DNase-seq_ENCSR608AHQ
DNase-seq ENCSR608AHQ [biosample_summary="Homo sapiens stomach tissue male embryo (127 days)"]
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| Id: | DNase-seq/ENCSR608AHQ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR608AHQ [biosample_summary="Homo sapiens stomach tissue male embryo (127 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (127 days) output_type: peaks audit_warning: Alignment file {ENCFF655BJW|/files/ENCFF655BJW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 30431116 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 {ENCFF655BJW|/files/ENCFF655BJW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR608AHQ | float |
DNase-seq_ENCSR608AHQ |
DNase-seq ENCSR608AHQ [biosample_summary="Homo sapiens stomach tissue male embryo (127 days)"]
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[0.231, 17.8] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF894SPL.bed.gz | 421.73 KB | 9412d71b3d212df81e35c330f8443b98 |
| ENCFF894SPL.bed.gz.dvc | 100.0 B | c02a9e8342b895479dc8c0656e8bc457 |
| ENCFF894SPL.tabix.bed.gz | 382.55 KB | ad7469d20166f78ee545cf2076be5c1d |
| ENCFF894SPL.tabix.bed.gz.dvc | 106.0 B | 281c37190aaa7970483ad4a2c5309083 |
| ENCFF894SPL.tabix.bed.gz.tbi | 226.11 KB | 3a95a6e7f1a4468d8f8e12a64709470c |
| ENCFF894SPL.tabix.bed.gz.tbi.dvc | 110.0 B | d9e6c9d8cf119e07bb386deba7ef262a |
| genomic_resource.yaml | 2.64 KB | 2a091924622f899a3e2037b5e18272cf |
| genomic_resource_original.yaml | 2.55 KB | b65710e0f8b2d246e780d57eeab4712f |
| statistics/ |