DNase-seq_ENCSR000EPU
DNase-seq ENCSR000EPU [biosample_summary="Homo sapiens epithelial cell of prostate"]
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| Id: | DNase-seq/ENCSR000EPU |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR000EPU [biosample_summary="Homo sapiens epithelial cell of prostate"] |
| Description: |
status: released biological_replicates: Rep 2 summary: output_type: peaks audit_internal_action: Archived analysis {ENCAN574TXJ|/analyses/ENCAN574TXJ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF222FBW|/files/ENCFF222FBW/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 35026810 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 {ENCFF026UXE|/files/ENCFF026UXE/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 35632996 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 {ENCFF879BNX|/files/ENCFF879BNX/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 34705945 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 {ENCFF983FBQ|/files/ENCFF983FBQ/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 35293367 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 {ENCFF879BNX|/files/ENCFF879BNX/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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/}) 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 {ENCFF983FBQ|/files/ENCFF983FBQ/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.32. 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_ENCSR000EPU | float |
DNase-seq_ENCSR000EPU |
DNase-seq ENCSR000EPU [biosample_summary="Homo sapiens epithelial cell of prostate"]
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[4, 6.83e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF632UNR.bed.gz | 1009.16 KB | 8f2c896968e16b4992d4b1ea9fc03df5 |
| ENCFF632UNR.bed.gz.dvc | 101.0 B | e4db69280c2d7232861c47df53fa5cfb |
| ENCFF632UNR.tabix.bed.gz | 869.37 KB | 5481629f7b187d8849298d438a6a9077 |
| ENCFF632UNR.tabix.bed.gz.dvc | 106.0 B | c7c2ab2b4556e9a6fbdb9c4b0a91a716 |
| ENCFF632UNR.tabix.bed.gz.tbi | 515.24 KB | 70ff634ab2214bbd6fabe4b6dc99c417 |
| ENCFF632UNR.tabix.bed.gz.tbi.dvc | 110.0 B | 84cbad16825e799eb43951f6ca7847a6 |
| genomic_resource.yaml | 5.46 KB | 54d2eae819d9f584107d3343a67079af |
| genomic_resource_original.yaml | 5.37 KB | 110f5b1e7bbdbd5cbd49333194afaf7e |
| statistics/ |