DNase-seq_ENCSR076YBB
DNase-seq ENCSR076YBB [biosample_summary="Homo sapiens lung tissue male embryo (108 days)"]
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| Id: | DNase-seq/ENCSR076YBB |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR076YBB [biosample_summary="Homo sapiens lung tissue male embryo (108 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (108 days) output_type: peaks audit_warning: Alignment file {ENCFF148XUS|/files/ENCFF148XUS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 21577453 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 {ENCFF148XUS|/files/ENCFF148XUS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR076YBB | float |
DNase-seq_ENCSR076YBB |
DNase-seq ENCSR076YBB [biosample_summary="Homo sapiens lung tissue male embryo (108 days)"]
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[0.325, 15.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF778XBV.bed.gz | 417.25 KB | 63193a955bd443adc5af2c36a9745df0 |
| ENCFF778XBV.bed.gz.dvc | 100.0 B | c8d6b004bbb9f2860db7eb9434aa70f5 |
| ENCFF778XBV.tabix.bed.gz | 368.4 KB | 1230af2ceab3e72d2ed0312cb55f12a8 |
| ENCFF778XBV.tabix.bed.gz.dvc | 106.0 B | 5c333d5f43e293cc0cdce591b2c6b1b5 |
| ENCFF778XBV.tabix.bed.gz.tbi | 255.83 KB | 2cf954b7a6ce37c26489a576dbf12146 |
| ENCFF778XBV.tabix.bed.gz.tbi.dvc | 110.0 B | 37740d471c2d01579a6d2de7692ba1f1 |
| genomic_resource.yaml | 2.64 KB | 352e1de7e7d5821a71bed4c4ea7100a7 |
| genomic_resource_original.yaml | 2.54 KB | bcf9692024227e89b27bf0d33bc63fb7 |
| statistics/ |