Biography
Florian Massip is a researcher whose work lies at the intersection of bioinformatics, genomics, and high-resolution biological data analysis. His research focuses in particular on the development of computational tools for the spatial analysis of RNA transcripts, with applications in cell segmentation and the characterization of cell types *in situ*. His contributions include innovative methods such as ComSeg, designed to improve the accuracy of RNA mapping in complex tissues, independent of biases related to cell shape. At the same time, he explores the molecular mechanisms underlying diseases such as lung cancer, integrating transcriptomic and genetic data to elucidate the links between environmental exposure (smoking) and persistent risk. His recent work also addresses bacterial evolution, proposing statistical models to distinguish horizontal gene transfers from vertical processes, as well as the study of replication origins in vertebrates and their evolutionary dynamics.
Publication(s)
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2024
A point cloud segmentation framework for image-based spatial transcriptomics DOI : 10.1038/s42003-024-06480-3
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2024
Smoking-associated gene expression alterations in nasal epithelium reveal immune impairment linked to lung cancer risk DOI : 10.1186/s13073-024-01317-4
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2024
Modeling the mosaic structure of bacterial genomes to infer their evolutionary history DOI : 10.1073/pnas.2313367121
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2023
Dimeric G-quadruplex motifs-induced NFRs determine strong replication origins in vertebrates DOI : 10.1038/s41467-023-40441-4
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2023
IL-33 Expression Is Lower in Current Smokers at both Transcriptomic and Protein Levels DOI : 10.1164/RCCM.202210-1881OC
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2023
An interactive murine single-cell atlas of the lung responses to radiation injury DOI : 10.1038/s41467-023-38134-z
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2022
Determinants of expression of SARS-CoV-2 entry-related genes in upper and lower airways DOI : 10.1111/all.15152
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2021
Locus specific epigenetic modalities of random allelic expression imbalance DOI : 10.1038/s41467-021-25630-3
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2021
Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain DOI : 10.7554/eLife.62719
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2019
Evolution of replication origins in vertebrate genomes: Rapid turnover despite selective constraints DOI : 10.1093/nar/gkz182
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2016
Evolutionary dynamics of selfish DNA explains the abundance distribution of genomic subsequences DOI : 10.1038/srep30851
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2016
Comparing the statistical fate of paralogous and orthologous sequences DOI : 10.1534/genetics.116.193912
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2015
How evolution of genomes is reflected in exact DNA sequence match statistics DOI : 10.1093/molbev/msu313
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2015
Statistical properties of pairwise distances between leaves on a random Yule tree DOI : 10.1371/journal.pone.0120206
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2013
Neutral evolution of duplicated DNA: An evolutionary stick-breaking process causes scale-invariant behavior DOI : 10.1103/PhysRevLett.110.148101
Teaching
Elective Course Period (October and January)
PhD supervision
- 2025 Machine learning in bioinformatics: development of methods for transcriptomic data analysis AYADI Youmna
- 2023 Analysis of the statistical properties of bacterial genomes to discern factors promoting gene exchange and migration events ETHEIMER Paul
- 2022 Identification of biomarkers from transcriptomic data using the knockoff method: application to oncology cohorts CARTIER Julie