DNase-seq_ENCSR320SVK
DNase-seq ENCSR320SVK [biosample_summary="Homo sapiens left renal pelvis tissue male embryo (120 days)"]
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| Id: | DNase-seq/ENCSR320SVK |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR320SVK [biosample_summary="Homo sapiens left renal pelvis tissue male embryo (120 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (120 days) output_type: peaks audit_warning: Alignment file {ENCFF939OLN|/files/ENCFF939OLN/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 30452128 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 {ENCFF939OLN|/files/ENCFF939OLN/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR320SVK | float |
DNase-seq_ENCSR320SVK |
DNase-seq ENCSR320SVK [biosample_summary="Homo sapiens left renal pelvis tissue male embryo (120 days)"]
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[0.165, 18.4] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF202LNA.bed.gz | 472.54 KB | cf720ce4f3df765c78d4167e83bf180f |
| ENCFF202LNA.bed.gz.dvc | 100.0 B | da5c4c4a53333678cce9ffaee059825e |
| ENCFF202LNA.tabix.bed.gz | 422.2 KB | 535425b0e45604c1df34524be3b0a9ae |
| ENCFF202LNA.tabix.bed.gz.dvc | 106.0 B | 279ab7e443f87cb621a277cafab47eea |
| ENCFF202LNA.tabix.bed.gz.tbi | 261.6 KB | 96625ce6ceb8b65400ed1a086660d448 |
| ENCFF202LNA.tabix.bed.gz.tbi.dvc | 110.0 B | 33cb2fcaa2bc8f4c8a3f5c28bf202eb6 |
| genomic_resource.yaml | 2.67 KB | deba10550f4664c8f5ec58026c02c362 |
| genomic_resource_original.yaml | 2.57 KB | 8ff5030e1c747c64e824c6266257b35c |
| statistics/ |