Literature DB >> 32431780

Hierarchical Normalized Completely Random Measures for Robust Graphical Modeling.

Andrea Cremaschi1,2, Raffaele Argiento3,4, Katherine Shoemaker5,6, Christine Peterson6, Marina Vannucci5.   

Abstract

Gaussian graphical models are useful tools for exploring network structures in multivariate normal data. In this paper we are interested in situations where data show departures from Gaussianity, therefore requiring alternative modeling distributions. The multivariate t-distribution, obtained by dividing each component of the data vector by a gamma random variable, is a straightforward generalization to accommodate deviations from normality such as heavy tails. Since different groups of variables may be contaminated to a different extent, Finegold and Drton (2014) introduced the Dirichlet t-distribution, where the divisors are clustered using a Dirichlet process. In this work, we consider a more general class of nonparametric distributions as the prior on the divisor terms, namely the class of normalized completely random measures (NormCRMs). To improve the effectiveness of the clustering, we propose modeling the dependence among the divisors through a nonparametric hierarchical structure, which allows for the sharing of parameters across the samples in the data set. This desirable feature enables us to cluster together different components of multivariate data in a parsimonious way. We demonstrate through simulations that this approach provides accurate graphical model inference, and apply it to a case study examining the dependence structure in radiomics data derived from The Cancer Imaging Atlas.

Entities:  

Keywords:  Bayesian nonparametrics; graphical models; hierarchical models; normalized completely random measures; radiomics data; t-distribution

Year:  2019        PMID: 32431780      PMCID: PMC7237071          DOI: 10.1214/19-ba1153

Source DB:  PubMed          Journal:  Bayesian Anal        ISSN: 1931-6690            Impact factor:   3.728


  23 in total

1.  Are Gibbs-Type Priors the Most Natural Generalization of the Dirichlet Process?

Authors:  Pierpaolo De Blasi; Stefano Favaro; Antonio Lijoi; Ramsés H Mena; Igor Prünster; Matteo Ruggiero
Journal:  IEEE Trans Pattern Anal Mach Intell       Date:  2015-02       Impact factor: 6.226

2.  Network inference using informative priors.

Authors:  Sach Mukherjee; Terence P Speed
Journal:  Proc Natl Acad Sci U S A       Date:  2008-09-17       Impact factor: 11.205

Review 3.  Radiomics: extracting more information from medical images using advanced feature analysis.

Authors:  Philippe Lambin; Emmanuel Rios-Velazquez; Ralph Leijenaar; Sara Carvalho; Ruud G P M van Stiphout; Patrick Granton; Catharina M L Zegers; Robert Gillies; Ronald Boellard; André Dekker; Hugo J W L Aerts
Journal:  Eur J Cancer       Date:  2012-01-16       Impact factor: 9.162

4.  Inferring network structure in non-normal and mixed discrete-continuous genomic data.

Authors:  Anindya Bhadra; Arvind Rao; Veerabhadran Baladandayuthapani
Journal:  Biometrics       Date:  2017-04-24       Impact factor: 2.571

5.  An image-driven parameter estimation problem for a reaction-diffusion glioma growth model with mass effects.

Authors:  Cosmina Hogea; Christos Davatzikos; George Biros
Journal:  J Math Biol       Date:  2007-11-17       Impact factor: 2.259

6.  Modeling Protein Expression and Protein Signaling Pathways.

Authors:  Donatello Telesca; Peter Müller; Steven M Kornblau; Marc A Suchard; Yuan Ji
Journal:  J Am Stat Assoc       Date:  2011       Impact factor: 5.033

7.  Machine Learning methods for Quantitative Radiomic Biomarkers.

Authors:  Chintan Parmar; Patrick Grossmann; Johan Bussink; Philippe Lambin; Hugo J W L Aerts
Journal:  Sci Rep       Date:  2015-08-17       Impact factor: 4.379

8.  An Integrative Bayesian Modeling Approach to Imaging Genetics.

Authors:  Francesco C Stingo; Michele Guindani; Marina Vannucci; Vince D Calhoun
Journal:  J Am Stat Assoc       Date:  2013-01-01       Impact factor: 5.033

9.  Decoding tumour phenotype by noninvasive imaging using a quantitative radiomics approach.

Authors:  Hugo J W L Aerts; Emmanuel Rios Velazquez; Ralph T H Leijenaar; Chintan Parmar; Patrick Grossmann; Sara Carvalho; Sara Cavalho; Johan Bussink; René Monshouwer; Benjamin Haibe-Kains; Derek Rietveld; Frank Hoebers; Michelle M Rietbergen; C René Leemans; Andre Dekker; John Quackenbush; Robert J Gillies; Philippe Lambin
Journal:  Nat Commun       Date:  2014-06-03       Impact factor: 14.919

10.  Radiomics: Images Are More than Pictures, They Are Data.

Authors:  Robert J Gillies; Paul E Kinahan; Hedvig Hricak
Journal:  Radiology       Date:  2015-11-18       Impact factor: 11.105

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  1 in total

Review 1.  Bayesian graphical models for modern biological applications.

Authors:  Yang Ni; Veerabhadran Baladandayuthapani; Marina Vannucci; Francesco C Stingo
Journal:  Stat Methods Appt       Date:  2021-05-27
  1 in total

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