DNase-seq_ENCSR000EPY
DNase-seq ENCSR000EPY [biosample_summary="Homo sapiens SK-N-MC"]
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| Id: | DNase-seq/ENCSR000EPY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000EPY [biosample_summary="Homo sapiens SK-N-MC"] |
| Description: |
status: released biological_replicates: Rep 2 summary: output_type: peaks audit_warning: Alignment file {ENCFF813AZG|/files/ENCFF813AZG/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 24053790 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 {ENCFF306JAZ|/files/ENCFF306JAZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 26905626 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 {ENCFF813AZG|/files/ENCFF813AZG/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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/}) 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 {ENCFF306JAZ|/files/ENCFF306JAZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.32. 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_ENCSR000EPY | float |
DNase-seq_ENCSR000EPY |
DNase-seq ENCSR000EPY [biosample_summary="Homo sapiens SK-N-MC"]
|
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[0.224, 25.4] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF054KLI.bed.gz | 517.0 KB | e14af2841e06f2c4f56bad1fb7cc8d6b |
| ENCFF054KLI.bed.gz.dvc | 100.0 B | a70df5b7cdab6901248e00cc7f45d09a |
| ENCFF054KLI.tabix.bed.gz | 459.49 KB | 9650243aad1f824f6ca357566dc87064 |
| ENCFF054KLI.tabix.bed.gz.dvc | 106.0 B | aa3eead026bd2a61d59393c8bb610365 |
| ENCFF054KLI.tabix.bed.gz.tbi | 299.74 KB | 9769396055803db935e2f43e43d48103 |
| ENCFF054KLI.tabix.bed.gz.tbi.dvc | 110.0 B | 4448111fb772017ff4ea043cdbd11d57 |
| genomic_resource.yaml | 4.34 KB | f092b87289a9e81a53620e3360a87299 |
| genomic_resource_original.yaml | 4.27 KB | d0c40d338ca7d4acc340912da878c4fb |
| statistics/ |