DNase-seq_ENCSR014VAC
DNase-seq ENCSR014VAC [biosample_summary="Homo sapiens right renal cortex interstitium tissue male embryo (105 days)"]
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| Id: | DNase-seq/ENCSR014VAC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR014VAC [biosample_summary="Homo sapiens right renal cortex interstitium tissue male embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (105 days) output_type: peaks audit_warning: Alignment file {ENCFF203UES|/files/ENCFF203UES/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 37127546 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 {ENCFF203UES|/files/ENCFF203UES/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.26. 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_ENCSR014VAC | float |
DNase-seq_ENCSR014VAC |
DNase-seq ENCSR014VAC [biosample_summary="Homo sapiens right renal cortex interstitium tissue male embryo (105 days)"]
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[0.216, 10.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF056EMK.bed.gz | 348.72 KB | 2bf91aceb53872de988406cda99c14d8 |
| ENCFF056EMK.bed.gz.dvc | 100.0 B | 82c19d12eea713bd18237d2c37ac603f |
| ENCFF056EMK.tabix.bed.gz | 313.9 KB | 59e9be02b46f189856ca6f6ac1d7e9e2 |
| ENCFF056EMK.tabix.bed.gz.dvc | 106.0 B | 4502937d0b2a5f2a89b32c6850ea1021 |
| ENCFF056EMK.tabix.bed.gz.tbi | 199.53 KB | d831394cfa2444ba4427221a5ed76302 |
| ENCFF056EMK.tabix.bed.gz.tbi.dvc | 110.0 B | 0cbd8c226bbdeea20c62b1d67fd88a39 |
| genomic_resource.yaml | 2.72 KB | b221d2158bbf5ced992a9234d8ba8fb8 |
| genomic_resource_original.yaml | 2.6 KB | 22ce8c3efda06aebb1e214ea0f1b8637 |
| statistics/ |