DNase-seq_ENCSR000ELY
DNase-seq ENCSR000ELY [biosample_summary="Homo sapiens AG04450"]
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| Id: | DNase-seq/ENCSR000ELY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000ELY [biosample_summary="Homo sapiens AG04450"] |
| Description: |
status: released biological_replicates: Rep 2 summary: output_type: peaks audit_warning: Alignment file {ENCFF088CFN|/files/ENCFF088CFN/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 22224225 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: Alignment file {ENCFF761RMZ|/files/ENCFF761RMZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 28443646 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 {ENCFF761RMZ|/files/ENCFF761RMZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.39. 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_ENCSR000ELY | float |
DNase-seq_ENCSR000ELY |
DNase-seq ENCSR000ELY [biosample_summary="Homo sapiens AG04450"]
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[0.248, 35.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF816RDX.bed.gz | 709.9 KB | 65cc8f4c23460163ac548597e1a44022 |
| ENCFF816RDX.bed.gz.dvc | 100.0 B | 91c6a187a2459209c96e54442466a589 |
| ENCFF816RDX.tabix.bed.gz | 631.09 KB | 4b5c768e46e0bdabe3bd9304492d92ad |
| ENCFF816RDX.tabix.bed.gz.dvc | 106.0 B | 70f79a7e291c202270557a5fe2ce4746 |
| ENCFF816RDX.tabix.bed.gz.tbi | 360.75 KB | aa16cce29aa1029385ce1c1b4eb39d8c |
| ENCFF816RDX.tabix.bed.gz.tbi.dvc | 110.0 B | 68f281cffbe3167991f7fb7e7f7cb91c |
| genomic_resource.yaml | 3.2 KB | e4adc46a3e3d0148c939d11f370cab12 |
| genomic_resource_original.yaml | 3.13 KB | a731147fda58060661b86107da45e5e7 |
| statistics/ |