Fig. 2

Comparison of cell types and protein acceleration in unimodal and multimodal embeddings. First row: Visualization of perturbed SNARE-seq measurements. Accessible chromatin (ChrAcc) and gene expression was measured simultaneously in single cell from human cell lines BJ, H1, K562, and GM12878. Gene expression measurements were randomly shuffled between cell lines BJ and H1 (MixRNA). a Conventional t-SNE embedding of cells based on shuffled gene expression alone. b j-SNE visualization of shuffled gene expression and (unchanged) chromatin accessibility. c j-UMAP visualization of shuffled gene expression and (unchanged) chromatin accessibility. Second row: t-SNE/j-SNE visualizations of CBM cells. Cluster labels were identified by Specter. Embeddings were computed from RNA measurements alone (d), protein expression (ADT) alone (e), or jointly from both (f). Third row: Protein acceleration in ECCITE-seq (ctrl) data set projected into transcriptom-based t-SNE (g), and joint mRNA and surface protein based embeddings j-SNE (h), and j-UMAP (i)