SUGAR-Seq enables simultaneous detection of glycans, epitopes and the transcriptome in single cells [LN scRNA-seq]

Multi-modal single cell RNA sequencing enables the precise mapping of transcriptional and phenotypic features of cellular differentiation states, but does not allow for simultaneous integration of critical post-translational modification data. Here, we describe SUrface-protein Glycan And RNA-seq (SUGAR-seq); a method that enables detection and analysis of N-linked glycosylation, extracellular epitopes and the transcriptome at the single cell level. Integrated SUGAR-seq and glycoproteome analysis identified tumor infiltrating T cells with unique surface glycan properties that report their epigenetic and functional state. Single cell sequencing analysis (Including detection of L-Pha lectin) of pooled TILs from B16-Ova and MC38-Ova tumor infiltrating lymphocytes (TILs). The experiment comprises of a single 10x Genomics capture reaction with hashtag 1 marking B16_Ova TILs and hashtag 2 marking MC38-Ova TILs