iiinova — where your digital self keeps evolving

Reposted by Emmanuel Beaurepaire

Preprint is out! Our BakingTray software turns a 2-photon microscope into a serial-section tomography system for automated whole-organ imaging. ~€35k to convert an existing scope. 11 systems worldwide, >7,000 samples at SWC alone #neuroskyence #microscopy www.biorxiv.org/content/10.6...

A BrainSaw at the Max Planck Institute for Brain Research, Frankfurt. A Nikon 16x water-immersion objective on a 400 µm travel PIFOC allows for fast z-stacks. Samples are imaged and cut in the clear water bath. A Leica VT1000 vibratome is seen to the right with a mounted blade.

How BrainSaw works. Samples are embedded in an agarose block, which is glued to a slide and clamped into a water bath. The bath sits on a three-axis stage under a 2-photon microscope; the stage moves the sample for both tile scanning and slicing. The microscope images the exposed face of the block, the vibratome cuts off the imaged layer, and the cycle repeats until the samples have been fully imaged. Data are stitched automatically and are ready for downstream analysis. Logos below: BrainSaw (hardware), BakingTray (acquisition software), StitchIt (stitching).

Coronal section of an Sst-tdTomato mouse brain imaged on BrainSaw. tdTomato-expressing cells are shown in yellow, scattered through cortex and hippocampus; tissue autofluorescence is shown in blue.

Coronal section of a mouse brain with three neighbouring viral injections targeting layer 5 of V1, expressing mCherry (red), eGFP (green) and BFP (blue). The thick apical dendrites of the labelled neurons are clearly visible, as are their axons projecting to distant targets. Image credit: Alex Fritzl.

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Emmanuel Beaurepaire @ebeaurepaire.bsky.social · 04/09/2026

A nice study by @laboptbio.bsky.social colleagues V.Abdelsayed, P.Mahou,G.Latour,MC.Schanne-Klein and collaborators in J.Ramella-Roman's group at FIU. They use polarized SHG to analyze the reorganization of cervix collagen matric during gestation in mice. Congrats Vaky & co! doi.org/10.1063/5.03...

doi.org

Advanced optical polarimetric microscopy reveals spatio-temporal dynamics of cervix remodeling during gestation

Polarimetric microscopy is a powerful tool for assessing fiber orientation and reorganization during various biological processes. Collagen fiber remodeling in

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Reposted by Emmanuel Beaurepaire

Laboratory for Optics and Biosciences @laboptbio.bsky.social · 10/06/2026

A new paper from the LOB microscopy unit on high-speed multiphoton light-sheet imaging has been published in Optica. We achieved kilohertz frame rates by enhancing the signal-to-photodamage ratio during live imaging. doi.org/10.1364/OPTI...

doi.org

Radware Captcha Page

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Reposted by Emmanuel Beaurepaire

Lei.ZHU @leizhu.bsky.social · 05/06/2026

🚀 KiloHz two photon live imaging #MultiphotonMicroscopy @laboptbio.bsky.social Two-photon light-sheet live imaging at kilohertz frame rate using birefringence-based pulse splitting #LightSheetMicroscopy #Bioimaging #Photonics #Microscopy #Zebrafish Article is available here: doi.org/10.1364/OPTI...

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Reposted by Emmanuel Beaurepaire

Laboratory for Optics and Biosciences @laboptbio.bsky.social · 07/04/2026

Caroline Boudoux, Professor at @polymtl.bsky.social and entrepreneur will give the next LOB seminar: "It Goes without Saying: Taking the Guesswork of Your PhD in Engineering" See you on April 17th at 11AM in Amphi Becquerel. lob.ip-paris.fr/en/events/se...

lob.ip-paris.fr

Seminar of Caroline Boudoux - Professor at Polytechnique Montréa et an entrepreneure (Castor Optics)

11:00am, Ecole Polytechnique, Amphi Becquerel

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Reposted by Emmanuel Beaurepaire

Laboratory for Optics and Biosciences @laboptbio.bsky.social · 25/03/2026

An INSERM CHAIR (tenure track position) has just been opened in the Laboratoire d'Optique et Biosciences (LOB) (INSERM U1182) in @xpolytechnique.bsky.social / @ipparis.bsky.social @inserm.fr Deadline to apply : September 2. pro.inserm.fr/wp-content/u...

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Reposted by Emmanuel Beaurepaire

Laboratory for Optics and Biosciences @laboptbio.bsky.social · 09/10/2025

(2025/10/08) Congratulations to @chiarastringari.bsky.social on the defense of her Habilitation à Diriger les Recherches (HDR) "Label-free multimodal non-linear optical microscopy for functional imaging of living tissues" !

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Reposted by Emmanuel Beaurepaire

Nicolas Chiaruttini @nkiaru.bsky.social · 24/07/2025

Hey, it's out! doi.org/10.1016/j.ce... Aligning Big Brains and Atlases, ABBA in short, is published in Cell Reports @cp-cellreports.bsky.social . @biancasilvalab.bsky.social's lab added an analysis pipeline on top of it (BraiAn) and did all the relevant biological work. What is it ? Short thread:

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Emmanuel Beaurepaire @ebeaurepaire.bsky.social · 16/07/2025

Multiscale characterization of myelin distribution with polarized THG microscopy Morizet et al, Optica 2025 doi.org/10.1364/OPTI... @laboptbio.bsky.social @institutducerveau.bsky.social @cnrs.fr ‪‪ @ip-paris.bsky.social @inserm.fr (1/8)

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Reposted by Emmanuel Beaurepaire

Laboratory for Optics and Biosciences @laboptbio.bsky.social · 01/07/2025

Congratulations to @caporalclement.bsky.social on his brilliant defence of his PhD thesis, entitled 'Quantitative Analysis of Large Volume Imaging in Developmental Neurobiology' !

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Reposted by Emmanuel Beaurepaire

Brice Bathellier @bathellierlab.bsky.social · 15/06/2025

Two postdoc positions in the lab within the ERC Synergy project "Chronology" in collaboration with S. Ostojic, M. Jazayeri and V. van Wassenhove @virginievanw.bsky.social . Two focuses: sound sequences representations across the brain & novel all-optical technology. Contact: brice.bathellier@cnrs.fr

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Reposted by Emmanuel Beaurepaire

Ignacio Arganda-Carreras @iarganda.eurosky.social · 13/05/2025

🆕 We're hiring! We're looking for postdoc 🎓 candidates to work at the intersaction of bioimage analysis 🖥️🔬, tissue biomechanics 🧫, and neuroscience 🧠. 👉 Application deadline: 2025/06/02 👉 Duration: July 2025 - December 2026 (for now) Come work with us! 🤗 dipc.ehu.eus/en/dipc/join...

dipc.ehu.eus

Joint Postdoctoral Position in Biophysics – Bioimage Analysis / AI / Neuroscience

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Reposted by Emmanuel Beaurepaire

Laboratory for Optics and Biosciences @laboptbio.bsky.social · 09/04/2025

Congratulations to Stella Dees for defending her thesis on "Multicontrast 3P-microscopy for biological tissue imaging"

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Reposted by Emmanuel Beaurepaire

Laboratory for Optics and Biosciences @laboptbio.bsky.social · 07/04/2025

Congratulation to Giulia Galante for her thesis defense about the "Characterization and physico-chemical monitoring of collagen degradation in parchments by polarization-resolved multiphoton microscopy!

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Reposted by Emmanuel Beaurepaire

Chiara Stringari @chiarastringari.bsky.social · 13/02/2025

See you on Friday February 21st for the @eurobioimaging.bsky.social Virtual Pub on "Fluorescence Lifetime Microscopy (FLIM) for label-free metabolic imaging of living tissues"! #FLIM #labelfree #microscopy #metabolism You can register online here! www.eurobioimaging.eu/events/flim-...

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Reposted by Emmanuel Beaurepaire

Chiara Stringari @chiarastringari.bsky.social · 13/02/2025

Do you need to analyze your FLIM data with open source software? The #Virtual #I2K2024 workshop on "Interactive #phasor analysis of #FLIM data using FLUTE" given by Bahar Asadipour is online. www.youtube.com/watch?v=q7W1... #FLUTE can analyze data of most commercial cards github.com/LaboratoryOp...

youtube.com

Interactive phasor analysis of FLIM data using FLUTE

YouTube video by I2K Conference

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Emmanuel Beaurepaire @ebeaurepaire.bsky.social · 22/01/2025

Un poste d’ingénieur en analyse d’images est ouvert en mobilité pour rejoindre @laboptbio.bsky.social à @polytechniqueparis.bsky.social (Palaiseau). Poste IR ouvert aux IE de la fonction publique et IR @cnrs.bsky.social. Deadline: 20/02. Lien (concours 508): profilsdemplois.cnrs.fr/ords/afipprd...

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Emmanuel Beaurepaire @ebeaurepaire.bsky.social · 22/01/2025

An image analysis engineer position is open for mobility to join @laboptbio.bsky.social at @polytechniqueparis.bsky.social ky.social in Palaiseau. IR position open to civil service IEs and CNRS IRs. Deadline: 20/02. Link (position #508): profilsdemplois.cnrs.fr/ords/afipprd...

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