DNase-seq_ENCSR262QJC
DNase-seq ENCSR262QJC [biosample_summary="Homo sapiens kidney tissue male embryo (87 days)"]
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| Id: | DNase-seq/ENCSR262QJC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR262QJC [biosample_summary="Homo sapiens kidney tissue male embryo (87 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (87 days) output_type: peaks audit_warning: Alignment file {ENCFF126PCH|/files/ENCFF126PCH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 24316994 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 {ENCFF126PCH|/files/ENCFF126PCH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.26. 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_ENCSR262QJC | float |
DNase-seq_ENCSR262QJC |
DNase-seq ENCSR262QJC [biosample_summary="Homo sapiens kidney tissue male embryo (87 days)"]
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[0.33, 27.5] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF720ENQ.bed.gz | 240.89 KB | 1c745ce892406dccef29f42524f87f7f |
| ENCFF720ENQ.bed.gz.dvc | 100.0 B | ea6bf636e56d13a3d1079095ebda2ae4 |
| ENCFF720ENQ.tabix.bed.gz | 214.7 KB | 8ede99a39bf31f6e1ff7a801bfaaed7c |
| ENCFF720ENQ.tabix.bed.gz.dvc | 106.0 B | fb61e64cbaf76ffa112ccca6ba82b9fc |
| ENCFF720ENQ.tabix.bed.gz.tbi | 156.7 KB | 0b88f3a190c8cb66b238a33868cfa2be |
| ENCFF720ENQ.tabix.bed.gz.tbi.dvc | 110.0 B | c16bfd44e139a52bc63c6a223eb72552 |
| genomic_resource.yaml | 2.64 KB | c91ff553fdb7a22fbe58f2a9798d0c6a |
| genomic_resource_original.yaml | 2.54 KB | 3f20c36a3da7f29b3ba1b1cb65c5555b |
| statistics/ |