DNase-seq_ENCSR000ENG
DNase-seq ENCSR000ENG [biosample_summary="Homo sapiens smooth muscle cell of the brain vasculature female"]
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| Id: | DNase-seq/ENCSR000ENG |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000ENG [biosample_summary="Homo sapiens smooth muscle cell of the brain vasculature female"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female output_type: peaks audit_internal_action: Archived analysis {ENCAN504LSO|/analyses/ENCAN504LSO/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF369LCZ|/files/ENCFF369LCZ/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 26642568 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 {ENCFF295AFC|/files/ENCFF295AFC/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 26183348 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 {ENCFF557GXL|/files/ENCFF557GXL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 26470388 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 {ENCFF994IJJ|/files/ENCFF994IJJ/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 25993458 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 {ENCFF557GXL|/files/ENCFF557GXL/} 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_ENCSR000ENG | float |
DNase-seq_ENCSR000ENG |
DNase-seq ENCSR000ENG [biosample_summary="Homo sapiens smooth muscle cell of the brain vasculature female"]
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[3, 7.51e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF291PDD.bed.gz | 673.15 KB | d4bfce73b8d41990b2432b9d70917fcc |
| ENCFF291PDD.bed.gz.dvc | 100.0 B | ab976fd4fcefe0a8b81300581b9329fe |
| ENCFF291PDD.tabix.bed.gz | 577.27 KB | 1a66e1e86e1ccdbf0e0ac0e4a6192a5a |
| ENCFF291PDD.tabix.bed.gz.dvc | 106.0 B | de2b648ba49150c2bac6358cd42b6c9b |
| ENCFF291PDD.tabix.bed.gz.tbi | 373.04 KB | 7d67234052d1709c83d91a8c964ee5ba |
| ENCFF291PDD.tabix.bed.gz.tbi.dvc | 110.0 B | 1b369af14eed2df3f93f2e02c8aab812 |
| genomic_resource.yaml | 4.58 KB | 6a509c26523a525a00950810401493eb |
| genomic_resource_original.yaml | 4.47 KB | bd656a8096827de452f7d801e626d415 |
| statistics/ |