DNase-seq_ENCSR544KDB
DNase-seq ENCSR544KDB [biosample_summary="Homo sapiens thymus tissue male embryo (113 days)"]
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| Id: | DNase-seq/ENCSR544KDB |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR544KDB [biosample_summary="Homo sapiens thymus tissue male embryo (113 days)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male embryo (113 days) output_type: peaks audit_warning: Replicate 1_2 has no significant footprints detected. audit_warning: Alignment file {ENCFF166XSR|/files/ENCFF166XSR/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 38317259 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 {ENCFF166XSR|/files/ENCFF166XSR/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.26. 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_ENCSR544KDB | float |
DNase-seq_ENCSR544KDB |
DNase-seq ENCSR544KDB [biosample_summary="Homo sapiens thymus tissue male embryo (113 days)"]
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[0.236, 14.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF361OCI.bed.gz | 445.06 KB | 327a99837693429a903a58915b39ce53 |
| ENCFF361OCI.bed.gz.dvc | 100.0 B | dfe5b25677299d52b16ca36f7cd8cece |
| ENCFF361OCI.tabix.bed.gz | 406.75 KB | 77a70401896329cb2a3bc2ab7538e4e3 |
| ENCFF361OCI.tabix.bed.gz.dvc | 106.0 B | cf5e5290206792ab426e07177281ffb1 |
| ENCFF361OCI.tabix.bed.gz.tbi | 231.64 KB | 8cbc7016d573c37c2382f38201927cd8 |
| ENCFF361OCI.tabix.bed.gz.tbi.dvc | 110.0 B | 04c23e9e7206ec129353e764f8dd94b1 |
| genomic_resource.yaml | 2.72 KB | 8894637819f986ded055578f323e1084 |
| genomic_resource_original.yaml | 2.63 KB | a9ab7d10a79b143c9518b79fa12260b0 |
| statistics/ |