Christophe Zimmer
@chzimmer.bsky.social
Computational biophysicist @ University of Würzburg (Germany) and @ Institut Pasteur (France). Machine Biophotonics Lab (Würzburg). Imaging and Modeling Unit (Paris). Advanced imaging, deep learning in biology, drug discovery.
Pinned
** Now seeking postdocs **
Join our interdisciplinary and transnational team in Würzburg (Germany) or Paris (France) to drive projects in translational biology and antibiotic drug discovery.
Backgrounds in computational biology, AI, physics, or microbiology are all welcome. Please spread the word.
Join our interdisciplinary and transnational team in Würzburg (Germany) or Paris (France) to drive projects in translational biology and antibiotic drug discovery.
Backgrounds in computational biology, AI, physics, or microbiology are all welcome. Please spread the word.
Reposted by Christophe Zimmer
If you're interested in developing an open-source image analysis platform/plugin to profile bacteria with deep learning while living in the beautiful city of Paris 🇫🇷, check out this job ad from the @chzimmer.bsky.social lab @pasteur.fr
research.pasteur.fr/fr/job/open-...
research.pasteur.fr/fr/job/open-...
Open-Source Developer for Deep Learning Antibiotic Discovery Platform - Research
Introduction Antimicrobial resistance (AMR) is one of the most urgent global health threats projected to cause up to 10 million deaths per year by 2050. The AI4AMR project brings together teams from I...
research.pasteur.fr
November 15, 2025 at 9:22 AM
If you're interested in developing an open-source image analysis platform/plugin to profile bacteria with deep learning while living in the beautiful city of Paris 🇫🇷, check out this job ad from the @chzimmer.bsky.social lab @pasteur.fr
research.pasteur.fr/fr/job/open-...
research.pasteur.fr/fr/job/open-...
Reposted by Christophe Zimmer
We are hiring a postdoc to build open-source tools for deep learning–based antibiotic discovery in @chzimmer.bsky.social lab at Institut Pasteur.
Part of the AI4AMR consortium with HZI and University of Würzburg.
Details: research.pasteur.fr/fr/job/open-...
Part of the AI4AMR consortium with HZI and University of Würzburg.
Details: research.pasteur.fr/fr/job/open-...
Open-Source Developer for Deep Learning Antibiotic Discovery Platform - Research
Introduction Antimicrobial resistance (AMR) is one of the most urgent global health threats projected to cause up to 10 million deaths per year by 2050. The AI4AMR project brings together teams from I...
research.pasteur.fr
November 13, 2025 at 11:45 AM
We are hiring a postdoc to build open-source tools for deep learning–based antibiotic discovery in @chzimmer.bsky.social lab at Institut Pasteur.
Part of the AI4AMR consortium with HZI and University of Würzburg.
Details: research.pasteur.fr/fr/job/open-...
Part of the AI4AMR consortium with HZI and University of Würzburg.
Details: research.pasteur.fr/fr/job/open-...
Reposted by Christophe Zimmer
Europe has a chance to shape a safer and more values-aligned future for AI innovation, and needs to. This was my main message at the AI in Science Summit in Copenhagen today.
I also presented Scientist AI, LawZero's approach to create technical guardrails and help accelerate scientific discovery.
I also presented Scientist AI, LawZero's approach to create technical guardrails and help accelerate scientific discovery.
November 3, 2025 at 5:22 PM
Europe has a chance to shape a safer and more values-aligned future for AI innovation, and needs to. This was my main message at the AI in Science Summit in Copenhagen today.
I also presented Scientist AI, LawZero's approach to create technical guardrails and help accelerate scientific discovery.
I also presented Scientist AI, LawZero's approach to create technical guardrails and help accelerate scientific discovery.
Reposted by Christophe Zimmer
Two group leader positions available in the broader areas of RNA science, RNA technologies, and RNA medicine. Attractive packages and a great environment. Come and join us at Helmholtz RNA Würzburg, Bavaria.
October 8, 2025 at 9:45 PM
Two group leader positions available in the broader areas of RNA science, RNA technologies, and RNA medicine. Attractive packages and a great environment. Come and join us at Helmholtz RNA Würzburg, Bavaria.
** Now seeking postdocs **
Join our interdisciplinary and transnational team in Würzburg (Germany) or Paris (France) to drive projects in translational biology and antibiotic drug discovery.
Backgrounds in computational biology, AI, physics, or microbiology are all welcome. Please spread the word.
Join our interdisciplinary and transnational team in Würzburg (Germany) or Paris (France) to drive projects in translational biology and antibiotic drug discovery.
Backgrounds in computational biology, AI, physics, or microbiology are all welcome. Please spread the word.
October 5, 2025 at 9:48 PM
** Now seeking postdocs **
Join our interdisciplinary and transnational team in Würzburg (Germany) or Paris (France) to drive projects in translational biology and antibiotic drug discovery.
Backgrounds in computational biology, AI, physics, or microbiology are all welcome. Please spread the word.
Join our interdisciplinary and transnational team in Würzburg (Germany) or Paris (France) to drive projects in translational biology and antibiotic drug discovery.
Backgrounds in computational biology, AI, physics, or microbiology are all welcome. Please spread the word.
great collaboration with the team of Arnaud Fontanet and Laurent Coudeville, spearheaded by Gaston Bizel-Bizellot, Simon Galmiche and Benoît Lelandais, with help from Tiffany Charmet and enabled by a grant from Sanofi.
#llm #nlp #epidemiology #covid-19 @pasteur.fr @uni-wuerzburg.de
3/3
#llm #nlp #epidemiology #covid-19 @pasteur.fr @uni-wuerzburg.de
3/3
July 6, 2025 at 1:47 PM
great collaboration with the team of Arnaud Fontanet and Laurent Coudeville, spearheaded by Gaston Bizel-Bizellot, Simon Galmiche and Benoît Lelandais, with help from Tiffany Charmet and enabled by a grant from Sanofi.
#llm #nlp #epidemiology #covid-19 @pasteur.fr @uni-wuerzburg.de
3/3
#llm #nlp #epidemiology #covid-19 @pasteur.fr @uni-wuerzburg.de
3/3
We took advantage of an online survey conducted during the Covid-19 crisis (ComCor), which yielded a data set of millions of words, with ground-truth labels for each individual. We propose that like-minded methods may speed up our understanding of future pandemics and public health responses.
2/n
2/n
July 6, 2025 at 1:45 PM
We took advantage of an online survey conducted during the Covid-19 crisis (ComCor), which yielded a data set of millions of words, with ground-truth labels for each individual. We propose that like-minded methods may speed up our understanding of future pandemics and public health responses.
2/n
2/n
Finally out, our paper on natural language processing for epidemiology:
www.nature.com/articles/s41...
We show how large language models can help determine circumstances of pathogen transmission by extracting epidemiologically relevant information from free text.
1/n
www.nature.com/articles/s41...
We show how large language models can help determine circumstances of pathogen transmission by extracting epidemiologically relevant information from free text.
1/n
July 6, 2025 at 1:43 PM
Finally out, our paper on natural language processing for epidemiology:
www.nature.com/articles/s41...
We show how large language models can help determine circumstances of pathogen transmission by extracting epidemiologically relevant information from free text.
1/n
www.nature.com/articles/s41...
We show how large language models can help determine circumstances of pathogen transmission by extracting epidemiologically relevant information from free text.
1/n
Reposted by Christophe Zimmer
Choose Science. Choose Europe.
A new Marie Skłodowska-Curie Actions Postdoctoral Fellowships 2025 call is now open.
With a budget of €404.3 million, it will support around 1,650 researchers from Europe and beyond.
Apply by 10 September → europa.eu/!fBTMgF
A new Marie Skłodowska-Curie Actions Postdoctoral Fellowships 2025 call is now open.
With a budget of €404.3 million, it will support around 1,650 researchers from Europe and beyond.
Apply by 10 September → europa.eu/!fBTMgF
May 8, 2025 at 10:12 AM
Choose Science. Choose Europe.
A new Marie Skłodowska-Curie Actions Postdoctoral Fellowships 2025 call is now open.
With a budget of €404.3 million, it will support around 1,650 researchers from Europe and beyond.
Apply by 10 September → europa.eu/!fBTMgF
A new Marie Skłodowska-Curie Actions Postdoctoral Fellowships 2025 call is now open.
With a budget of €404.3 million, it will support around 1,650 researchers from Europe and beyond.
Apply by 10 September → europa.eu/!fBTMgF
Reposted by Christophe Zimmer
First preprint from my PhD is now online! We show that deep learning can recognise modes of action of antibiotics directly from brightfield images of bacteria. 🦠
Deep learning recognises antibiotic modes of action from brightfield images https://www.biorxiv.org/content/10.1101/2025.03.30.645928v1
April 1, 2025 at 8:22 AM
First preprint from my PhD is now online! We show that deep learning can recognise modes of action of antibiotics directly from brightfield images of bacteria. 🦠
Please spread the word or apply with a motivation letter, CV and the contact details of three references.
You can also approach us in person at the “AI in Drug Discovery and Biomedicine” in Barcelona until tomorrow.
You can also approach us in person at the “AI in Drug Discovery and Biomedicine” in Barcelona until tomorrow.
April 1, 2025 at 9:49 AM
Please spread the word or apply with a motivation letter, CV and the contact details of three references.
You can also approach us in person at the “AI in Drug Discovery and Biomedicine” in Barcelona until tomorrow.
You can also approach us in person at the “AI in Drug Discovery and Biomedicine” in Barcelona until tomorrow.
We are now looking for postdocs or PhD students with expertise in :
- metabolomics (Boneca team)
- chemical biology and medicinal chemistry (Brönstrup team)
- computational biology, AI, physics or related fields (Zimmer team).
- metabolomics (Boneca team)
- chemical biology and medicinal chemistry (Brönstrup team)
- computational biology, AI, physics or related fields (Zimmer team).
April 1, 2025 at 9:48 AM
We are now looking for postdocs or PhD students with expertise in :
- metabolomics (Boneca team)
- chemical biology and medicinal chemistry (Brönstrup team)
- computational biology, AI, physics or related fields (Zimmer team).
- metabolomics (Boneca team)
- chemical biology and medicinal chemistry (Brönstrup team)
- computational biology, AI, physics or related fields (Zimmer team).
AI4AMR is a collaboration between the labs of Ivo Boneca (microbiology, Institut Pasteur, Paris), Mark Brönstrup (chemistry, Helmholtz Center for Infection Research, Braunschweig) & Christophe Zimmer (computational biology, Univ. of Würzburg and Institut Pasteur).
April 1, 2025 at 9:47 AM
AI4AMR is a collaboration between the labs of Ivo Boneca (microbiology, Institut Pasteur, Paris), Mark Brönstrup (chemistry, Helmholtz Center for Infection Research, Braunschweig) & Christophe Zimmer (computational biology, Univ. of Würzburg and Institut Pasteur).
Building an AI pipeline to accelerate antibiotic drug discovery
(before the Sagrada Familia is completed)
Today is the official start of our ERC Synergy project (AI4AMR) on building an AI-based pipeline to help find new antibiotics against drug-resistant bacteria.
(before the Sagrada Familia is completed)
Today is the official start of our ERC Synergy project (AI4AMR) on building an AI-based pipeline to help find new antibiotics against drug-resistant bacteria.
April 1, 2025 at 9:43 AM
Building an AI pipeline to accelerate antibiotic drug discovery
(before the Sagrada Familia is completed)
Today is the official start of our ERC Synergy project (AI4AMR) on building an AI-based pipeline to help find new antibiotics against drug-resistant bacteria.
(before the Sagrada Familia is completed)
Today is the official start of our ERC Synergy project (AI4AMR) on building an AI-based pipeline to help find new antibiotics against drug-resistant bacteria.
Reposted by Christophe Zimmer
🌟 Join Institut Pasteur as a Junior Research Group Leader 🌟
Explore host-microbe interactions in key areas like vaccinology, infectious diseases, neuro-immunology, and maternal health.
📅 Deadline: Feb 28, 2025 (few weeks left!)
Apply now ⬇️
Explore host-microbe interactions in key areas like vaccinology, infectious diseases, neuro-immunology, and maternal health.
📅 Deadline: Feb 28, 2025 (few weeks left!)
Apply now ⬇️
Call for applications 2025 - Creation of new research groups at the Institut Pasteur - Research
The Institut Pasteur launches an international call to recruit new junior research group leaders in the application of cutting-edge transdisciplinary approaches to the exploration of host-microbe, tis...
research.pasteur.fr
February 14, 2025 at 8:55 AM
🌟 Join Institut Pasteur as a Junior Research Group Leader 🌟
Explore host-microbe interactions in key areas like vaccinology, infectious diseases, neuro-immunology, and maternal health.
📅 Deadline: Feb 28, 2025 (few weeks left!)
Apply now ⬇️
Explore host-microbe interactions in key areas like vaccinology, infectious diseases, neuro-immunology, and maternal health.
📅 Deadline: Feb 28, 2025 (few weeks left!)
Apply now ⬇️
Reposted by Christophe Zimmer
The Institut Pasteur has decided to leave X (formerly Twitter) to join BlueSky! 🦋
The Institut Pasteur made this decision due to several serious issues observed on the X platform since its acquisition. Join us here to continue advocating for science. www.pasteur.fr/en/home/pres...
The Institut Pasteur made this decision due to several serious issues observed on the X platform since its acquisition. Join us here to continue advocating for science. www.pasteur.fr/en/home/pres...
Institut Pasteur decides to leave X
The Institut Pasteur, a research organization which for more than 130 years has been committed to tackling infectious diseases, sharing knowledge and defending science, has decided to leave X because ...
www.pasteur.fr
January 16, 2025 at 9:18 AM
The Institut Pasteur has decided to leave X (formerly Twitter) to join BlueSky! 🦋
The Institut Pasteur made this decision due to several serious issues observed on the X platform since its acquisition. Join us here to continue advocating for science. www.pasteur.fr/en/home/pres...
The Institut Pasteur made this decision due to several serious issues observed on the X platform since its acquisition. Join us here to continue advocating for science. www.pasteur.fr/en/home/pres...
Reposted by Christophe Zimmer
Delighted to launch our activities on Bluesky with this great news: Our researchers @sauer-lab.bsky.social show in @science.org, how therapeutic #antibodies interact with B cells – thanks to an innovative method of super-resolution microscopy. Congratulations!
➡️ www.uni-wuerzburg.de/en/news-and-...
➡️ www.uni-wuerzburg.de/en/news-and-...
January 10, 2025 at 11:04 AM
Delighted to launch our activities on Bluesky with this great news: Our researchers @sauer-lab.bsky.social show in @science.org, how therapeutic #antibodies interact with B cells – thanks to an innovative method of super-resolution microscopy. Congratulations!
➡️ www.uni-wuerzburg.de/en/news-and-...
➡️ www.uni-wuerzburg.de/en/news-and-...
Reposted by Christophe Zimmer
Sometimes the grass is indeed greener – and the sky is blue!
We are ending activities on X and joining bluesky.
➡️https://go.uniwue.de/exit
➡️https://idw-online.de/de/news845520
We are ending activities on X and joining bluesky.
➡️https://go.uniwue.de/exit
➡️https://idw-online.de/de/news845520
January 10, 2025 at 9:30 AM
Sometimes the grass is indeed greener – and the sky is blue!
We are ending activities on X and joining bluesky.
➡️https://go.uniwue.de/exit
➡️https://idw-online.de/de/news845520
We are ending activities on X and joining bluesky.
➡️https://go.uniwue.de/exit
➡️https://idw-online.de/de/news845520
Reposted by Christophe Zimmer
Very glad to see our story on the choreography of #ESCRT proteins in #archaeal cell division finally published in mBio - Junfeng Liu et al "A relay race of ESCRT-III paralogs drives cell division in a hyperthermophilic archaeon" journals.asm.org/doi/10.1128/...
December 21, 2024 at 6:46 PM
Very glad to see our story on the choreography of #ESCRT proteins in #archaeal cell division finally published in mBio - Junfeng Liu et al "A relay race of ESCRT-III paralogs drives cell division in a hyperthermophilic archaeon" journals.asm.org/doi/10.1128/...
Reposted by Christophe Zimmer
We are opening a call for applications 2025 – Creation of new junior research groups at the Institut Pasteur in Paris @pasteur.fr all details on our web site : research.pasteur.fr/en/call/call...
Call for applications 2025 – Creation of new research groups at the Institut Pasteur | Research - Institut Pasteur
research.pasteur.fr
December 8, 2024 at 3:04 PM
We are opening a call for applications 2025 – Creation of new junior research groups at the Institut Pasteur in Paris @pasteur.fr all details on our web site : research.pasteur.fr/en/call/call...
Reposted by Christophe Zimmer
🔊 Exciting AI Research Opportunity! my team at @czbiohub SF is hiring a Research Scientist to develop foundational AI models for BioImage analysis. Join us to work on cutting-edge ML/CV! 💻🔬🧪🧠
#AIJobs #ML
job-boards.greenhouse.io/chanzuckerbe...
#AIJobs #ML
job-boards.greenhouse.io/chanzuckerbe...
November 26, 2024 at 3:01 AM
🔊 Exciting AI Research Opportunity! my team at @czbiohub SF is hiring a Research Scientist to develop foundational AI models for BioImage analysis. Join us to work on cutting-edge ML/CV! 💻🔬🧪🧠
#AIJobs #ML
job-boards.greenhouse.io/chanzuckerbe...
#AIJobs #ML
job-boards.greenhouse.io/chanzuckerbe...
Reposted by Christophe Zimmer
We' re #hiring a #postdoc in my team at @pasteur.fr and @cnrs.bsky.social funded by Institut PRAIRIE to work on the inference of molecular mechanisms from the integration of spatial transcriptomics and #singlecell multi-omics data.
Learn more at emploi.cnrs.fr/Offres/CDD/U...
Learn more at emploi.cnrs.fr/Offres/CDD/U...
Portail Emploi CNRS - Offre d'emploi - Post-doctorat (H/F) en développement de méthodes d'apprentissage automatique pour les données omiques unicellulaires
emploi.cnrs.fr
November 27, 2024 at 11:47 AM
We' re #hiring a #postdoc in my team at @pasteur.fr and @cnrs.bsky.social funded by Institut PRAIRIE to work on the inference of molecular mechanisms from the integration of spatial transcriptomics and #singlecell multi-omics data.
Learn more at emploi.cnrs.fr/Offres/CDD/U...
Learn more at emploi.cnrs.fr/Offres/CDD/U...
Reposted by Christophe Zimmer
Can colleagues amplify this appeal to journals and journal editors to open accounts on Bluesky, please? @MicrobioSoc @TrendsMicrobiol @CellCellPress @JBacteriology @jbiolchem @Nature @ScienceMagazine @PNASNews @MolMicroEditors @NAR_Open @NatureMicrobiol @NatureComms @ASMicrobiology 🙏
🦠🧪🧫🧬
🦠🧪🧫🧬
November 10, 2024 at 1:13 PM
Can colleagues amplify this appeal to journals and journal editors to open accounts on Bluesky, please? @MicrobioSoc @TrendsMicrobiol @CellCellPress @JBacteriology @jbiolchem @Nature @ScienceMagazine @PNASNews @MolMicroEditors @NAR_Open @NatureMicrobiol @NatureComms @ASMicrobiology 🙏
🦠🧪🧫🧬
🦠🧪🧫🧬
Reposted by Christophe Zimmer
Unique opportunity to become Scientific Director @institutpasteur.bsky.social 🧪🎓🔬🥼
research.pasteur.fr/en/job/insti...
#academicsky #job #science
research.pasteur.fr/en/job/insti...
#academicsky #job #science
The Institut Pasteur is looking for a Scientific Director | Research - Institut Pasteur
research.pasteur.fr
November 21, 2024 at 8:25 AM
Unique opportunity to become Scientific Director @institutpasteur.bsky.social 🧪🎓🔬🥼
research.pasteur.fr/en/job/insti...
#academicsky #job #science
research.pasteur.fr/en/job/insti...
#academicsky #job #science
Reposted by Christophe Zimmer
A Perspective in Nature suggests that the temperature goals of the Paris Agreement may not be met if passive CO2 uptake is counted as a removal when calculating total anthropogenic emissions. go.nature.com/40UDgYw 🧪
November 18, 2024 at 8:21 PM
A Perspective in Nature suggests that the temperature goals of the Paris Agreement may not be met if passive CO2 uptake is counted as a removal when calculating total anthropogenic emissions. go.nature.com/40UDgYw 🧪