DNase-seq_ENCSR328UMC
DNase-seq ENCSR328UMC [biosample_summary="Homo sapiens hematopoietic multipotent progenitor cell"]
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| Id: | DNase-seq/ENCSR328UMC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR328UMC [biosample_summary="Homo sapiens hematopoietic multipotent progenitor cell"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (34 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN958FFS|/analyses/ENCAN958FFS/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF128IGS|/files/ENCFF128IGS/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 30858301 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: Alignment file {ENCFF993CDV|/files/ENCFF993CDV/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 30588883 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 {ENCFF993CDV|/files/ENCFF993CDV/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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_ENCSR328UMC | float |
DNase-seq_ENCSR328UMC |
DNase-seq ENCSR328UMC [biosample_summary="Homo sapiens hematopoietic multipotent progenitor cell"]
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[3, 1.31e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF626VVB.bed.gz | 430.56 KB | 2b5b0bd6e3c2af38fe5355332620429b |
| ENCFF626VVB.bed.gz.dvc | 100.0 B | 561f364ad7e496294238c0825cdb259b |
| ENCFF626VVB.tabix.bed.gz | 371.54 KB | e2425e8767f34775706f0355999e2461 |
| ENCFF626VVB.tabix.bed.gz.dvc | 106.0 B | bbb036d75640a6a827be93454ee9e67b |
| ENCFF626VVB.tabix.bed.gz.tbi | 228.67 KB | e297b62b53421d36b581b4fe942c386d |
| ENCFF626VVB.tabix.bed.gz.tbi.dvc | 110.0 B | 1cc0ff8c9fc392e887a32c1fd2195453 |
| genomic_resource.yaml | 3.41 KB | 90ae69d574b2d5b9e2219f3c65072d21 |
| genomic_resource_original.yaml | 3.31 KB | 2bd1e979edee8461d6087d6c6b974a87 |
| statistics/ |