Fig. 4

Multi-Omics Factor Analysis (MOFA) of subclinical mastitis. A Overview of samples and data type. Data modalities are showed in different rows (D represents the number of signatures) and samples are displayed in columns where the missing samples were marked in grey color. B The proportion of total variance explained per factor per omics. C The cumulative proportion of total variance explained by each omics. D Factor values of Factors 1 and 2 colored by the health condition, including healthy control (HC), subclinical mastitis due to Staphylococcus aureus (SM-SAP) and Staphylococcus chromogenes (SM-SCP). E, G, I Feature weights of differentially expressed genes (DEGs) (E), lncRNAs (DELs) (G), and miRNAs (DEMs) (I) associated with Factor 1. F, H, J Heatmaps showing the expression values of the top 20 DEGs (F), top 10 DELs (H), and DEMs (J) with greatest absolute weights in Factor 1. K Feature weights of differential methylation haplotype blocks (dMHBs) associated with Factor 2. L The Factor 2 values versus methylation level of dMHB chr29:32,080,542:32,080,599, which had largest absolute weight (negative). M Visualization/grouping of samples using Factors 1 and 2. The various shapes and colors represents samples according to group and pathogen