DNase-seq_ENCSR619DRM
DNase-seq ENCSR619DRM [biosample_summary="Homo sapiens renal pelvis tissue female embryo (105 days)"]
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| Id: | DNase-seq/ENCSR619DRM |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR619DRM [biosample_summary="Homo sapiens renal pelvis tissue female embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (105 days) output_type: peaks audit_warning: Alignment file {ENCFF312ZAH|/files/ENCFF312ZAH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 21451378 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 {ENCFF312ZAH|/files/ENCFF312ZAH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.31. 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_ENCSR619DRM | float |
DNase-seq_ENCSR619DRM |
DNase-seq ENCSR619DRM [biosample_summary="Homo sapiens renal pelvis tissue female embryo (105 days)"]
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[0.328, 15.4] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF156THP.bed.gz | 351.56 KB | 38484fb9fb4b80b4d7f3e7e7dca8158f |
| ENCFF156THP.bed.gz.dvc | 100.0 B | 37a655b0cb7634e2c91a005b145feafa |
| ENCFF156THP.tabix.bed.gz | 313.11 KB | 1603fbf1a43bcfbdbee9249afe3c4b54 |
| ENCFF156THP.tabix.bed.gz.dvc | 106.0 B | f5eea1b002c89f8a487cc38996d4af23 |
| ENCFF156THP.tabix.bed.gz.tbi | 206.62 KB | 4720a1597ed9c6c63e888b0ecf363a72 |
| ENCFF156THP.tabix.bed.gz.tbi.dvc | 110.0 B | 0c3308de227b627624c5437d7582ee81 |
| genomic_resource.yaml | 2.67 KB | 4ac38fe60d6b1c906f21910d27e89d51 |
| genomic_resource_original.yaml | 2.57 KB | 547979d2303472d58666b54b53da5c6a |
| statistics/ |