DNase-seq_ENCSR148MFM
DNase-seq ENCSR148MFM [biosample_summary="Homo sapiens spinal cord tissue male embryo (105 days)"]
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| Id: | DNase-seq/ENCSR148MFM |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR148MFM [biosample_summary="Homo sapiens spinal cord tissue male embryo (105 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (105 days) output_type: peaks audit_warning: Alignment file {ENCFF524MZP|/files/ENCFF524MZP/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 40694852 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 {ENCFF524MZP|/files/ENCFF524MZP/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) 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-encode4/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR148MFM | float |
DNase-seq_ENCSR148MFM |
DNase-seq ENCSR148MFM [biosample_summary="Homo sapiens spinal cord tissue male embryo (105 days)"]
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[0.172, 8.28] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF087YEH.bed.gz | 381.77 KB | 1e436d32d2c1d652c588b970c258e199 |
| ENCFF087YEH.bed.gz.dvc | 100.0 B | 475d438afd94ad623e6f20c7fc2e4d74 |
| ENCFF087YEH.tabix.bed.gz | 352.72 KB | 3a4af3b54852d198ffd3430e8aff50af |
| ENCFF087YEH.tabix.bed.gz.dvc | 106.0 B | 3c5caf12b3bc7fc1bc98014634458ba3 |
| ENCFF087YEH.tabix.bed.gz.tbi | 192.68 KB | 48f56c7361c1260c18e154f997172ecb |
| ENCFF087YEH.tabix.bed.gz.tbi.dvc | 110.0 B | fc90c0de233ca9bb8976bae08862706e |
| genomic_resource.yaml | 2.66 KB | cb668741d911dc2ed328edc062548945 |
| genomic_resource_original.yaml | 2.56 KB | 391bd9c411c592a8fb54bc0e6b931718 |
| statistics/ |