Gamma-based clustering via ordered means with application to gene-expression analysis

DOI10.1214/10-AOS805zbMATH Open1233.62002arXiv0907.3837WikidataQ41561796 ScholiaQ41561796MaRDI QIDQ620546FDOQ620546

Authors: Michael A. Newton, Lisa M. Chung 

Publication date: 19 January 2011

Published in: The Annals of Statistics (Search for Journal in Brave)

Abstract: Discrete mixture models provide a well-known basis for effective clustering algorithms, although technical challenges have limited their scope. In the context of gene-expression data analysis, a model is presented that mixes over a finite catalog of structures, each one representing equality and inequality constraints among latent expected values. Computations depend on the probability that independent gamma-distributed variables attain each of their possible orderings. Each ordering event is equivalent to an event in independent negative-binomial random variables, and this finding guides a dynamic-programming calculation. The structuring of mixture-model components according to constraints among latent means leads to strict concavity of the mixture log likelihood. In addition to its beneficial numerical properties, the clustering method shows promising results in an empirical study.

Full work available at URL: https://arxiv.org/abs/0907.3837

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zbMATH Keywords

mixture modelnext generation sequencingPoisson embeddinggamma rankingrank probability

Mathematics Subject Classification ID

Classification and discrimination; cluster analysis (statistical aspects) (62H30) Applications of statistics to biology and medical sciences; meta analysis (62P10) Applications of mathematical programming (90C90) Genetics and epigenetics (92D10) Inequalities; stochastic orderings (60E15) Dynamic programming (90C39)

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Cited In (4)

• Robust clustering using exponential power mixtures
• Clustering for multivariate continuous and discrete longitudinal data
• High-dimensional count data clustering based on an exponential approximation to the multinomial beta-Liouville distribution
• Explaining mixture models through semantic pattern mining and banded matrix visualization

Uses Software

• gaga
• BayesDA

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