DNase-seq_ENCSR670ZSA
DNase-seq ENCSR670ZSA [biosample_summary="Homo sapiens right kidney tissue male embryo (96 days)"]
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| Id: | DNase-seq/ENCSR670ZSA |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR670ZSA [biosample_summary="Homo sapiens right kidney tissue male embryo (96 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (96 days) output_type: peaks audit_warning: Alignment file {ENCFF199PNS|/files/ENCFF199PNS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 37458872 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 {ENCFF199PNS|/files/ENCFF199PNS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.29. 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_ENCSR670ZSA | float |
DNase-seq_ENCSR670ZSA |
DNase-seq ENCSR670ZSA [biosample_summary="Homo sapiens right kidney tissue male embryo (96 days)"]
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[0.214, 11.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF748WYJ.bed.gz | 407.92 KB | 5318dcdf9b3ea2dd0e816634cee2f3ee |
| ENCFF748WYJ.bed.gz.dvc | 100.0 B | a8c0f64c634f1d911d0a21e1fa45e937 |
| ENCFF748WYJ.tabix.bed.gz | 374.49 KB | f8021ad76c8f4b7cabca0a93a9698d12 |
| ENCFF748WYJ.tabix.bed.gz.dvc | 106.0 B | 7c42606220ac26003ca97c25dfbfd727 |
| ENCFF748WYJ.tabix.bed.gz.tbi | 211.88 KB | 39e5502996273e6afb0afd3b30db9f21 |
| ENCFF748WYJ.tabix.bed.gz.tbi.dvc | 110.0 B | 5eb42e60d03607a605376281aa0a072d |
| genomic_resource.yaml | 2.65 KB | 484f5f5fedd42cd3716aa3a1560c7c44 |
| genomic_resource_original.yaml | 2.55 KB | 9a7edcaab4ff26d24617bff16228589f |
| statistics/ |