DNase-seq_ENCSR728BAD
DNase-seq ENCSR728BAD [biosample_summary="Homo sapiens adrenal gland tissue male embryo (108 days)"]
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| Id: | DNase-seq/ENCSR728BAD |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR728BAD [biosample_summary="Homo sapiens adrenal gland tissue male embryo (108 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (108 days) output_type: peaks audit_warning: Alignment file {ENCFF982YMU|/files/ENCFF982YMU/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 28285867 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 {ENCFF982YMU|/files/ENCFF982YMU/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.30. 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_ENCSR728BAD | float |
DNase-seq_ENCSR728BAD |
DNase-seq ENCSR728BAD [biosample_summary="Homo sapiens adrenal gland tissue male embryo (108 days)"]
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[0.284, 12.4] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF659HIW.bed.gz | 470.06 KB | ff37527b57d03561e5d4be030a102962 |
| ENCFF659HIW.bed.gz.dvc | 100.0 B | 204f20050b6ce831f46fade19e0557ca |
| ENCFF659HIW.tabix.bed.gz | 419.69 KB | f55ad56bfd920b5a82f34bcc4734cac9 |
| ENCFF659HIW.tabix.bed.gz.dvc | 106.0 B | 4f43608b0102777a656cca1ff7b562fe |
| ENCFF659HIW.tabix.bed.gz.tbi | 263.87 KB | e83a5b449cfdf475fd6faba9f78541d9 |
| ENCFF659HIW.tabix.bed.gz.tbi.dvc | 110.0 B | e5548ad1ef66ebd2d3b40d73d97333a4 |
| genomic_resource.yaml | 2.66 KB | ae5dc80e677eff0dd9d4f55de97f35a0 |
| genomic_resource_original.yaml | 2.56 KB | b2f5074950a37bf4f0fe98c38f54c48c |
| statistics/ |