Revisiting microbe-metabolite interactions: doing better than random
James T. MortoniD, Daniel T. McDonaldiD, Alexander A. AksenoviD, Louis-Félix Nothias-ScagliaiD, James R. FouldsiD, Robert A. QuinniD, Michelle H. BadriiD, Tami L. SwensoniD, Marc W. Van GoethemiD, Trent R. NortheniD, Yoshiki Vázquez‐BaezaiD, Mingxun WangiD, Nicholas A. BokulichiD, Aaron WattersiD, Se Jin SongiD, Richard BonneauiD, Pieter C. DorresteiniD, Rob D. KnightiD
Abstract
I.Recently, Quinn and Erb et al [1] made the case that when used correctly, correlation and proportionality can outperform MMvec when identifying microbe-metabolite interactions. We revisit this comparison and show that the proposed correlation and proportionality are outperformed by MMvec on real data due to their inability to deal with sparsity commonly observed in microbiome and metabolome datasets.
02 /Specification & Classification
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