DNase-seq_ENCSR437KLY
DNase-seq ENCSR437KLY [biosample_summary="Homo sapiens kidney tissue female embryo (85 days)"]
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| Id: | DNase-seq/ENCSR437KLY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR437KLY [biosample_summary="Homo sapiens kidney tissue female embryo (85 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (85 days) output_type: peaks audit_warning: Alignment file {ENCFF667HRN|/files/ENCFF667HRN/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 36062889 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 {ENCFF667HRN|/files/ENCFF667HRN/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.28. 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_ENCSR437KLY | float |
DNase-seq_ENCSR437KLY |
DNase-seq ENCSR437KLY [biosample_summary="Homo sapiens kidney tissue female embryo (85 days)"]
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[0.251, 10.4] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF234RER.bed.gz | 311.39 KB | 8d499a0811e0f19a6857c33714eca071 |
| ENCFF234RER.bed.gz.dvc | 100.0 B | 273adf387738ad88b52d728b593f0a93 |
| ENCFF234RER.tabix.bed.gz | 280.43 KB | 0654ddddfb36e22397921f0c0e8aeef1 |
| ENCFF234RER.tabix.bed.gz.dvc | 106.0 B | 5f06e3aa1c27c533fe56ea130d810655 |
| ENCFF234RER.tabix.bed.gz.tbi | 180.1 KB | 94258e57f3e0333329c445685eb92aeb |
| ENCFF234RER.tabix.bed.gz.tbi.dvc | 110.0 B | 91c93aa69f3dc08cacbd29a79ee9a917 |
| genomic_resource.yaml | 2.65 KB | c62919213f0f123813f6e4f91349978e |
| genomic_resource_original.yaml | 2.55 KB | f17d5d546914dfe2890f3e8ce4bdec63 |
| statistics/ |