Vitalii Kleshchevnikov

PhD fellow

 
 

I study how regulatory states and tissue context define cell identity, using large-scale genomics data & bayesian modelling.

I study how regulatory states and tissue context define cell identity, with the aim to more comprehensively understand the development of the human cerebral cortex, and to investigate the re-use of regulatory programmes and transcription factor logic across human tissues. To this end, we are using large-scale genomics data & bayesian modelling – the work in done in collaboration with multiple groups across the institute.

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Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
 
Wellcome Sanger Institute

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Programme

Cellular Genetics

We are focused on using single-cell approaches: cell atlas technologies and understanding human genetics at the cellular level. The team combines ...
 

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Overview of the spatial mapping approach and the workflow which are enabled by cell2location. From left to right: Single-cell RNA-seq and spatial transcriptomics profiles are generated from the same tissue (1). Cell2location takes reference cell type signatures derived from scRNA-seq and spatial transcriptomics data as input (2, 3). The model then decomposes spatially resolved multi-cell RNA counts matrices into the reference signatures, thereby establishing a spatial mapping of cell types (4).

Overview of the spatial mapping approach and the workflow which are enabled by cell2location. From left to right: Single-cell RNA-seq and spatial transcriptomics profiles are generated from the same tissue (1). Cell2location takes reference cell type signatures derived from scRNA-seq and spatial transcriptomics data as input (2, 3). The model then decomposes spatially resolved multi-cell RNA counts matrices into the reference signatures, thereby establishing a spatial mapping of cell types (4).

Astrocyte layers in the mammalian cerebral cortex revealed by a single-cell in situ transcriptomic map. This work suggests that the identity of cortical astrocytes is a combination of 2 gene expression programmes: subtype and layer-specific.

Astrocyte layers in the mammalian cerebral cortex revealed by a single-cell in situ transcriptomic map. This work suggests that the identity of cortical astrocytes is a combination of 2 gene expression programmes: subtype and layer-specific.

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