DNase-seq_ENCSR826URD
DNase-seq ENCSR826URD [biosample_summary="Homo sapiens neural crest cell"]
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| Id: | DNase-seq/ENCSR826URD |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR826URD [biosample_summary="Homo sapiens neural crest cell"] |
| Description: |
status: released biological_replicates: Rep 2 summary: female embryo (5 days) output_type: peaks audit_warning: Alignment file {ENCFF103QUR|/files/ENCFF103QUR/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 23902110 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 {ENCFF916YHM|/files/ENCFF916YHM/} processed by DNase-seq ENCODE4 v3.0.0 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_ENCSR826URD | float |
DNase-seq_ENCSR826URD |
DNase-seq ENCSR826URD [biosample_summary="Homo sapiens neural crest cell"]
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[0.0897, 15.5] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF305UGC.bed.gz | 667.84 KB | ea3a3712ea9a23537aca8d8057010b6f |
| ENCFF305UGC.bed.gz.dvc | 100.0 B | a8da2a09bf848b9bb0cda2ee9e6bbb09 |
| ENCFF305UGC.tabix.bed.gz | 618.91 KB | 9c377dd2d3a5dd508de8a03502d4e570 |
| ENCFF305UGC.tabix.bed.gz.dvc | 106.0 B | 7372311107d7d349de9eb41ced39aa4f |
| ENCFF305UGC.tabix.bed.gz.tbi | 291.02 KB | ce40103b040247ae743294670a6db7e6 |
| ENCFF305UGC.tabix.bed.gz.tbi.dvc | 110.0 B | e0d327e609df2498e37dc469e89ceae2 |
| genomic_resource.yaml | 2.58 KB | 33a74ee0065b10204984d53b998e6d09 |
| genomic_resource_original.yaml | 2.5 KB | 3021e240b5fad645ae506b630bb2d733 |
| statistics/ |