Nuno Pimpão Martins
@nunopmartins.bsky.social
Reposted by Nuno Pimpão Martins
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:
Reposted by Nuno Pimpão Martins
🦠🔬🤖🧑💻 #mAIcrobe is out! With @pinholab.bsky.social's lab, we launched an open-source framework for high-throughput bacterial image analysis. By rockstars A. Brito & B. Saraiva et al, making #DeepLearning for phenotyping accessible! Easy to use, plus model training
📜 www.biorxiv.org/content/10.1...
📜 www.biorxiv.org/content/10.1...
October 22, 2025 at 11:10 AM
🦠🔬🤖🧑💻 #mAIcrobe is out! With @pinholab.bsky.social's lab, we launched an open-source framework for high-throughput bacterial image analysis. By rockstars A. Brito & B. Saraiva et al, making #DeepLearning for phenotyping accessible! Easy to use, plus model training
📜 www.biorxiv.org/content/10.1...
📜 www.biorxiv.org/content/10.1...
Reposted by Nuno Pimpão Martins
Cool collaborations on light sheet microscopy @huiskenlab.bsky.social, cellular barcoding @mgrillo.bsky.social, AI-based cell tracking @jytinevez.bsky.social, and citizen science through video game for cell tracking @rebelpixel.fr
see www.averof-lab.org/pages/tracman
3/3
see www.averof-lab.org/pages/tracman
3/3
October 3, 2025 at 10:47 AM
Cool collaborations on light sheet microscopy @huiskenlab.bsky.social, cellular barcoding @mgrillo.bsky.social, AI-based cell tracking @jytinevez.bsky.social, and citizen science through video game for cell tracking @rebelpixel.fr
see www.averof-lab.org/pages/tracman
3/3
see www.averof-lab.org/pages/tracman
3/3
Reposted by Nuno Pimpão Martins
Here it is! Postdoctoral position to identify the progenitors sensory organs in the regenerating legs of Parhyale
apply here: www.averof-lab.org/pages/tracman
1/3
apply here: www.averof-lab.org/pages/tracman
1/3
We've just been awarded a grant to study the cellular basis of regeneration – to track the progenitors of sensory organs in the context of leg regeneration, in our favourite crustacean tinyurl.com/parhyale, based on live imaging and cell tracking. The project involves some cool collaborations... 1/3
October 3, 2025 at 10:47 AM
Here it is! Postdoctoral position to identify the progenitors sensory organs in the regenerating legs of Parhyale
apply here: www.averof-lab.org/pages/tracman
1/3
apply here: www.averof-lab.org/pages/tracman
1/3
Reposted by Nuno Pimpão Martins
Job alert!! 👀
Here it is! Postdoctoral position to identify the progenitors sensory organs in the regenerating legs of Parhyale
apply here: www.averof-lab.org/pages/tracman
1/3
apply here: www.averof-lab.org/pages/tracman
1/3
We've just been awarded a grant to study the cellular basis of regeneration – to track the progenitors of sensory organs in the context of leg regeneration, in our favourite crustacean tinyurl.com/parhyale, based on live imaging and cell tracking. The project involves some cool collaborations... 1/3
October 3, 2025 at 11:40 AM
Job alert!! 👀
Reposted by Nuno Pimpão Martins
BioImage analysis friends - King's are recruiting for a full-time, permanent facility position! Come and work with fun microscopes and fun people (and me!) - please share! www.kcl.ac.uk/jobs/126345-...
Bioimage Analysis Specialist | King's College London
www.kcl.ac.uk
September 29, 2025 at 9:48 AM
BioImage analysis friends - King's are recruiting for a full-time, permanent facility position! Come and work with fun microscopes and fun people (and me!) - please share! www.kcl.ac.uk/jobs/126345-...
Reposted by Nuno Pimpão Martins
FlyBase needs your help! We ask that European labs continue to contribute to Cambridge, UK FlyBase, whereas US and other non-European labs can contribute to US FlyBase. For more information and how to donate: wiki.flybase.org/wiki/FlyBase...
FlyBase:Contribute to FlyBase - FlyBase Wiki
wiki.flybase.org
August 15, 2025 at 12:45 PM
FlyBase needs your help! We ask that European labs continue to contribute to Cambridge, UK FlyBase, whereas US and other non-European labs can contribute to US FlyBase. For more information and how to donate: wiki.flybase.org/wiki/FlyBase...
Reposted by Nuno Pimpão Martins
Our beautiful Hydra made the cover!!! 😍😍😍
An experiment performed by Pavel Mejstrik with a HCR protocol by @giuliaserafini.bsky.social, @paveltomancak.bsky.social lab @mpi-cbg.de
Actin fibers in blue, nuclei in orange.
An experiment performed by Pavel Mejstrik with a HCR protocol by @giuliaserafini.bsky.social, @paveltomancak.bsky.social lab @mpi-cbg.de
Actin fibers in blue, nuclei in orange.
August 13, 2025 at 8:51 AM
Our beautiful Hydra made the cover!!! 😍😍😍
An experiment performed by Pavel Mejstrik with a HCR protocol by @giuliaserafini.bsky.social, @paveltomancak.bsky.social lab @mpi-cbg.de
Actin fibers in blue, nuclei in orange.
An experiment performed by Pavel Mejstrik with a HCR protocol by @giuliaserafini.bsky.social, @paveltomancak.bsky.social lab @mpi-cbg.de
Actin fibers in blue, nuclei in orange.
Reposted by Nuno Pimpão Martins
I just got the notice that all the FlyBase people at Harvard, including me, will be laid off on October 12. I'm devastated.
August 11, 2025 at 6:12 PM
I just got the notice that all the FlyBase people at Harvard, including me, will be laid off on October 12. I'm devastated.
Reposted by Nuno Pimpão Martins
🚨 Deadline extended!
You now have until August 8 to apply for the Light-Sheet Image Analysis Workshop (Jan 5–9, 2026) at Universidad Mayor in Santiago de Chile with the support of CZI @cziscience.bsky.social and @lisium-chile.bsky.social
1/3
You now have until August 8 to apply for the Light-Sheet Image Analysis Workshop (Jan 5–9, 2026) at Universidad Mayor in Santiago de Chile with the support of CZI @cziscience.bsky.social and @lisium-chile.bsky.social
1/3
Light-Sheet Image Analysis Workshop 2026 – lightsheetchile
lightsheetchile.cl
July 28, 2025 at 9:24 AM
Reposted by Nuno Pimpão Martins
🚨 Deadline extended!
You now have until August 8 to apply for the Light-Sheet Image Analysis Workshop (Jan 5–9, 2026) at Universidad Mayor in Santiago de Chile with the support of CZI @cziscience.bsky.social and @lisium-chile.bsky.social
1/3
You now have until August 8 to apply for the Light-Sheet Image Analysis Workshop (Jan 5–9, 2026) at Universidad Mayor in Santiago de Chile with the support of CZI @cziscience.bsky.social and @lisium-chile.bsky.social
1/3
Light-Sheet Image Analysis Workshop 2026 – lightsheetchile
lightsheetchile.cl
July 24, 2025 at 4:28 PM
🚨 Deadline extended!
You now have until August 8 to apply for the Light-Sheet Image Analysis Workshop (Jan 5–9, 2026) at Universidad Mayor in Santiago de Chile with the support of CZI @cziscience.bsky.social and @lisium-chile.bsky.social
1/3
You now have until August 8 to apply for the Light-Sheet Image Analysis Workshop (Jan 5–9, 2026) at Universidad Mayor in Santiago de Chile with the support of CZI @cziscience.bsky.social and @lisium-chile.bsky.social
1/3
Reposted by Nuno Pimpão Martins
The 2nd AI4Life Challenge is live!
Calling the AI & bioimaging community to tackle a key microscopy challenge: removing noise while preserving detail.
📦 Paired noisy/clean datasets
📈 Ground-truth evaluation
🧠 DL focus
Build, test, compete 👉 ai4life.eurobioimaging.eu/challenge-2/
Calling the AI & bioimaging community to tackle a key microscopy challenge: removing noise while preserving detail.
📦 Paired noisy/clean datasets
📈 Ground-truth evaluation
🧠 DL focus
Build, test, compete 👉 ai4life.eurobioimaging.eu/challenge-2/
June 27, 2025 at 1:33 PM
The 2nd AI4Life Challenge is live!
Calling the AI & bioimaging community to tackle a key microscopy challenge: removing noise while preserving detail.
📦 Paired noisy/clean datasets
📈 Ground-truth evaluation
🧠 DL focus
Build, test, compete 👉 ai4life.eurobioimaging.eu/challenge-2/
Calling the AI & bioimaging community to tackle a key microscopy challenge: removing noise while preserving detail.
📦 Paired noisy/clean datasets
📈 Ground-truth evaluation
🧠 DL focus
Build, test, compete 👉 ai4life.eurobioimaging.eu/challenge-2/
Reposted by Nuno Pimpão Martins
3rd challenge from AI4Life! We're inviting the community to design unsupervised models that preserve spatial & temporal patterns in neuronal data.
📅 Open till Aug 11, 2025
🚀 Join now: ai4life.eurobioimaging.eu/challenge-3/
📅 Open till Aug 11, 2025
🚀 Join now: ai4life.eurobioimaging.eu/challenge-3/
July 10, 2025 at 2:39 PM
3rd challenge from AI4Life! We're inviting the community to design unsupervised models that preserve spatial & temporal patterns in neuronal data.
📅 Open till Aug 11, 2025
🚀 Join now: ai4life.eurobioimaging.eu/challenge-3/
📅 Open till Aug 11, 2025
🚀 Join now: ai4life.eurobioimaging.eu/challenge-3/
Reposted by Nuno Pimpão Martins
July 3, 2025 at 8:05 AM
Reposted by Nuno Pimpão Martins
It's here! ✨
The #ExSRRF protocol paper is out 😍. Full details for merging Expansion Microscopy with our eSRRF analysis. From cells to tissue. A partnership with @puellesv.bsky.social's lab. Lead by Dominik Kylies and @hannah-superres.bsky.social + colleagues. #ExM #eSRRF
➡️ Open link: rdcu.be/euvEw
The #ExSRRF protocol paper is out 😍. Full details for merging Expansion Microscopy with our eSRRF analysis. From cells to tissue. A partnership with @puellesv.bsky.social's lab. Lead by Dominik Kylies and @hannah-superres.bsky.social + colleagues. #ExM #eSRRF
➡️ Open link: rdcu.be/euvEw
July 3, 2025 at 8:44 AM
It's here! ✨
The #ExSRRF protocol paper is out 😍. Full details for merging Expansion Microscopy with our eSRRF analysis. From cells to tissue. A partnership with @puellesv.bsky.social's lab. Lead by Dominik Kylies and @hannah-superres.bsky.social + colleagues. #ExM #eSRRF
➡️ Open link: rdcu.be/euvEw
The #ExSRRF protocol paper is out 😍. Full details for merging Expansion Microscopy with our eSRRF analysis. From cells to tissue. A partnership with @puellesv.bsky.social's lab. Lead by Dominik Kylies and @hannah-superres.bsky.social + colleagues. #ExM #eSRRF
➡️ Open link: rdcu.be/euvEw
Reposted by Nuno Pimpão Martins
🔬👨💻📰 #SReD is out!
Automated structural detection for #ImageJ & #FIJI, from nano to macro ✨🐘. No training data, no bias - texture analysis with GPU acceleration!⚡️
Brainchild of @afonsomendes92.bsky.social and adventure w @christlet.bsky.social lab + friends.
Check: www.nature.com/articles/s41...
Automated structural detection for #ImageJ & #FIJI, from nano to macro ✨🐘. No training data, no bias - texture analysis with GPU acceleration!⚡️
Brainchild of @afonsomendes92.bsky.social and adventure w @christlet.bsky.social lab + friends.
Check: www.nature.com/articles/s41...
July 2, 2025 at 7:09 AM
🔬👨💻📰 #SReD is out!
Automated structural detection for #ImageJ & #FIJI, from nano to macro ✨🐘. No training data, no bias - texture analysis with GPU acceleration!⚡️
Brainchild of @afonsomendes92.bsky.social and adventure w @christlet.bsky.social lab + friends.
Check: www.nature.com/articles/s41...
Automated structural detection for #ImageJ & #FIJI, from nano to macro ✨🐘. No training data, no bias - texture analysis with GPU acceleration!⚡️
Brainchild of @afonsomendes92.bsky.social and adventure w @christlet.bsky.social lab + friends.
Check: www.nature.com/articles/s41...
Reposted by Nuno Pimpão Martins
Fellowship pportunity:
Are you interested in technology and method development, in a core facility or infrastructure?
ARISE2, an MSCA action, might be for you.
You could, e.g., start working with Christian Tischer at EMBL and do a visit with us.
Please reach out.
www.embl.org/training/ari...
Are you interested in technology and method development, in a core facility or infrastructure?
ARISE2, an MSCA action, might be for you.
You could, e.g., start working with Christian Tischer at EMBL and do a visit with us.
Please reach out.
www.embl.org/training/ari...
ARISE2
Career Accelerator for Research Infrastructure Scientists
www.embl.org
July 2, 2025 at 1:42 PM
Fellowship pportunity:
Are you interested in technology and method development, in a core facility or infrastructure?
ARISE2, an MSCA action, might be for you.
You could, e.g., start working with Christian Tischer at EMBL and do a visit with us.
Please reach out.
www.embl.org/training/ari...
Are you interested in technology and method development, in a core facility or infrastructure?
ARISE2, an MSCA action, might be for you.
You could, e.g., start working with Christian Tischer at EMBL and do a visit with us.
Please reach out.
www.embl.org/training/ari...
Reposted by Nuno Pimpão Martins
🧑🔬📰🚀 #RxivMaker is here! A framework automating the creation of publication-ready scientific #preprints from simple Markdown. Goodbye manual formatting, and hello gorgeous manuscripts! A great adventure with @guijacquemet.bsky.social's lab
📜: zenodo.org/records/1575...
👨💻: github.com/HenriquesLab...
📜: zenodo.org/records/1575...
👨💻: github.com/HenriquesLab...
June 27, 2025 at 12:34 PM
🧑🔬📰🚀 #RxivMaker is here! A framework automating the creation of publication-ready scientific #preprints from simple Markdown. Goodbye manual formatting, and hello gorgeous manuscripts! A great adventure with @guijacquemet.bsky.social's lab
📜: zenodo.org/records/1575...
👨💻: github.com/HenriquesLab...
📜: zenodo.org/records/1575...
👨💻: github.com/HenriquesLab...
Reposted by Nuno Pimpão Martins
Join us for the next #DGZ Focus Workshop on a topic you MUST be interested in: #Imaging in Cell Biology, organized by @pfeffercryolab.bsky.social and @ewerslab.bsky.social - Tuesday, June 24, noon, Zoom 🔬👀✨
June 21, 2025 at 6:20 PM
Join us for the next #DGZ Focus Workshop on a topic you MUST be interested in: #Imaging in Cell Biology, organized by @pfeffercryolab.bsky.social and @ewerslab.bsky.social - Tuesday, June 24, noon, Zoom 🔬👀✨
Reposted by Nuno Pimpão Martins
Come all, this will be great!
Join us for the next #DGZ Focus Workshop on a topic you MUST be interested in: #Imaging in Cell Biology, organized by @pfeffercryolab.bsky.social and @ewerslab.bsky.social - Tuesday, June 24, noon, Zoom 🔬👀✨
June 21, 2025 at 6:29 PM
Come all, this will be great!
Reposted by Nuno Pimpão Martins
Apparently existing foreign students at Harvard *MUST* transfer according to the Trump administration.
My Harvard neuroscience/connectomics peeps: If this impacts any of you (faculty/students), get in touch with me and we can chat about how I can help you.
My Harvard neuroscience/connectomics peeps: If this impacts any of you (faculty/students), get in touch with me and we can chat about how I can help you.
May 22, 2025 at 6:51 PM
Apparently existing foreign students at Harvard *MUST* transfer according to the Trump administration.
My Harvard neuroscience/connectomics peeps: If this impacts any of you (faculty/students), get in touch with me and we can chat about how I can help you.
My Harvard neuroscience/connectomics peeps: If this impacts any of you (faculty/students), get in touch with me and we can chat about how I can help you.
Reposted by Nuno Pimpão Martins
🚨 📣 Registration for #CBIAS2025 is now open!
24-25th November at the Wellcome Collection, special early bird registration rate until 20th July
www.crick.ac.uk/whats-on/cri...
24-25th November at the Wellcome Collection, special early bird registration rate until 20th July
www.crick.ac.uk/whats-on/cri...
Crick BioImage Analysis Symposium 2025
www.crick.ac.uk
May 22, 2025 at 8:32 AM
🚨 📣 Registration for #CBIAS2025 is now open!
24-25th November at the Wellcome Collection, special early bird registration rate until 20th July
www.crick.ac.uk/whats-on/cri...
24-25th November at the Wellcome Collection, special early bird registration rate until 20th July
www.crick.ac.uk/whats-on/cri...
Reposted by Nuno Pimpão Martins
Curious about aging & longevity research? Join us at GIMM Fest (Lisbon, Portugal)
Discover groundbreaking insights & engage with top researchers. It's a celebration of curiosity & a catalyst for change.
🗓️ Sept 4-5: Scientific Sessions + Sept 6: Public Event
👉 gimm.pt/gimm-festival/
Discover groundbreaking insights & engage with top researchers. It's a celebration of curiosity & a catalyst for change.
🗓️ Sept 4-5: Scientific Sessions + Sept 6: Public Event
👉 gimm.pt/gimm-festival/
May 19, 2025 at 9:32 AM
Curious about aging & longevity research? Join us at GIMM Fest (Lisbon, Portugal)
Discover groundbreaking insights & engage with top researchers. It's a celebration of curiosity & a catalyst for change.
🗓️ Sept 4-5: Scientific Sessions + Sept 6: Public Event
👉 gimm.pt/gimm-festival/
Discover groundbreaking insights & engage with top researchers. It's a celebration of curiosity & a catalyst for change.
🗓️ Sept 4-5: Scientific Sessions + Sept 6: Public Event
👉 gimm.pt/gimm-festival/
Reposted by Nuno Pimpão Martins
Monday is the big day! Very much looking forward to welcoming all participants and speakers of the Neurogenomics Conference to @humantechnopole.bsky.social in Milan. It promises to be an exciting few days filled with amazing science.
May 17, 2025 at 11:06 AM
Monday is the big day! Very much looking forward to welcoming all participants and speakers of the Neurogenomics Conference to @humantechnopole.bsky.social in Milan. It promises to be an exciting few days filled with amazing science.
Reposted by Nuno Pimpão Martins
Big step for open science! 🎉 Our @eu-openscreen.bsky.social consortium drops their first open Cell Painting dataset.
Wolff et al. 2025: doi.org/10.1016/j.is...
FAIR, high-quality & ready to power AI in drug discovery. 100K+ compounds coming in 2025!
#OpenData #CellPainting #DrugDiscovery
Wolff et al. 2025: doi.org/10.1016/j.is...
FAIR, high-quality & ready to power AI in drug discovery. 100K+ compounds coming in 2025!
#OpenData #CellPainting #DrugDiscovery
May 14, 2025 at 11:02 AM
Big step for open science! 🎉 Our @eu-openscreen.bsky.social consortium drops their first open Cell Painting dataset.
Wolff et al. 2025: doi.org/10.1016/j.is...
FAIR, high-quality & ready to power AI in drug discovery. 100K+ compounds coming in 2025!
#OpenData #CellPainting #DrugDiscovery
Wolff et al. 2025: doi.org/10.1016/j.is...
FAIR, high-quality & ready to power AI in drug discovery. 100K+ compounds coming in 2025!
#OpenData #CellPainting #DrugDiscovery