DNase-seq_ENCSR082XEU
DNase-seq ENCSR082XEU [biosample_summary="Homo sapiens stomach tissue female embryo (107 days)"]
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| Id: | DNase-seq/ENCSR082XEU |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR082XEU [biosample_summary="Homo sapiens stomach tissue female embryo (107 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (107 days) output_type: peaks audit_warning: Alignment file {ENCFF419VJY|/files/ENCFF419VJY/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 24638803 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 {ENCFF419VJY|/files/ENCFF419VJY/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) 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-encode4/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR082XEU | float |
DNase-seq_ENCSR082XEU |
DNase-seq ENCSR082XEU [biosample_summary="Homo sapiens stomach tissue female embryo (107 days)"]
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[0.326, 15.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF676PRF.bed.gz | 355.39 KB | ce0fbaec29d506fcd0c09b98a28db3ac |
| ENCFF676PRF.bed.gz.dvc | 100.0 B | 65e475cd960a12a1069b7eb56acd1789 |
| ENCFF676PRF.tabix.bed.gz | 319.91 KB | 736e8002073bae686e6ff369aae34b96 |
| ENCFF676PRF.tabix.bed.gz.dvc | 106.0 B | 31ce11e6f6045be9fbd10b5ffff13289 |
| ENCFF676PRF.tabix.bed.gz.tbi | 197.97 KB | a01042c3381486fcd43e49f9a4fb0476 |
| ENCFF676PRF.tabix.bed.gz.tbi.dvc | 110.0 B | a8976e0b786bc59e47c76ee569d47c3e |
| genomic_resource.yaml | 2.65 KB | 5976ebea499a3ca8668a82022f25f31c |
| genomic_resource_original.yaml | 2.56 KB | 01918f33e848c7ae9fbd16a463e73085 |
| statistics/ |