DNase-seq_ENCSR118WIQ
DNase-seq ENCSR118WIQ [biosample_summary="Homo sapiens brain tissue embryo (112 days)"]
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| Id: | DNase-seq/ENCSR118WIQ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR118WIQ [biosample_summary="Homo sapiens brain tissue embryo (112 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: embryo (112 days) output_type: peaks audit_warning: Alignment file {ENCFF802SKX|/files/ENCFF802SKX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 34332656 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 {ENCFF802SKX|/files/ENCFF802SKX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR118WIQ | float |
DNase-seq_ENCSR118WIQ |
DNase-seq ENCSR118WIQ [biosample_summary="Homo sapiens brain tissue embryo (112 days)"]
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[0.205, 10] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF546VAB.bed.gz | 423.86 KB | b5ddce5c8fef23104a255c50ba1de3de |
| ENCFF546VAB.bed.gz.dvc | 100.0 B | 3e73c01b1acd9d4e8563cc4f86fba414 |
| ENCFF546VAB.tabix.bed.gz | 384.85 KB | 2d7b02a6dc06b7e227b3d99243250e11 |
| ENCFF546VAB.tabix.bed.gz.dvc | 106.0 B | ab44892f23243d31ee12035b2381ce7b |
| ENCFF546VAB.tabix.bed.gz.tbi | 230.25 KB | d1fc90f37bcec57da5a0b55806b0775a |
| ENCFF546VAB.tabix.bed.gz.tbi.dvc | 110.0 B | b3b8b3edec3119dbf3f3d719176d1e75 |
| genomic_resource.yaml | 2.61 KB | 734b9c390f79638e410cbce16f72d3a2 |
| genomic_resource_original.yaml | 2.52 KB | 385b200adb61341cfe1899cc711ada50 |
| statistics/ |