample_summary="Homo sapiens stomach tissue female embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (105 days) output_type: peaks audit_warning: Replicate 1_2 has no significant footprints detected. audit_warning: Alignment file {ENCFF651VUW|/files/ENCFF651VUW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 34450254 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 {ENCFF651VUW|/files/ENCFF651VUW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.29. 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_ENCSR062DUU | float |
DNase-seq_ENCSR062DUU |
DNase-seq ENCSR062DUU [biosample_summary="Homo sapiens stomach tissue female embryo (105 days)"]
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[0.234, 20.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF935XVZ.bed.gz | 443.48 KB | 2ead62499cf226785bc3ff3f579b3b0a |
| ENCFF935XVZ.bed.gz.dvc | 100.0 B | b97af283edf438faf6d0023cf21717f3 |
| ENCFF935XVZ.tabix.bed.gz | 394.04 KB | 717943b122799d74d1a275d9ab32c5f2 |
| ENCFF935XVZ.tabix.bed.gz.dvc | 106.0 B | 349311d655dc13d6f9071c1fd9f5f68f |
| ENCFF935XVZ.tabix.bed.gz.tbi | 252.17 KB | d26ab7fe3ecc2105d599e5924ffba61b |
| ENCFF935XVZ.tabix.bed.gz.tbi.dvc | 110.0 B | 8ccfceab7dac85a60a5178163839e3e1 |
| genomic_resource.yaml | 2.73 KB | 0a0eb5feee96d237ecfa359480cd1ea5 |
| genomic_resource_original.yaml | 2.64 KB | 7f11543ea90ae2648c2bf298bb02c3cb |
| statistics/ |