DNase-seq_ENCSR800QGE
DNase-seq ENCSR800QGE [biosample_summary="Homo sapiens large intestine tissue female embryo (103 days)"]
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| Id: | DNase-seq/ENCSR800QGE |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR800QGE [biosample_summary="Homo sapiens large intestine tissue female embryo (103 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (103 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN288PDQ|/analyses/ENCAN288PDQ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF049BTE|/files/ENCFF049BTE/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 25839859 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 {ENCFF562RWI|/files/ENCFF562RWI/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 25630989 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 {ENCFF562RWI|/files/ENCFF562RWI/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR800QGE | float |
DNase-seq_ENCSR800QGE |
DNase-seq ENCSR800QGE [biosample_summary="Homo sapiens large intestine tissue female embryo (103 days)"]
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[4, 814] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF277ILM.bed.gz | 523.0 KB | 2b6429868df7450d4a5f4b985176c532 |
| ENCFF277ILM.bed.gz.dvc | 100.0 B | af95093057dc834a0dc066ab20196ac3 |
| ENCFF277ILM.tabix.bed.gz | 446.57 KB | ee8da8c2368d608385d4d2b2abbef546 |
| ENCFF277ILM.tabix.bed.gz.dvc | 106.0 B | 5ea9cfce1526c197fd1fcd651e677480 |
| ENCFF277ILM.tabix.bed.gz.tbi | 296.51 KB | ea21b14876488141274c9d4118a0f068 |
| ENCFF277ILM.tabix.bed.gz.tbi.dvc | 110.0 B | 3e7f8cf855488f725bdb30c69f2cba23 |
| genomic_resource.yaml | 3.41 KB | 574dbd5f6783eadf81977c83a2faf1fb |
| genomic_resource_original.yaml | 3.31 KB | d21a24e40e08c7f568e63b50026f9a3d |
| statistics/ |