DNase-seq_ENCSR615WIN
DNase-seq ENCSR615WIN [biosample_summary="Homo sapiens spinal cord tissue female embryo (89 days)"]
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| Id: | DNase-seq/ENCSR615WIN |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR615WIN [biosample_summary="Homo sapiens spinal cord tissue female embryo (89 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (89 days) output_type: peaks audit_warning: Alignment file {ENCFF762XYC|/files/ENCFF762XYC/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 38335077 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 {ENCFF762XYC|/files/ENCFF762XYC/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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_ENCSR615WIN | float |
DNase-seq_ENCSR615WIN |
DNase-seq ENCSR615WIN [biosample_summary="Homo sapiens spinal cord tissue female embryo (89 days)"]
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[0.183, 15.9] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF473UNU.bed.gz | 644.08 KB | 231a44daa61a5cd7277d13f84051438e |
| ENCFF473UNU.bed.gz.dvc | 100.0 B | 9e272d4477959e8dd368ef61cb71bc7d |
| ENCFF473UNU.tabix.bed.gz | 578.92 KB | b891f7795b168e1fb5f2c0fa36e7008e |
| ENCFF473UNU.tabix.bed.gz.dvc | 106.0 B | 9d27f77188d76fff115d0c474226428e |
| ENCFF473UNU.tabix.bed.gz.tbi | 327.59 KB | b0595ef20fd84ab9dab30d72bda1084a |
| ENCFF473UNU.tabix.bed.gz.tbi.dvc | 110.0 B | 408b31045843f1247d63f28c7c751dce |
| genomic_resource.yaml | 2.66 KB | f105ef300a764dfed941c1dfd6fe7ea6 |
| genomic_resource_original.yaml | 2.56 KB | e7c9e03ec74eb387386be6ff983a40fd |
| statistics/ |