A novel Bayesian multiple testing approach to deregulated miRNA discovery harnessing positional clustering

DOI10.1111/BIOM.12967MaRDI QIDQ5214463zbMATH OpenOpenAlexWikidataFDO

Authors Noirrit Kiran Chandra, Richa Singh, Sourabh Bhattacharya

Publication date 7 February 2020

Published in Biometrics (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1711.03758

zbMATH Keywords

Bayesian multiple testingFDRGaussian processGBSCCMiRNAoral cancer

Mathematics Subject Classification ID

Gaussian processes (60G15) Classification and discrimination; cluster analysis (statistical aspects) (62H30) Paired and multiple comparisons; multiple testing (62J15) Applications of statistics to biology and medical sciences; meta analysis (62P10)

Abstract: MicroRNAs (miRNAs) are small non-coding RNAs that function as regulators of gene expression. In recent years, there has been a tremendous and growing interest among researchers to investigate the role of miRNAs in normal cellular as well as in disease processes. Thus to investigate the role of miRNAs in oral cancer, we analyse the expression levels of miRNAs to identify miRNAs with statistically significant differential expression in cancer tissues. In this article, we propose a novel Bayesian hierarchical model of miRNA expression data. Compelling evidences have demonstrated that the transcription process of miRNAs in human genome is a latent process instrumental for the observed expression levels. We take into account positional clustering of the miRNAs in the analysis and model the latent transcription phenomenon nonparametrically by an appropriate Gaussian process. For the testing purpose we employ a novel Bayesian multiple testing method where we mainly focus on utilizing the dependence structure between the hypotheses for better results, while also ensuring optimality in many respects. Indeed, our non-marginal method yielded results in accordance with the underlying scientific knowledge which are found to be missed by the very popular Benjamini-Hochberg method.

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Cited in

(3)

• Non-marginal decisions: a novel Bayesian multiple testing procedure
• Asymptotic theory of dependent Bayesian multiple testing procedures under possible model misspecification
• Dynamic linear model for the identification of miRNAs in next-generation sequencing data

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