DNase-seq_ENCSR000FEK
DNase-seq ENCSR000FEK [biosample_summary="Homo sapiens SK-MEL-5"]
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| Id: | DNase-seq/ENCSR000FEK |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000FEK [biosample_summary="Homo sapiens SK-MEL-5"] |
| Description: |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_warning: Alignment file {ENCFF207FFJ|/files/ENCFF207FFJ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 37564407 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 {ENCFF207FFJ|/files/ENCFF207FFJ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR000FEK | float |
DNase-seq_ENCSR000FEK |
DNase-seq ENCSR000FEK [biosample_summary="Homo sapiens SK-MEL-5"]
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[0.0284, 43] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF659HYC.bed.gz | 1.83 MB | b28a2082094c7047df74fdee03a5cf5b |
| ENCFF659HYC.bed.gz.dvc | 101.0 B | d4584e1c812e65793bf1091fa5ac21ce |
| ENCFF659HYC.tabix.bed.gz | 1.67 MB | fc1c2f49dae580d9369561671c6e0f7a |
| ENCFF659HYC.tabix.bed.gz.dvc | 107.0 B | d0f0171d519d77af3e7b9ae1c454c50b |
| ENCFF659HYC.tabix.bed.gz.tbi | 629.97 KB | 446588ebf08046afa5d1a3e247ad3a93 |
| ENCFF659HYC.tabix.bed.gz.tbi.dvc | 110.0 B | e88cdbaa7099d179dcdaf5ce456d20a8 |
| genomic_resource.yaml | 2.56 KB | 7f4deabb40848b111da71b9171077a01 |
| genomic_resource_original.yaml | 2.49 KB | df5f9717816047b201701889c171e152 |
| statistics/ |