Fig. 5

PAUSE analysis highlights the importance of Mitochondrial Respiratory Complex I in Alzheimer’s disease. a A conditional pathway module VAE (cpmVAE) is trained to integrate human post-mortem brain tissue samples from multiple Alzheimer’s disease (AD) studies. b TSNE plot of the latent space of a pathway module VAE (pmVAE) trained without batch effect correction by conditioning on study ID. c TSNE plot of the latent space of a cpmVAE trained with batch effect correction by conditioning on study ID. d Most important pathway latent variables in cpmVAE model according to PAUSE pathway loss attribution. Error bars indicate the standard deviation over local attributions e Most important gene expression contributors for top pathway (Oxidative Phosphorylation Node 3). Gene names bolded and in red encode proteins in Mitochondrial Respiratory Complex I. Error bars indicate the standard deviation over local attribution magnitudes