DNase-seq_ENCSR154YPL
DNase-seq ENCSR154YPL [biosample_summary="Homo sapiens large intestine tissue female embryo (110 days)"]
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| Id: | DNase-seq/ENCSR154YPL |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR154YPL [biosample_summary="Homo sapiens large intestine tissue female embryo (110 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (110 days) output_type: peaks audit_warning: Alignment file {ENCFF649HNY|/files/ENCFF649HNY/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 35991094 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-encode4/}) 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 {ENCFF649HNY|/files/ENCFF649HNY/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. 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-encode4/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR154YPL | float |
DNase-seq_ENCSR154YPL |
DNase-seq ENCSR154YPL [biosample_summary="Homo sapiens large intestine tissue female embryo (110 days)"]
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[0.223, 17.4] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF486QCQ.bed.gz | 564.15 KB | 4e4c224efc1e30faff82ea8ebb61ce95 |
| ENCFF486QCQ.bed.gz.dvc | 100.0 B | 0744a5b849501bc97de4086a50ea0d36 |
| ENCFF486QCQ.tabix.bed.gz | 503.03 KB | a2573eed977c79b6e9165688d33f4882 |
| ENCFF486QCQ.tabix.bed.gz.dvc | 106.0 B | 2def569c78571586e28ba514f4911790 |
| ENCFF486QCQ.tabix.bed.gz.tbi | 293.43 KB | 17cdd094d5dd80972edc1daf889884f4 |
| ENCFF486QCQ.tabix.bed.gz.tbi.dvc | 110.0 B | 8a6ce3c10c3ea3661dcc20ba4548e2b3 |
| genomic_resource.yaml | 2.68 KB | bdd4dddd9bb8edd2f8879789509b4152 |
| genomic_resource_original.yaml | 2.57 KB | cdc72821fff27827de196bf52aaccaeb |
| statistics/ |