Fig. 6: Quantitative profiling of the glycoproteome across tissues.

a, Experimental design. Glycoproteomes of the brain, liver and kidney tissues belonging to two male mice colonized (each in technical triplicates) with a human gut microbiome were profiled. b, PCA of the glycopeptide intensities after protein abundance normalization. c, Spearman correlation of glycopeptide intensities among different samples after protein abundance normalization. d, Pairwise Pearson correlation of the relative intensities of all glycopeptides on a given glycosite between tissues (for glycosites with at least five glycopeptides quantified) identifying glycosites with low tissue specificity (high correlation) and sites with high tissue specificity (low correlation). e, Density plot of site correlation values across tissues. The mean (0.669) is represented as a dotted line and chosen as a cutoff value for glycosite tissue specificity. f, Density plot of site correlation values for the same tissue across two mice. g, Fraction of tissue-specific sites (correlation < 0.669) within a given glycoprotein (for proteins with at least three glycosites with a correlation value). h, Correlation values across tissues for the three sites quantified on the insulin receptor protein. i, Functional domain enrichment depending on glycosite tissue specificity (InterPro database, log₂ odds ratio > 0 or log₂ odds ratio < 0, two-sided Fisher’s exact test, adjusted P value < 0.001; examples shown). j, Glycosite correlation values across tissues when only one type of glycan class is considered (two-sided, Wilcoxon rank-sum test). The horizontal lines represent the median. k, Glycosite correlation values across tissues per subcellular compartments. The horizontal lines represent the median.