Fig. 4: PBMC model revealing the influence of enzymatic dissociation on gene expression and epitope preservation. | Communications Biology

Fig. 4: PBMC model revealing the influence of enzymatic dissociation on gene expression and epitope preservation.

From: Dynamic thresholding and tissue dissociation optimization for CITE-seq identifies differential surface protein abundance in metastatic melanoma

Fig. 4

a Experiment design: healthy PBMC from three healthy donors were aliquoted each in three parts that were left untreated at 37 °C for 1 h or underwent SkinD or TumorD enzymatic incubation at 37 °C for 1 h. b Integrated UMAP visualization of all 9 samples (3 donors, 3 treatment conditions) with cell type information. c UpSet plot showing confirmed antibody detection across all samples. d Representative UMAP plot from Donor 3 showing protocol-specific influence on clustering of different cell types. e Differential SPEX and f GEX heatmap by sample and major cell type aggregated over three donors showing top differentially expressed features across treatment conditions.

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