DNase-seq_ENCSR563XRP
DNase-seq ENCSR563XRP [biosample_summary="Homo sapiens large intestine tissue female embryo (107 days)"]
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| Id: | DNase-seq/ENCSR563XRP |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR563XRP [biosample_summary="Homo sapiens large intestine tissue female embryo (107 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female embryo (107 days) output_type: peaks audit_warning: Alignment file {ENCFF481MBB|/files/ENCFF481MBB/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 20920971 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 {ENCFF481MBB|/files/ENCFF481MBB/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. 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_ENCSR563XRP | float |
DNase-seq_ENCSR563XRP |
DNase-seq ENCSR563XRP [biosample_summary="Homo sapiens large intestine tissue female embryo (107 days)"]
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[0.336, 20.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF632ETC.bed.gz | 435.94 KB | 2590f593a5704a88ac0dd93b88d70c34 |
| ENCFF632ETC.bed.gz.dvc | 100.0 B | 6bba58699127674f06149818e70272b8 |
| ENCFF632ETC.tabix.bed.gz | 382.91 KB | 8e986c163d80bbe3577661f6024de5c1 |
| ENCFF632ETC.tabix.bed.gz.dvc | 106.0 B | 659a932408f478ed821f0c44433f361a |
| ENCFF632ETC.tabix.bed.gz.tbi | 256.51 KB | 845a2fc64f23a1cd33aadc4477d2efe7 |
| ENCFF632ETC.tabix.bed.gz.tbi.dvc | 110.0 B | 26b682e4c935459005738cd31b2c6cc5 |
| genomic_resource.yaml | 2.68 KB | 0d768495e827da98cbdb4c6c9d965abd |
| genomic_resource_original.yaml | 2.57 KB | bac4e52099b3cab5e7ae395e48b449c9 |
| statistics/ |