DNase-seq_ENCSR788SOI
DNase-seq ENCSR788SOI [biosample_summary="Homo sapiens spinal cord tissue male embryo (96 days)"]
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| Id: | DNase-seq/ENCSR788SOI |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR788SOI [biosample_summary="Homo sapiens spinal cord tissue male embryo (96 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (96 days) output_type: peaks audit_warning: Alignment file {ENCFF556GYQ|/files/ENCFF556GYQ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 34786718 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 {ENCFF556GYQ|/files/ENCFF556GYQ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.30. 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_ENCSR788SOI | float |
DNase-seq_ENCSR788SOI |
DNase-seq ENCSR788SOI [biosample_summary="Homo sapiens spinal cord tissue male embryo (96 days)"]
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[0.231, 13.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF112CXA.bed.gz | 481.79 KB | 6a480c862ee2dbf5b12358afcfef23e5 |
| ENCFF112CXA.bed.gz.dvc | 100.0 B | 5f60ee39a8e7839ef739ec7970a71141 |
| ENCFF112CXA.tabix.bed.gz | 434.87 KB | 46da40b2afbb626f3cc9b98b4c972d29 |
| ENCFF112CXA.tabix.bed.gz.dvc | 106.0 B | 12301f2a4774169be3b46c5f276b3e4f |
| ENCFF112CXA.tabix.bed.gz.tbi | 258.59 KB | 67c5dfe2c64a0cfcfc184ac238b48c70 |
| ENCFF112CXA.tabix.bed.gz.tbi.dvc | 110.0 B | e661aa09b96844412f7173b438132b0f |
| genomic_resource.yaml | 2.65 KB | 638f765ad482c191025d0f033c9bcce9 |
| genomic_resource_original.yaml | 2.55 KB | e2e258b820305948a1c691b541f45cb8 |
| statistics/ |