Jean-Yves Tinevez
@jytinevez.bsky.social
Research engineer and core facility manager at the Institut Pasteur
https://research.pasteur.fr/en/team/image-analysis-hub/
Everything #TrackMate #Mastodon-sc (the tool to track lineages in microscopy videos, not the social networks etc).
Views are my own
https://research.pasteur.fr/en/team/image-analysis-hub/
Everything #TrackMate #Mastodon-sc (the tool to track lineages in microscopy videos, not the social networks etc).
Views are my own
Reposted by Jean-Yves Tinevez
🚨 Je cherche des chercheur-ses de toutes disciplines pour un doc radio pour parler de leur sujet de recherche mais aussi de leur quotidien (une journée type au labo). Contrainte supplémentaire, le labo doit être hors de Paris.
Plus d'infos : forms.gle/hw9wH2p5UH4A...
Plus d'infos : forms.gle/hw9wH2p5UH4A...
Interview de chercheur-ses pour doc radio
À l'occasion d'un projet de documentaire radio sur France Culture, je cherche des chercheur-ses représentant une diversité de disciplines mais également de statuts à interviewer.
L'idée est de partir...
forms.gle
December 5, 2025 at 1:01 PM
🚨 Je cherche des chercheur-ses de toutes disciplines pour un doc radio pour parler de leur sujet de recherche mais aussi de leur quotidien (une journée type au labo). Contrainte supplémentaire, le labo doit être hors de Paris.
Plus d'infos : forms.gle/hw9wH2p5UH4A...
Plus d'infos : forms.gle/hw9wH2p5UH4A...
Reposted by Jean-Yves Tinevez
🏆 4 Institut Pasteur scientists awarded by French Academy of Sciences @academiesciences.bsky.social
🥇 Romain Levayer
🥇 Pierre-Jean Corringer
🥇 Eduardo Rocha
🥇 Hervé Bourhy
Congratulations !
🥇 Romain Levayer
🥇 Pierre-Jean Corringer
🥇 Eduardo Rocha
🥇 Hervé Bourhy
Congratulations !
December 3, 2025 at 9:04 AM
🏆 4 Institut Pasteur scientists awarded by French Academy of Sciences @academiesciences.bsky.social
🥇 Romain Levayer
🥇 Pierre-Jean Corringer
🥇 Eduardo Rocha
🥇 Hervé Bourhy
Congratulations !
🥇 Romain Levayer
🥇 Pierre-Jean Corringer
🥇 Eduardo Rocha
🥇 Hervé Bourhy
Congratulations !
Paris 13eme now.
December 1, 2025 at 7:12 AM
Paris 13eme now.
Reposted by Jean-Yves Tinevez
Participez à l'étude #POPCORN lancée par l'équipe "Épidémiologie des maladies émergentes" de l'Institut @pasteur.fr pour comprendre l’évolution des attitudes et des comportements à l’égard des mesures préventives si nous devions faire face à une nouvelle #pandémie redcap.link/popcorn-past...
a man in a striped sweater is sitting on a couch
ALT: a man in a striped sweater is sitting on a couch
media.tenor.com
November 28, 2025 at 10:41 AM
Participez à l'étude #POPCORN lancée par l'équipe "Épidémiologie des maladies émergentes" de l'Institut @pasteur.fr pour comprendre l’évolution des attitudes et des comportements à l’égard des mesures préventives si nous devions faire face à une nouvelle #pandémie redcap.link/popcorn-past...
This looks great! OrganoidTracker 2.0 performs tracking AND returns estimate of the tracking error rate **locally**.
Interesting for frameworks that guide users towards plausible tracking mistakes
www.nature.com/articles/s41...
Interesting for frameworks that guide users towards plausible tracking mistakes
www.nature.com/articles/s41...
Cell tracking with accurate error prediction - Nature Methods
OrganoidTracker 2.0 enables fast and accurate cell tracking in complex systems such as developing organoids. A key aspect of the work is determining cell tracks with error probabilities for any tracki...
www.nature.com
November 27, 2025 at 9:18 AM
This looks great! OrganoidTracker 2.0 performs tracking AND returns estimate of the tracking error rate **locally**.
Interesting for frameworks that guide users towards plausible tracking mistakes
www.nature.com/articles/s41...
Interesting for frameworks that guide users towards plausible tracking mistakes
www.nature.com/articles/s41...
Reposted by Jean-Yves Tinevez
Interested in Zebrafish brain imaging? We released a 3D printed mold that's is super helpful for us. Check it out
Customizable FDM-based zebrafish embryo mold for live imaging
www.biorxiv.org/content/10.1...
Work by Marcela and Jaakko in the lab
Customizable FDM-based zebrafish embryo mold for live imaging
www.biorxiv.org/content/10.1...
Work by Marcela and Jaakko in the lab
November 27, 2025 at 6:53 AM
Interested in Zebrafish brain imaging? We released a 3D printed mold that's is super helpful for us. Check it out
Customizable FDM-based zebrafish embryo mold for live imaging
www.biorxiv.org/content/10.1...
Work by Marcela and Jaakko in the lab
Customizable FDM-based zebrafish embryo mold for live imaging
www.biorxiv.org/content/10.1...
Work by Marcela and Jaakko in the lab
Eurostar: it’s a train but you’ll be as miserable as in an airport
November 25, 2025 at 4:20 PM
Eurostar: it’s a train but you’ll be as miserable as in an airport
Reposted by Jean-Yves Tinevez
Second speaker is @jytinevez.bsky.social from @institutpasteur.bsky.social introducing TrackMate 8 #CBIAS2025
November 25, 2025 at 2:18 PM
Second speaker is @jytinevez.bsky.social from @institutpasteur.bsky.social introducing TrackMate 8 #CBIAS2025
Reposted by Jean-Yves Tinevez
November 25, 2025 at 1:06 PM
Reposted by Jean-Yves Tinevez
🎥 Discover the Institut Pasteur Education Center!
We’re excited to unveil the new presentation video of our Education Center, a space dedicated to training the next generation of scientists, health professionals, and researchers from around the world
➡️ www.pasteur.fr/en/education...
@pasteur.fr
We’re excited to unveil the new presentation video of our Education Center, a space dedicated to training the next generation of scientists, health professionals, and researchers from around the world
➡️ www.pasteur.fr/en/education...
@pasteur.fr
Discover the Education Center of the Institut Pasteur
YouTube video by Institut Pasteur EDUCATION
youtu.be
November 24, 2025 at 2:08 PM
🎥 Discover the Institut Pasteur Education Center!
We’re excited to unveil the new presentation video of our Education Center, a space dedicated to training the next generation of scientists, health professionals, and researchers from around the world
➡️ www.pasteur.fr/en/education...
@pasteur.fr
We’re excited to unveil the new presentation video of our Education Center, a space dedicated to training the next generation of scientists, health professionals, and researchers from around the world
➡️ www.pasteur.fr/en/education...
@pasteur.fr
Classical aftermath
November 24, 2025 at 5:26 PM
Classical aftermath
Reposted by Jean-Yves Tinevez
Recently out: “Uniform dynamics of cohesin-mediated loop extrusion in living human cells”. In this study led by brilliant former PhD student Thomas Sabaté we use live cell microscopy and polymer simulations to characterize how DNA loops and TADs form in human cells by cohesin-driven extrusion. (1/4)
November 23, 2025 at 4:35 PM
Recently out: “Uniform dynamics of cohesin-mediated loop extrusion in living human cells”. In this study led by brilliant former PhD student Thomas Sabaté we use live cell microscopy and polymer simulations to characterize how DNA loops and TADs form in human cells by cohesin-driven extrusion. (1/4)
Reposted by Jean-Yves Tinevez
Finally, the first public release of #BigVolumeBrowser, so after teasers, you can try it yourself. For details, please check the announcement post (1/2)
forum.image.sc/t/bigvolumeb...
forum.image.sc/t/bigvolumeb...
BigVolumeBrowser: a new 3D multi volume/mesh/point clould (SMLM) data viewer
Hello everyone, I’d like to share with you another 3D viewer for FIJI, BigVolumeBrowser (full documentation link). It‘s a first initial public release, so there is still space for improvements. Le...
forum.image.sc
November 21, 2025 at 9:29 AM
Finally, the first public release of #BigVolumeBrowser, so after teasers, you can try it yourself. For details, please check the announcement post (1/2)
forum.image.sc/t/bigvolumeb...
forum.image.sc/t/bigvolumeb...
Reposted by Jean-Yves Tinevez
Trackastra is part of the brand-new TrackMate v8.
It is the first deep-learning-based ("AI") drop-in replacement for TrackMate's regular LAP-Track algorithm.
Tracks out of the box for many types of datasets (bacteria, fluorescent nuclei, phase contrast cell culture etc), zero parameters to tune 🤖
It is the first deep-learning-based ("AI") drop-in replacement for TrackMate's regular LAP-Track algorithm.
Tracks out of the box for many types of datasets (bacteria, fluorescent nuclei, phase contrast cell culture etc), zero parameters to tune 🤖
November 20, 2025 at 8:18 PM
Trackastra is part of the brand-new TrackMate v8.
It is the first deep-learning-based ("AI") drop-in replacement for TrackMate's regular LAP-Track algorithm.
Tracks out of the box for many types of datasets (bacteria, fluorescent nuclei, phase contrast cell culture etc), zero parameters to tune 🤖
It is the first deep-learning-based ("AI") drop-in replacement for TrackMate's regular LAP-Track algorithm.
Tracks out of the box for many types of datasets (bacteria, fluorescent nuclei, phase contrast cell culture etc), zero parameters to tune 🤖
Reposted by Jean-Yves Tinevez
Give it a try following the tutorial made by @jytinevez.bsky.social imagej.net/plugins/trac...
TrackMate Trackastra
Trackastra integration in TrackMate.
imagej.net
November 20, 2025 at 8:18 PM
Give it a try following the tutorial made by @jytinevez.bsky.social imagej.net/plugins/trac...
We just released a new major version of TrackMate (v8), the cell and organelle tracking plugin of Fiji.
It ships many new features, detailed below, but that are articulated around the following:
It ships many new features, detailed below, but that are articulated around the following:
November 20, 2025 at 11:42 AM
We just released a new major version of TrackMate (v8), the cell and organelle tracking plugin of Fiji.
It ships many new features, detailed below, but that are articulated around the following:
It ships many new features, detailed below, but that are articulated around the following:
Scientific fois gras is on the way
November 16, 2025 at 2:55 PM
Scientific fois gras is on the way
Reposted by Jean-Yves Tinevez
From PhD in Hong Kong to @institutpasteur & back to Australia @wehi-research.bsky.social. An enlightening #TheMicroscopists with Kelly Rogers incl the challenges of balancing research/facilities/& staff.
+ wanting to be a forester & passions outside of work.
Stream: bit.ly/microscopist...
+ wanting to be a forester & passions outside of work.
Stream: bit.ly/microscopist...
The Microscopists | Kelly Rogers (Walter and Eliza Hall Institute)
In this episode of The Microscopists, Peter O’Toole sits down with Kelly Rogers, Head of the Division of Advanced Technology and Biology at the Walter and Eliza Hall Institute (WEHI) in Melbourne.K...
bit.ly
November 14, 2025 at 11:39 AM
From PhD in Hong Kong to @institutpasteur & back to Australia @wehi-research.bsky.social. An enlightening #TheMicroscopists with Kelly Rogers incl the challenges of balancing research/facilities/& staff.
+ wanting to be a forester & passions outside of work.
Stream: bit.ly/microscopist...
+ wanting to be a forester & passions outside of work.
Stream: bit.ly/microscopist...
Reposted by Jean-Yves Tinevez
I won't talk about NMeth @natmethods.nature.com forever (probably), but I do want to brag a bit about the November focus issue on cell segmentation and tracking, which is many ways is my last hurrah (and final editorial) for the journal. I am so proud of these papers!! www.nature.com/nmeth/volume...
November 13, 2025 at 8:49 PM
I won't talk about NMeth @natmethods.nature.com forever (probably), but I do want to brag a bit about the November focus issue on cell segmentation and tracking, which is many ways is my last hurrah (and final editorial) for the journal. I am so proud of these papers!! www.nature.com/nmeth/volume...
Reposted by Jean-Yves Tinevez
137 years ago today 🎂 Institut Pasteur opened in Paris (Nov 14, 1888 🏛️)
Funded by 100K+ donors after the rabies vaccine success, it launched a scientific legacy:
🔬 10 Nobel Prizes
🌍 32 Pasteur Network Institutes
💉 Countless lives saved
From rabies to COVID-19, the mission continues.
Funded by 100K+ donors after the rabies vaccine success, it launched a scientific legacy:
🔬 10 Nobel Prizes
🌍 32 Pasteur Network Institutes
💉 Countless lives saved
From rabies to COVID-19, the mission continues.
November 14, 2025 at 8:23 AM
137 years ago today 🎂 Institut Pasteur opened in Paris (Nov 14, 1888 🏛️)
Funded by 100K+ donors after the rabies vaccine success, it launched a scientific legacy:
🔬 10 Nobel Prizes
🌍 32 Pasteur Network Institutes
💉 Countless lives saved
From rabies to COVID-19, the mission continues.
Funded by 100K+ donors after the rabies vaccine success, it launched a scientific legacy:
🔬 10 Nobel Prizes
🌍 32 Pasteur Network Institutes
💉 Countless lives saved
From rabies to COVID-19, the mission continues.
Copenhagen I am in you!
November 10, 2025 at 9:50 PM
Copenhagen I am in you!
Reposted by Jean-Yves Tinevez
Master colocalization! Join our webinar Nov. 11 for multiple time zones: svi.nl/WebinarSched...
November 5, 2025 at 8:02 AM
Master colocalization! Join our webinar Nov. 11 for multiple time zones: svi.nl/WebinarSched...
Reposted by Jean-Yves Tinevez
My new ImageJ / Fiji toolkit is out 🔥! The goal is to make image handling & visualization easy, with an intuitive interface! Install it on Fiji with the "Image Viewer" update site
#microscopy #ImageJ #FluorescenceFriday #microscopyMonday
imagej.net/plugins/imag...
#microscopy #ImageJ #FluorescenceFriday #microscopyMonday
imagej.net/plugins/imag...
November 4, 2025 at 10:40 PM
My new ImageJ / Fiji toolkit is out 🔥! The goal is to make image handling & visualization easy, with an intuitive interface! Install it on Fiji with the "Image Viewer" update site
#microscopy #ImageJ #FluorescenceFriday #microscopyMonday
imagej.net/plugins/imag...
#microscopy #ImageJ #FluorescenceFriday #microscopyMonday
imagej.net/plugins/imag...
When in Rome, do as the Romans do
Go teams!
Go teams!
November 2, 2025 at 2:40 AM
When in Rome, do as the Romans do
Go teams!
Go teams!