Identification of relevant subtypes via preweighted sparse clustering

DOI10.1016/J.CSDA.2017.06.003MaRDI QIDQ1658409zbMATH OpenOpenAlexDBLPWikidataFDO

Authors Sheila Gaynor, Eric Bair

Publication date 14 August 2018

Published in Computational Statistics and Data Analysis (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1304.3760, http://europepmc.org/articles/pmc5959300

zbMATH Keywords

cancercluster analysishigh-dimensional datak-means clusteringtemporomandibular disorders

Mathematics Subject Classification ID

Computational methods for problems pertaining to statistics (62-08) Classification and discrimination; cluster analysis (statistical aspects) (62H30) Applications of statistics to biology and medical sciences; meta analysis (62P10)

Abstract: Cluster analysis methods are used to identify homogeneous subgroups in a data set. In biomedical applications, one frequently applies cluster analysis in order to identify biologically interesting subgroups. In particular, one may wish to identify subgroups that are associated with a particular outcome of interest. Conventional clustering methods generally do not identify such subgroups, particularly when there are a large number of high-variance features in the data set. Conventional methods may identify clusters associated with these high-variance features when one wishes to obtain secondary clusters that are more interesting biologically or more strongly associated with a particular outcome of interest. A modification of sparse clustering can be used to identify such secondary clusters or clusters associated with an outcome of interest. This method correctly identifies such clusters of interest in several simulation scenarios. The method is also applied to a large prospective cohort study of temporomandibular disorders and a leukemia microarray data set.

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Cites work

• scientific article; zbMATH DE number 845714 (Why is no real title available?)
• A framework for feature selection in clustering
• Clustering Objects on Subsets of Attributes (with Discussion)
• Complementary hierarchical clustering
• Estimating the number of clusters in a data set via the gap statistic
• Finding the Number of Clusters in a Dataset
• Penalized model-based clustering with application to variable selection
• Prediction by Supervised Principal Components
• Variable Selection for Model-Based Clustering

Cited in

(7)

• Subpopulation discovery in epidemiological data with subspace clustering
• Biclustering via sparse clustering
• Multiobjective semisupervised learning with a right‐censored endpoint adapted to the multiple imputation framework
• Nonparametric cluster significance testing with reference to a unimodal null distribution
• Robust clustering with subpopulation-specific deviations
• Biclustering with heterogeneous variance
• A method for visual identification of small sample subgroups and potential biomarkers

Describes a project that uses

Uses Software

• glmnet
• sparcl
• compHclust
• COSA

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