Biological imaging has seen significant advancements in new microscopy techniques, allowing for the visualization of sub-cellular components with improved spatial and temporal resolution. Nevertheless, the interaction between biology, fluorescence microscopy and informatics brings new challenges, including big data analysis and 4D visualization.
My current research focuses on studying the cell division mechanism of cyanobacteria. This involves developing automatic tracking methods for single cells, single filaments, or cell populations, as well as multidimensional image analysis techniques using deep learning.
To achieve this, I work on image processing and data analysis across various multidisciplinary problems, including quantitative nanoscale imaging of orientational order and 3D intracellular process tracking and visualization. Additionally, I am involved in data pre-processing and data management.
Image analysis framework for cyanobacteria.
Deep learning-based algorithms for cell segmentation and tracking.
About: Research focus on the study of cell division mechanisms of cyanobacteria cells using image analysis algorithms.
Cell segmentation
Quantitative nanoscale imaging of orientational order.
Ultrastructure imaging of actin assemblies imaged by polarized light sheet microscopy.
About: Ongoing collaboration in the frame of France BioImaging R&D program for image processing of polarized light sheet microscopy data with Dr. Sophie Brasselet, Institut Fresnel.
Ultrastructure imaging
Imaging and analysis of intracellular processes for 3D+time live cell imaging
NAVISCOPE: image-guided navigation and visualization of large data sets in live cell imaging and microscopy.
About: INRIA IPL project, initiated to implement novel machine-learning methods able to detect the main regions of interest, and automatic quantification of sparse sets of molecular interactions and cell processes during navigation to save memory and computational resources.
3D spots and cell segmentation
Classification of endocytic entry mechanisms.
About: Analysis of different modes of endocytosis: clathrin-mediated, and glyco(sphingo)lipid/lectin (termed GL-Lect)-mediated, using LLSM and single particle 3D tracking.
LLSM and 3D single particle tracking
Image preprocessing and Data management.
BioImageIT: open-source integrator for Image DATA management and analysis.
About: Ongoing project of the Serpico-STED Team in the frame of the NRI (National Research Infrastructure – France BioImaging) and dissemination toward the 18 Imaging Facilities that constitute the Core of the Infrastructure.
BioImageIT