paulvilloutreix.bsky.social
Mathematical and systems biologist | Junior Professor INSERM & Group Leader Turing Center for Living Systems | https://bioml.lis-lab.fr
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Should I withdraw myself as a reviewer?
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I'd love to be added, thanks!
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Collaboration with a complementary expert is potentially a good way around this obstacle.
It enables to share the responsibility of the interdisciplinary project 😅
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Looking back, 2024 has been our most productive year. Here is a short thread on the various lines of work we've been braiding.
Our aim is to understand the relationship between single cell molecular states and tissue dynamics.
We develop methods to bridge transcriptomics and bioimage analysis
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Final big thank you to Thierry Artières for his wisdom in machine learning ...
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And thank you to our great collaborators Robert Kelly, Raphaël Clément, Vincent Bertrand, Sarah Rubin, Ankit Agrawal, Eli Zelzer, @yghavi.bsky.social, @anaisbaudot.bsky.social
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I would like to warmly thank all the members of the team that have made this possible and fun! Thanks Malek Senoussi, Clara Guijarro, Khulganaa Buyannemekh, Solène Song, Baptiste Alberti, Matéo Melki, Daniel Lepe-Soltero, Ines Assali and Harshit Pateria
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5) Finally, we've been interested in building tools to explore the rules of gene expression spatiotemporal dynamics in development
-> is cell identity dependent on its lineage or its spatial context
www.biorxiv.org/content/10.1...
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4) Going beyond single-cell transcriptomics, we're part of an ongoing project on multi-omics data integration
The first work of this effort has been posted here
www.biorxiv.org/content/10.1...
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3) To understand the regulation of gene activity in tissues, we've developed a method for the spatial reconstruction of enhancer activity from single cell transcriptomics data
www.biorxiv.org/content/10.1...
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-> and an interesting application to C. elegans left/right neuron development
www.sciencedirect.com/science/arti...
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2) We've been working on single cell transcriptomics and in particular, it's relationship to cell lineage
-> it led to interesting Machine Learning problems - how to perform automated annotation of transcriptomics profiles
journals.plos.org/ploscompbiol...
arxiv.org/abs/2409.05937
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1) We've been working on single cell morphometrics (all features that relate to the shape of cells in tissues)
-> for heart development
www.nature.com/articles/s41...
-> for bone development
elifesciences.org/articles/95289
www.nature.com/articles/s41...
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Looking back, 2024 has been our most productive year. Here is a short thread on the various lines of work we've been braiding.
Our aim is to understand the relationship between single cell molecular states and tissue dynamics.
We develop methods to bridge transcriptomics and bioimage analysis
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We have three posters, come see us at numbers #5 #11 #177!
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Poster #11 is ongoing work by Ines Assali on extending joint spatial PCA to spatial transcriptomics data
github.com/VILLOUTREIXL...
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Poster #177 is a collaboration with Robert Kelly led by Clara Guijarro and Solène Song - we propose a new method, joint spatial PCA, for interpretable spatially aware clustering of morphological features - it has been recently published
www.nature.com/articles/s41...
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Poster #5 is a collaboration with @yghavi.bsky.social led by Baptiste Alberti where we propose a method for reconstructing of the spatial single-cell enhancer activity in a multicellular organism
www.biorxiv.org/content/10.1...
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Program and details of the conference are here
spatialbiologysociety.eu
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Hi Maik, can you add me?
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Thank you!