DNase-seq_ENCSR000EJT
DNase-seq ENCSR000EJT [biosample_summary="Homo sapiens HeLa-S3"]
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| Id: | DNase-seq/ENCSR000EJT |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000EJT [biosample_summary="Homo sapiens HeLa-S3"] |
| Description: |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Archived analysis {ENCAN618JRK|/analyses/ENCAN618JRK/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF342EWC|/files/ENCFF342EWC/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 48557781 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/}) 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 {ENCFF342EWC|/files/ENCFF342EWC/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.40. 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/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR000EJT | float |
DNase-seq_ENCSR000EJT |
DNase-seq ENCSR000EJT [biosample_summary="Homo sapiens HeLa-S3"]
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[3, 736] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF888QGO.bed.gz | 921.29 KB | cf1f3cdc430833c338cd6a3fc8ba37da |
| ENCFF888QGO.bed.gz.dvc | 100.0 B | 4f6e96153d7a5a9778a8fae4f86e7218 |
| ENCFF888QGO.tabix.bed.gz | 791.84 KB | d81b73a39bf8835f8d1fed2615f27010 |
| ENCFF888QGO.tabix.bed.gz.dvc | 106.0 B | 02e73a68cd951c5b7d2b8252c7a84a98 |
| ENCFF888QGO.tabix.bed.gz.tbi | 388.67 KB | 4b55ff9c010778af9f16976d96956c27 |
| ENCFF888QGO.tabix.bed.gz.tbi.dvc | 110.0 B | 8cd9fd8710cb3d1a65f4eb00d9ef31a3 |
| genomic_resource.yaml | 2.71 KB | 1645b8ee6f8af31ddab77bc924936a4d |
| genomic_resource_original.yaml | 2.64 KB | c5be3e2d1f234f23f70b42fc92009afa |
| statistics/ |