DNase-seq_ENCSR973MKT
DNase-seq ENCSR973MKT [biosample_summary="Homo sapiens spinal cord tissue female embryo (87 days)"]
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| Id: | DNase-seq/ENCSR973MKT |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR973MKT [biosample_summary="Homo sapiens spinal cord tissue female embryo (87 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (87 days) output_type: peaks audit_warning: Alignment file {ENCFF963LSW|/files/ENCFF963LSW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 24741055 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 {ENCFF963LSW|/files/ENCFF963LSW/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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_ENCSR973MKT | float |
DNase-seq_ENCSR973MKT |
DNase-seq ENCSR973MKT [biosample_summary="Homo sapiens spinal cord tissue female embryo (87 days)"]
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[0.243, 16.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF733BPU.bed.gz | 437.45 KB | 2e2d93735e1440d0b577890b78703848 |
| ENCFF733BPU.bed.gz.dvc | 100.0 B | 51069ec9529de0ed9e72410386757987 |
| ENCFF733BPU.tabix.bed.gz | 390.19 KB | 7e1ffa7374879f386eccd625860045dd |
| ENCFF733BPU.tabix.bed.gz.dvc | 106.0 B | 34b7894670869a52069e7bed55a753ab |
| ENCFF733BPU.tabix.bed.gz.tbi | 252.42 KB | 2ac08784f62f5520e6afc49c6aa64122 |
| ENCFF733BPU.tabix.bed.gz.tbi.dvc | 110.0 B | 4f00cf1a04a27be4622bb36cdb44e112 |
| genomic_resource.yaml | 2.66 KB | 167837f32c4a9cffb30e5963beee3075 |
| genomic_resource_original.yaml | 2.56 KB | 08288f15a6c5433011dcbfb1358d8f7b |
| statistics/ |