Integrative model-based clustering of microarray methylation and expression data
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Publication:714386
DOI10.1214/11-AOAS533zbMATH Open1254.62113arXiv1210.0702OpenAlexW2035669074MaRDI QIDQ714386FDOQ714386
Authors: Matthias Kormaksson, James G. Booth, Maria E. Figueroa, Ari Melnick 
Publication date: 21 October 2012
Published in: The Annals of Applied Statistics (Search for Journal in Brave)
Abstract: In many fields, researchers are interested in large and complex biological processes. Two important examples are gene expression and DNA methylation in genetics. One key problem is to identify aberrant patterns of these processes and discover biologically distinct groups. In this article we develop a model-based method for clustering such data. The basis of our method involves the construction of a likelihood for any given partition of the subjects. We introduce cluster specific latent indicators that, along with some standard assumptions, impose a specific mixture distribution on each cluster. Estimation is carried out using the EM algorithm. The methods extend naturally to multiple data types of a similar nature, which leads to an integrated analysis over multiple data platforms, resulting in higher discriminating power.
Full work available at URL: https://arxiv.org/abs/1210.0702
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Classification and discrimination; cluster analysis (statistical aspects) (62H30) Applications of statistics to biology and medical sciences; meta analysis (62P10) Biochemistry, molecular biology (92C40)
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Cited In (13)
- Identifying heterogeneous transgenerational DNA methylation sites via clustering in beta regression
- A robust unified approach to analyzing methylation and gene expression data
- iBATCGH: integrative Bayesian analysis of transcriptomic and CGH data
- Integrative model-based clustering of microarray methylation and expression data
- Joint principal trend analysis for longitudinal high-dimensional data
- Agglomerative joint clustering of metabolic data with spike at zero: a Bayesian perspective
- On integrating multi-experiment microarray data
- Integrating functional knowledge during sample clustering for microarray data using unsupervised decision trees
- Nonlinear joint latent variable models and integrative tumor subtype discovery
- Sparse integrative clustering of multiple omics data sets
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- Biclustering with heterogeneous variance
- Bayesian unsupervised learning with multiple data types
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