Biclustering via sparse clustering.

TitleBiclustering via sparse clustering.
Publication TypeJournal Article
Year of Publication2020
AuthorsHelgeson, Erika S., Qian Liu, Guanhua Chen, Michael R. Kosorok, and Eric Bair
JournalBiometrics
Volume76
Issue1
Pagination348-358
Date Published2020 03
ISSN1541-0420
KeywordsAlgorithms, Analysis of Variance, Biometry, Cluster Analysis, Computer Simulation, Data Interpretation, Statistical, Disease, Humans, Models, Statistical, Normal Distribution, Software, Temporomandibular Joint Disorders
Abstract

In identifying subgroups of a heterogeneous disease or condition, it is often desirable to identify both the observations and the features which differ between subgroups. For instance, it may be that there is a subgroup of individuals with a certain disease who differ from the rest of the population based on the expression profile for only a subset of genes. Identifying the subgroup of patients and subset of genes could lead to better-targeted therapy. We can represent the subgroup of individuals and genes as a bicluster, a submatrix, , of a larger data matrix, , such that the features and observations in differ from those not contained in . We present a novel two-step method, SC-Biclust, for identifying . In the first step, the observations in the bicluster are identified to maximize the sum of the weighted between-cluster feature differences. In the second step, features in the bicluster are identified based on their contribution to the clustering of the observations. This versatile method can be used to identify biclusters that differ on the basis of feature means, feature variances, or more general differences. The bicluster identification accuracy of SC-Biclust is illustrated through several simulated studies. Application of SC-Biclust to pain research illustrates its ability to identify biologically meaningful subgroups.

DOI10.1111/biom.13136
Alternate JournalBiometrics
Original PublicationBiclustering via sparse clustering.
PubMed ID31424089
PubMed Central IDPMC7028479
Grant ListP01 CA142538 / CA / NCI NIH HHS / United States
P30 ES010126 / ES / NIEHS NIH HHS / United States
R03 DE023592 / DE / NIDCR NIH HHS / United States
UL1 RR025747 / RR / NCRR NIH HHS / United States