I am investigating how gene expression states of cells are linked to cell contact neighbourhoods in tissues. Cataloging and comparing the patterns of cell-cell contacts, their transcriptional dependencies and consequences is essential for understanding the molecular rules that govern both the structure of tissues and the context-dependent cell functions.I use single-cell transcriptomics of isolated cells, highly-multiplexed large-scale in-situ quantification of gene expression and systems biology tools to characterise transcriptional states of neighbouring cells. To interpret scRNA-seq & spatial gene expression and ask quantitative questions I develop probabilistic models of the underlying generative process.

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