DNase-seq_ENCSR888GBS
DNase-seq ENCSR888GBS [biosample_summary="Homo sapiens muscle of arm tissue male embryo (96 days)"]
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| Id: | DNase-seq/ENCSR888GBS |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR888GBS [biosample_summary="Homo sapiens muscle of arm tissue male embryo (96 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (96 days) output_type: peaks audit_warning: Alignment file {ENCFF465GMC|/files/ENCFF465GMC/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 38103510 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 {ENCFF465GMC|/files/ENCFF465GMC/} 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_ENCSR888GBS | float |
DNase-seq_ENCSR888GBS |
DNase-seq ENCSR888GBS [biosample_summary="Homo sapiens muscle of arm tissue male embryo (96 days)"]
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[0.211, 10.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF010APV.bed.gz | 440.58 KB | 7406edf5b197e64eada83ecdb8d4e4d4 |
| ENCFF010APV.bed.gz.dvc | 100.0 B | 493b97ec725713e20a3a6b742a310a62 |
| ENCFF010APV.tabix.bed.gz | 399.82 KB | 721d243639dd373c9c0d6780f325c08b |
| ENCFF010APV.tabix.bed.gz.dvc | 106.0 B | 0380be786bc7a7197b851a4183b9811c |
| ENCFF010APV.tabix.bed.gz.tbi | 237.27 KB | 0e1d8ee6f95cf7ae60c4748b2e72086d |
| ENCFF010APV.tabix.bed.gz.tbi.dvc | 110.0 B | d75aa81b885d6628c09337e8849b9b93 |
| genomic_resource.yaml | 2.66 KB | ea2d7a3e0bdeb4585cd1f44fbfd11cc2 |
| genomic_resource_original.yaml | 2.56 KB | 62c8ba33cbdd8e701c8dde4c1848f4ad |
| statistics/ |