On-demand workflow design for image processing and analysis

Bruker 2P+, Discovery laser (680 to 1340 nm), mouse anesthesy and stabulation. Cleared mouse organs (gut, lymph nodes..) and 2P microscopy

To decipher Inflammatory and cardiovascular diseases, multiplex imaging and cytometry pipelines include the entire process from sample preparation, image acquisition to image analysis and quantification. Our workflows are adpated to mouse or human lymphoid organs and blood . They employ techniques such as confocal spectral imaging and cytometry-based analysis (spectral, sorting, and analysis).

Inflammatory and cardiovascular diseases are complex, multifactorial conditions that affect multiple organs and cellular components. To tackle these intricate biological challenges, we employ and advance multi-modal and multi-scale imaging and flow cytometry pipelines. These pipelines include the entire process from sample preparation, image acquisition to image analysis and quantification. Our workflows are adpated to various tissues, including the heart, kidneys, blood vessels, muscles, liver and adipose tissue. They operate across scales ranging from whole organs to subcellular levels, employing techniques such as widefield imaging, confocal spectral imaging, high-resolution imaging (Airyscan, Opera Phenix), high-content imaging (Axioscan 7), and cytometry-based analysis (spectral, sorting, and analysis).

Phytotronic cabinets and expression of fluorescent fusion proteins/tags (transformation by electroporation)

Zeiss CD7, XY, Z-stacks, multi-points, mosaics, time-lapse

IX83 microscope equipped with two PENTA SET TIRF, detector (sCMOS ORCA Fusion BT), TIRF module (445nm, 488nm, 514nm, 561nm, 640nm), cellVivo module, cellSens software (Evident)

Stellaris 8, WLL, FALCON, 592 and 775 nm for depletion, Leica Microsystems

Volumetric electron microscopy : from sample preparation (chemical fixation), to imaging & data processing
(Key-words: SBF, Array-tomography, µCT, micro-wave, nanotomy)

Live Imaging and molecular dynamics for cell, organoids, tissue and embryo : from sample preparation with access to a L2 cell culture room, to microscopy and data analysis
(Key words : spinning disk, lattice light sheet, widefield, LightSheet, FRAP, photoconversion, FCS, spot variation FCS, TIRF, single molecule, FRET, FLIM))

Histology : from sample preparation with the RHEM and PHIV facility (human, animal and plant tissue) to digitisation of virtual slides and image analysis
(Key words : brightfield and multiplex staining, Nanozoomer (brightfield), Axioscan (fluorescence), Pannoramic (brightfield and fluorescence), QuPath and Histometrix with machine/deep learning)