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Research article - Peer-reviewed, 2021

Multiblock variable influence on orthogonal projections (MB-VIOP) for enhanced interpretation of total, global, local and unique variations in OnPLS models

Galindo-Prieto, Beatriz; Geladi, Paul; Trygg, Johan;

Abstract

Background For multivariate data analysis involving only two input matrices (e.g., X and Y), the previously published methods for variable influence on projection (e.g., VIPOPLS or VIPO2PLS) are widely used for variable selection purposes, including (i) variable importance assessment, (ii) dimensionality reduction of big data and (iii) interpretation enhancement of PLS, OPLS and O2PLS models. For multiblock analysis, the OnPLS models find relationships among multiple data matrices (more than two blocks) by calculating latent variables; however, a method for improving the interpretation of these latent variables (model components) by assessing the importance of the input variables was not available up to now. Results A method for variable selection in multiblock analysis, called multiblock variable influence on orthogonal projections (MB-VIOP) is explained in this paper. MB-VIOP is a model based variable selection method that uses the data matrices, the scores and the normalized loadings of an OnPLS model in order to sort the input variables of more than two data matrices according to their importance for both simplification and interpretation of the total multiblock model, and also of the unique, local and global model components separately. MB-VIOP has been tested using three datasets: a synthetic four-block dataset, a real three-block omics dataset related to plant sciences, and a real six-block dataset related to the food industry. Conclusions We provide evidence for the usefulness and reliability of MB-VIOP by means of three examples (one synthetic and two real-world cases). MB-VIOP assesses in a trustable and efficient way the importance of both isolated and ranges of variables in any type of data. MB-VIOP connects the input variables of different data matrices according to their relevance for the interpretation of each latent variable, yielding enhanced interpretability for each OnPLS model component. Besides, MB-VIOP can deal with strong overlapping of types of variation, as well as with many data blocks with very different dimensionality. The ability of MB-VIOP for generating dimensionality reduced models with high interpretability makes this method ideal for big data mining, multi-omics data integration and any study that requires exploration and interpretation of large streams of data.

Keywords

Multiblock variable selection; OnPLS; VIP; MB-VIOP; Variable importance in multiblock regression; Latent variable interpretation; Variable influence on projection; Feature selection

Published in

BMC Bioinformatics

2021, volume: 22, number: 1, article number: 176
Publisher: BMC

Authors' information

Galindo-Prieto, Beatriz
Norwegian University of Science and Technology (NTNU)
Swedish University of Agricultural Sciences, Department of Forest Biomaterials and Technology
Trygg, Johan
Umea University

UKÄ Subject classification

Bioinformatics (Computational Biology)

Publication Identifiers

DOI: https://doi.org/10.1186/s12859-021-04015-9

URI (permanent link to this page)

https://res.slu.se/id/publ/111644