Machine Learning and Integrative Analysis of Biomedical Big Data.

Recent developments in high-throughput technologies have accelerated the accumulation of massive amounts of omics data from multiple sources: genome, epigenome, transcriptome, proteome, metabolome, etc. Traditionally, data from each source (e.g., genome) is analyzed in isolation using statistical and machine learning (ML) methods. Integrative analysis of multi-omics and clinical data is key to new biomedical discoveries and advancements in precision medicine. However, data integration poses new computational challenges as well as exacerbates the ones associated with single-omics studies. Specialized computational approaches are required to effectively and efficiently perform integrative analysis of biomedical data acquired from diverse modalities. In this review, we discuss state-of-the-art ML-based approaches for tackling five specific computational challenges associated with integrative analysis: curse of dimensionality, data heterogeneity, missing data, class imbalance and scalability issues

A new fuzzy set merging technique using inclusion-based fuzzy clustering

This paper proposes a new method of merging parameterized fuzzy sets based on clustering in the parameters space, taking into account the degree of inclusion of each fuzzy set in the cluster prototypes. The merger method is applied to fuzzy rule base simplification by automatically replacing the fuzzy sets corresponding to a given cluster with that pertaining to cluster prototype. The feasibility and the performance of the proposed method are studied using an application in mobile robot navigation. The results indicate that the proposed merging and rule base simplification approach leads to good navigation performance in the application considered and to fuzzy models that are interpretable by experts. In this paper, we concentrate mainly on fuzzy systems with Gaussian membership functions, but the general approach can also be applied to other parameterized fuzzy sets