Scan statistics on Poisson random fields with applications in genomics
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Abstract: The detection of local genomic signals using high-throughput DNA sequencing data can be cast as a problem of scanning a Poisson random field for local changes in the rate of the process. We propose a likelihood-based framework for for such scans, and derive formulas for false positive rate control and power calculations. The framework can also accommodate mixtures of Poisson processes to deal with over-dispersion. As a specific, detailed example, we consider the detection of insertions and deletions by paired-end DNA-sequencing. We propose several statistics for this problem, compare their power under current experimental designs, and illustrate their application on an Illumina Platinum Genomes data set.
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Cites work
- scientific article; zbMATH DE number 1057576 (Why is no real title available?)
- scientific article; zbMATH DE number 1405929 (Why is no real title available?)
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- Scan statistics on Poisson random fields with applications in genomics
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Cited in
(8)- Scan Statistics With Weighted Observations
- Segmentation and estimation of change-point models: false positive control and confidence regions
- Translocation Detection from Hi-C Data via Scan Statistics
- Poisson approximations for conditional r-scan lengths of multiple renewal processes and application to marker arrays in biomolecular sequences
- \(r\)-scan extremal statistics of inhomogeneous Poisson processes
- Scan statistics on Poisson random fields with applications in genomics
- Multidimensional multiscale scanning in exponential families: limit theory and statistical consequences
- Detecting mutations in mixed sample sequencing data using empirical Bayes
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