Meta-analytic framework for sparse K-means to identify disease subtypes in multiple transcriptomic studies.

ABSTRACT: Disease phenotyping by omics data has become a popular approach that potentially can lead to better personalized treatment. Identifying disease subtypes via unsupervised machine learning is the first step towards this goal. In this paper, we extend a sparse K-means method towards a meta-analytic framework to identify novel disease subtypes when expression profiles of multiple cohorts are available. The lasso regularization and meta-analysis identify a unique set of gene features for subtype characterization. An additional pattern matching reward function guarantees consistent subtype signatures across studies. The method was evaluated by simulations and leukemia and breast cancer data sets. The identified disease subtypes from meta-analysis were characterized with improved accuracy

SUBMITTER: Huo Z 

PROVIDER: S-EPMC4908837 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature