Fig. 2

Identification of commonly abundant proteins among the diverse surface-endocytome in GBM. A Quantification of biotinylated surfaceome and endocytome in primary GBM cultures and U87MG cell line by FACS. B Fraction of endocytosed proteins expressed as the percentage of total surfaceome shown in (A). Data are presented as the mean ± S.D. from three independent experiments, each performed in triplicates. C, D, Analysis of LC–MS/MS profiling data confirms significant enrichment of SURFME protein identities by the TS-MAP approach in surface (C) and endocytome (D) samples when compared with control. E Heatmap of normalized TS-MAP data shows the heterogeneous abundance in surfaceome and endocytome identities between GBM cultures. F Kendall’s Tau correlation of SURFME identity ranks displays a weak association between transcriptomics and TS-MAP proteomics. G Ranking of SURFME proteins according to abundance (most abundant = first position) shows a strong association between surfaceome and endocytome in the respective GBM cell type. Top-right quadrants: proteins with high surface abundance and efficient endocytic capacity, highlighting some identities common across GBM cultures (see also, Additional file 4: Data File S3)