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Marco Antonio MENDOZA, Laboratory of Systems and Synthetic Biology (LiSSB) - National Sequencing Center Genoscope
| When |
Mar 28, 2025
from 11:00 to 12:00 |
|---|---|
| Contact Name | Equipe Gandrillon |
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One of the current challenges of systems biology is the study of complex living systems by evaluation of the various gene programs that define organ/tissue architecture. Indeed, accessing the gene programs in tissues has, until recently, been performed by global (bulk) gene expression analyses but recent advances in single-cell transcriptomics has made it possible to move from an ‘‘average view’’ toward single-cell gene-program readouts (Birnbaum, 2018). However, cell dissociation by enzymatic methods, necessary for single-cell assays, tends to modify transcriptional patterns (van den Brink et al., 2017), it destroys at least a fraction of the cells that compose the tissue and does not conserve tissue architecture.
Recent developments in spatially resolved transcriptomics (SrT) (Liu et al., 2020; Rodriques et al., 2019; Stahl et al., 2016) have made it possible to circumvent the aforementioned technical issues related to single-cell assays, notably the capacity to conserve the spatial architecture, essential for heterogeneous tissue analysis.
During this seminar, I will provide an overview of the strategies available for studying tissue complexity, notably those based on the use of physical supports (DNA arrays [Rodriques et al., 2019; Stahl et al.,2016] or microfluidic channels [Liu et al., 2020]), then I will present our developments for properly Inferring biologically relevant molecular tissue substructures, and finally I will discuss our current developments of spatial omics strategies for capturing transcription signatures from multiple consecutive sections, as a way to generate 3-dimesional tissue maps, but also our recent progress in spatial epigenomics profiling, thanks to our in-house DNA arrays manufacturing platform.
Contact : F. Picard