DNase-seq_ENCSR428XAX
DNase-seq ENCSR428XAX [biosample_summary="Homo sapiens ovary tissue female embryo"]
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| Id: | DNase-seq/ENCSR428XAX |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR428XAX [biosample_summary="Homo sapiens ovary tissue female embryo"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo output_type: peaks audit_warning: Alignment file {ENCFF803UUA|/files/ENCFF803UUA/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 30412138 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 {ENCFF803UUA|/files/ENCFF803UUA/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.32. 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_ENCSR428XAX | float |
DNase-seq_ENCSR428XAX |
DNase-seq ENCSR428XAX [biosample_summary="Homo sapiens ovary tissue female embryo"]
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[0.231, 12.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF770ZGN.bed.gz | 431.91 KB | c711180b3008a6afa503f171b0c25ef9 |
| ENCFF770ZGN.bed.gz.dvc | 100.0 B | 1f0b976124bd8e4d15d1c405bc0630a0 |
| ENCFF770ZGN.tabix.bed.gz | 392.31 KB | 843b33383830d23c89bfa3466f2adcb4 |
| ENCFF770ZGN.tabix.bed.gz.dvc | 106.0 B | 7aa1910a272ee6eca61b745e16c317c1 |
| ENCFF770ZGN.tabix.bed.gz.tbi | 230.82 KB | 78f13fd4172e511d9c7cc39d5709ccf8 |
| ENCFF770ZGN.tabix.bed.gz.tbi.dvc | 110.0 B | abc68711f0b74f310878afd5e7235905 |
| genomic_resource.yaml | 2.59 KB | 5ccd7cef743012579e3a6d58a142d80e |
| genomic_resource_original.yaml | 2.51 KB | e18a1de45eade8482985a08f7492ef8e |
| statistics/ |