Tanja Stadler
@tanjastadler.bsky.social
Full professor for Computational Evolution at ETH Zürich
Reposted by Tanja Stadler
Thrilled & honoured to have run the first @pathoplexus.org workshop with @chaoranchen.de @pagasi.bsky.social @kanyerezi30.bsky.social & Arthur Shem Kasambula at @pha4ge.bsky.social on Saturday! 🎉🤝
A fantastic turnout & wonderful time spent with curious users!
A fantastic turnout & wonderful time spent with curious users!
October 27, 2025 at 7:58 AM
Thrilled & honoured to have run the first @pathoplexus.org workshop with @chaoranchen.de @pagasi.bsky.social @kanyerezi30.bsky.social & Arthur Shem Kasambula at @pha4ge.bsky.social on Saturday! 🎉🤝
A fantastic turnout & wonderful time spent with curious users!
A fantastic turnout & wonderful time spent with curious users!
Reposted by Tanja Stadler
New Paper🚀! Our work analysing the Swiss national SARS-CoV-2 wastewater 🚱 monitoring data is now published in PLOS Water 💧 @plos.org journals.plos.org/water/articl... (Julien Riou, @tanjastadler.bsky.social @trj2.bsky.social Christoph Ort et al)
November 4, 2025 at 1:39 PM
New Paper🚀! Our work analysing the Swiss national SARS-CoV-2 wastewater 🚱 monitoring data is now published in PLOS Water 💧 @plos.org journals.plos.org/water/articl... (Julien Riou, @tanjastadler.bsky.social @trj2.bsky.social Christoph Ort et al)
Open position at the Swiss Institute of Bioinformatics:
We are looking for a Director of the Center of Pathogen Bioinformatics
apply.refline.ch/499599/0346/...
I am in the Center's steering board together with fantastic colleagues (Emma Hodcroft @firefoxx66.bsky.social, Richard Neher @neher.io, and
We are looking for a Director of the Center of Pathogen Bioinformatics
apply.refline.ch/499599/0346/...
I am in the Center's steering board together with fantastic colleagues (Emma Hodcroft @firefoxx66.bsky.social, Richard Neher @neher.io, and
Director, Center for Pathogen Bioinformatics
The Centre for Pathogen Bioinformatics (CPB) is a unit of SIB which offers expertise and services in pathogen bioinformatics, computational molecular epidemiology and related multi-site project manage...
apply.refline.ch
October 25, 2025 at 1:03 PM
Open position at the Swiss Institute of Bioinformatics:
We are looking for a Director of the Center of Pathogen Bioinformatics
apply.refline.ch/499599/0346/...
I am in the Center's steering board together with fantastic colleagues (Emma Hodcroft @firefoxx66.bsky.social, Richard Neher @neher.io, and
We are looking for a Director of the Center of Pathogen Bioinformatics
apply.refline.ch/499599/0346/...
I am in the Center's steering board together with fantastic colleagues (Emma Hodcroft @firefoxx66.bsky.social, Richard Neher @neher.io, and
We are excited to announce the Latsis Symposium 2026: The history of epidemics – are there lessons for the future? latsis-epidemics.ethz.ch
We have a great lineup of international speakers - true leaders in this field. The symposium is held at ETH Zürich, Switzerland, from the (1/2)
We have a great lineup of international speakers - true leaders in this field. The symposium is held at ETH Zürich, Switzerland, from the (1/2)
Homepage
Latsis Symposium 2026: The history of epidemics - are there lessons for the future?
latsis-epidemics.ethz.ch
October 25, 2025 at 12:53 PM
We are excited to announce the Latsis Symposium 2026: The history of epidemics – are there lessons for the future? latsis-epidemics.ethz.ch
We have a great lineup of international speakers - true leaders in this field. The symposium is held at ETH Zürich, Switzerland, from the (1/2)
We have a great lineup of international speakers - true leaders in this field. The symposium is held at ETH Zürich, Switzerland, from the (1/2)
Reposted by Tanja Stadler
Tanja Stadler @tanjastadler.bsky.social @ethz.ch awarded prestigious #DoronPrize for pioneering work in computational evolution and public health. Big congrats, Tanja!
> u.ethz.ch/IxSY8
> u.ethz.ch/IxSY8
October 13, 2025 at 11:29 AM
Tanja Stadler @tanjastadler.bsky.social @ethz.ch awarded prestigious #DoronPrize for pioneering work in computational evolution and public health. Big congrats, Tanja!
> u.ethz.ch/IxSY8
> u.ethz.ch/IxSY8
Reposted by Tanja Stadler
AI is revolutionising palaeontology | New @NatureRev paper by @ethz.ch & UZH shows how #AI tools are transforming the analysis of complex fossil data and evolutionary patterns – unlocking new insights across deep time > u.ethz.ch/BjDtR
@tanjastadler.bsky.social
@tanjastadler.bsky.social
August 26, 2025 at 1:44 PM
AI is revolutionising palaeontology | New @NatureRev paper by @ethz.ch & UZH shows how #AI tools are transforming the analysis of complex fossil data and evolutionary patterns – unlocking new insights across deep time > u.ethz.ch/BjDtR
@tanjastadler.bsky.social
@tanjastadler.bsky.social
Reposted by Tanja Stadler
🗓 Pathoplexus turns ONE! 🎂🎉
In the past year we’ve grown from 4 pathogens to a truly global, community-driven platform for transparent, equitable & impactful pathogen sequence sharing.
📰 Read the full update: pathoplexus.org/news/2025-08...
1/10
In the past year we’ve grown from 4 pathogens to a truly global, community-driven platform for transparent, equitable & impactful pathogen sequence sharing.
📰 Read the full update: pathoplexus.org/news/2025-08...
1/10
August 27, 2025 at 3:57 PM
🗓 Pathoplexus turns ONE! 🎂🎉
In the past year we’ve grown from 4 pathogens to a truly global, community-driven platform for transparent, equitable & impactful pathogen sequence sharing.
📰 Read the full update: pathoplexus.org/news/2025-08...
1/10
In the past year we’ve grown from 4 pathogens to a truly global, community-driven platform for transparent, equitable & impactful pathogen sequence sharing.
📰 Read the full update: pathoplexus.org/news/2025-08...
1/10
Reposted by Tanja Stadler
Loculus, an open-source software for building pathogen sequencing databases, is on the shortlist for #SIBRemarkableOutputs 2024. It’s a joint project by the teams of @neher.io, @tanjastadler.bsky.social and @firefoxx66.bsky.social xx66.bsky.social. Congratulations!
💡 The SIB Remarkable Outputs 2024 are out !
This shortlist of the most outstanding works produced by SIB members in 2024 showcase the latest advances in the Swiss bioinformatics field. Attend their presentations at [BC]2!
👉 Discover this shortlist of outstanding works
www.sib.swiss/remarkable-o...
This shortlist of the most outstanding works produced by SIB members in 2024 showcase the latest advances in the Swiss bioinformatics field. Attend their presentations at [BC]2!
👉 Discover this shortlist of outstanding works
www.sib.swiss/remarkable-o...
August 4, 2025 at 2:00 PM
Loculus, an open-source software for building pathogen sequencing databases, is on the shortlist for #SIBRemarkableOutputs 2024. It’s a joint project by the teams of @neher.io, @tanjastadler.bsky.social and @firefoxx66.bsky.social xx66.bsky.social. Congratulations!
Reposted by Tanja Stadler
Vaughan & @tanjastadler.bsky.social develop a method to infer multitype population trajectories and apply it to MERS-CoV, revealing transmission patterns between camels and humans.
🔗 doi.org/10.1093/molbev/msaf130
#evobio #molbio #virus
🔗 doi.org/10.1093/molbev/msaf130
#evobio #molbio #virus
Bayesian Phylodynamic Inference of Multitype Population Trajectories Using Genomic Data
Abstract. Phylodynamic methods provide a coherent framework for the inference of population parameters directly from genetic data. They are an important to
doi.org
June 17, 2025 at 2:29 PM
Vaughan & @tanjastadler.bsky.social develop a method to infer multitype population trajectories and apply it to MERS-CoV, revealing transmission patterns between camels and humans.
🔗 doi.org/10.1093/molbev/msaf130
#evobio #molbio #virus
🔗 doi.org/10.1093/molbev/msaf130
#evobio #molbio #virus
In this project led by James Munday, we quantified the post-sampling degradation of viral RNA in wastewater. Taking into account this degradation is core towards unbiased quantification of epidemiological dynamics based on wastewater data.
We have a new preprint 📝 *Post-sampling degradation of viral RNA in wastewater impacts the quality of PCR-based concentration estimates* Now on bioRxiv doi.org/10.1101/2025... with @tanjastadler.bsky.social, trj2.bsky.social, Christoph Ort and others
Post-sampling degradation of viral RNA in wastewater impacts the quality of PCR-based concentration estimates
Successful wastewater-based infectious disease surveillance programs depend on regular, reliable molecular detection of nucleic acids in municipal wastewater systems. This process is challenged by the...
doi.org
June 17, 2025 at 11:11 AM
In this project led by James Munday, we quantified the post-sampling degradation of viral RNA in wastewater. Taking into account this degradation is core towards unbiased quantification of epidemiological dynamics based on wastewater data.
Reposted by Tanja Stadler
We have a new preprint 📝 *Post-sampling degradation of viral RNA in wastewater impacts the quality of PCR-based concentration estimates* Now on bioRxiv doi.org/10.1101/2025... with @tanjastadler.bsky.social, trj2.bsky.social, Christoph Ort and others
Post-sampling degradation of viral RNA in wastewater impacts the quality of PCR-based concentration estimates
Successful wastewater-based infectious disease surveillance programs depend on regular, reliable molecular detection of nucleic acids in municipal wastewater systems. This process is challenged by the...
doi.org
June 9, 2025 at 9:05 AM
We have a new preprint 📝 *Post-sampling degradation of viral RNA in wastewater impacts the quality of PCR-based concentration estimates* Now on bioRxiv doi.org/10.1101/2025... with @tanjastadler.bsky.social, trj2.bsky.social, Christoph Ort and others
Reposted by Tanja Stadler
📢Today Pathoplexus announces the inclusion of 2 new viral pathogens: RSV (A & B) and HMPV.
These respiratory viruses cause a serious health burden, particularly in infants & the vulnerable, & Pathoplexus aims to support sequence sharing to improve understanding & response.
1/4
These respiratory viruses cause a serious health burden, particularly in infants & the vulnerable, & Pathoplexus aims to support sequence sharing to improve understanding & response.
1/4
May 22, 2025 at 4:06 PM
📢Today Pathoplexus announces the inclusion of 2 new viral pathogens: RSV (A & B) and HMPV.
These respiratory viruses cause a serious health burden, particularly in infants & the vulnerable, & Pathoplexus aims to support sequence sharing to improve understanding & response.
1/4
These respiratory viruses cause a serious health burden, particularly in infants & the vulnerable, & Pathoplexus aims to support sequence sharing to improve understanding & response.
1/4
Drei aus meiner Sicht zentrale Herausforderungen für die Bildungs-, Forschung- und Innovations-Landschaft der Schweiz: wissenschaftsrat.ch/blog/die-gro...: Blog Beitrag zum 60. Geburtstag des Schweizer Wissenschaftsrat, Happy Birthday!
Die grössten Herausforderungen für die BFI-Landschaft bis 2035
wissenschaftsrat.ch
May 14, 2025 at 10:55 AM
Drei aus meiner Sicht zentrale Herausforderungen für die Bildungs-, Forschung- und Innovations-Landschaft der Schweiz: wissenschaftsrat.ch/blog/die-gro...: Blog Beitrag zum 60. Geburtstag des Schweizer Wissenschaftsrat, Happy Birthday!
Reposted by Tanja Stadler
🗓️ Pathoplexus has now been around for 7 months!
And both we and our users have been busy - so we wanted to share some updates & highlights!
📰 You can see our full News Item here: pathoplexus.org/news/2025-04-16-spring-update
1/9
And both we and our users have been busy - so we wanted to share some updates & highlights!
📰 You can see our full News Item here: pathoplexus.org/news/2025-04-16-spring-update
1/9
Pathoplexus | Pathoplexus Spring Update
Pathoplexus is a new, open-source database dedicated to the efficient sharing of human viral pathogen genomic data, fostering global collaboration and public health response.
pathoplexus.org
April 16, 2025 at 3:47 PM
🗓️ Pathoplexus has now been around for 7 months!
And both we and our users have been busy - so we wanted to share some updates & highlights!
📰 You can see our full News Item here: pathoplexus.org/news/2025-04-16-spring-update
1/9
And both we and our users have been busy - so we wanted to share some updates & highlights!
📰 You can see our full News Item here: pathoplexus.org/news/2025-04-16-spring-update
1/9
Reposted by Tanja Stadler
Thank you, @tanjastadler.bsky.social, for your great efforts during the #Covid19 pandemic! Watch the Switzerland-Germany comparison on measures 5 years after the breakout of #SarsCoV2 on @zdfde.bsky.social
>
www.zdf.de/play/magazin...
>
www.zdf.de/play/magazin...
Corona-Politik: Deutschland vs. Schweiz
Die Corona-Politik in Deutschland und der Schweiz fiel unterschiedlich aus. Welches Land kam mit seinen Maßnahmen besser durch die Pandemie?
www.zdf.de
March 24, 2025 at 9:05 AM
Thank you, @tanjastadler.bsky.social, for your great efforts during the #Covid19 pandemic! Watch the Switzerland-Germany comparison on measures 5 years after the breakout of #SarsCoV2 on @zdfde.bsky.social
>
www.zdf.de/play/magazin...
>
www.zdf.de/play/magazin...
I first read the famous 1925 Yule paper at its 80th birthday - during my Master thesis work, and it shaped my research profoundly. It was a pleasure and honour to lead this special 100 anniversary issue celebrating Yule's legacy and phylogenetic models with @noahrosenberg.bsky.social and Mike Steel!
A mathematical theory of evolution: phylogenetic models dating back 100 years—a new #PhilTransB theme issue describes recent developments in models of #evolutionary trees and networks, and in #phylogenetic modeling for applications in biology: https://buff.ly/41r1wkR @tanjastadler.bsky.social
buff.ly
February 21, 2025 at 8:46 AM
I first read the famous 1925 Yule paper at its 80th birthday - during my Master thesis work, and it shaped my research profoundly. It was a pleasure and honour to lead this special 100 anniversary issue celebrating Yule's legacy and phylogenetic models with @noahrosenberg.bsky.social and Mike Steel!
Reposted by Tanja Stadler
A mathematical theory of evolution: phylogenetic models dating back 100 years—a new #PhilTransB theme issue describes recent developments in models of #evolutionary trees and networks, and in #phylogenetic modeling for applications in biology: https://buff.ly/41r1wkR @tanjastadler.bsky.social
buff.ly
February 21, 2025 at 8:33 AM
A mathematical theory of evolution: phylogenetic models dating back 100 years—a new #PhilTransB theme issue describes recent developments in models of #evolutionary trees and networks, and in #phylogenetic modeling for applications in biology: https://buff.ly/41r1wkR @tanjastadler.bsky.social
Quantification of developmental processes (here early Danio rerio development) with our novel Bayesian phylogenetic methodology - leveraging single cell lineage tracing data based on CRISPR/Cas9 technology royalsocietypublishing.org/doi/10.1098/... Antoine Zwaans @seidels.bsky.social Marc Manceau
A Bayesian phylodynamic inference framework for single-cell CRISPR/Cas9 lineage tracing barcode data with dependent target sites | Philosophical Transactions of the Royal Society B: Biological Sciences
Analysing single-cell lineage relationships of an organism is crucial towards understanding the fundamental cellular dynamics that drive development. Clustered regularly interspaced short palindromic repeats (CRISPR)-based dynamic lineage tracing relies ...
royalsocietypublishing.org
February 21, 2025 at 8:37 AM
Quantification of developmental processes (here early Danio rerio development) with our novel Bayesian phylogenetic methodology - leveraging single cell lineage tracing data based on CRISPR/Cas9 technology royalsocietypublishing.org/doi/10.1098/... Antoine Zwaans @seidels.bsky.social Marc Manceau
Reposted by Tanja Stadler
Featured article: The lives of cells, recorded
go.nature.com/4g2gRwG by Amjad Askary, Wei Chen, @choijunhong.bsky.social, Lucia Y. Du, @elowitzlab.bsky.social, @james-gagnon.bsky.social, @schierlab.bsky.social, @seidels.bsky.social, @jshendure.bsky.social, @tanjastadler.bsky.social & Martin Tran
go.nature.com/4g2gRwG by Amjad Askary, Wei Chen, @choijunhong.bsky.social, Lucia Y. Du, @elowitzlab.bsky.social, @james-gagnon.bsky.social, @schierlab.bsky.social, @seidels.bsky.social, @jshendure.bsky.social, @tanjastadler.bsky.social & Martin Tran
February 20, 2025 at 4:51 PM
Featured article: The lives of cells, recorded
go.nature.com/4g2gRwG by Amjad Askary, Wei Chen, @choijunhong.bsky.social, Lucia Y. Du, @elowitzlab.bsky.social, @james-gagnon.bsky.social, @schierlab.bsky.social, @seidels.bsky.social, @jshendure.bsky.social, @tanjastadler.bsky.social & Martin Tran
go.nature.com/4g2gRwG by Amjad Askary, Wei Chen, @choijunhong.bsky.social, Lucia Y. Du, @elowitzlab.bsky.social, @james-gagnon.bsky.social, @schierlab.bsky.social, @seidels.bsky.social, @jshendure.bsky.social, @tanjastadler.bsky.social & Martin Tran
Thoughts on how AI can help prepare for the next pandemic - Thanks for having led this work @mugkraemer.bsky.social Joseph L.-H. Tsui Serina Y. Chang, @sjbhatt.bsky.social - it is an honour to be part of it!
AI is poised to accelerate understanding in infectious diseases, but its value needs to be demonstrated through close collaboration between research, industry, society, and policy.
Paper free to read: rdcu.be/eaxEw
Summary here: www.ox.ac.uk/news/2025-02...
Paper free to read: rdcu.be/eaxEw
Summary here: www.ox.ac.uk/news/2025-02...
Artificial intelligence for modelling infectious disease epidemics
Nature - This Perspective considers the application to infectious disease modelling of AI systems that combine machine learning, computational statistics, information retrieval and data science.
rdcu.be
February 20, 2025 at 1:29 PM
Thoughts on how AI can help prepare for the next pandemic - Thanks for having led this work @mugkraemer.bsky.social Joseph L.-H. Tsui Serina Y. Chang, @sjbhatt.bsky.social - it is an honour to be part of it!
SRF - the core Swiss public service journalism stakeholder - plans to majorly cut on science journalism. You can still sign our petition if you think this is problematic openpetition.eu/!sciencejour...
Fakten statt Falschinformationen: Für einen starken Wissenschaftsjournalismus! - Online-Petition
Offener Brief aus der Wissenschaft an SRF Sehr geehrte Direktion der SRG, sehr geehrte Geschäftsleitung von SRF, sehr geehrte Medien- und Wissenschaftspolitiker:innen Mit grosser Besorgnis haben wir z...
openpetition.eu
February 12, 2025 at 9:16 AM
SRF - the core Swiss public service journalism stakeholder - plans to majorly cut on science journalism. You can still sign our petition if you think this is problematic openpetition.eu/!sciencejour...
Major cuts planned in SRF science journalism in Switzerland - the public service media. Scientists today launched a petition ‘Facts Instead of Misinformation: For Strong Science Journalism!’ Become one of over 1,800 signatories www.openpetition.eu/ch/petition/...
Facts Instead of Misinformation: For Strong Science Journalism! - Online-Petition
Open Letter from the Scientific Community to SRF Dear Management of SRG, Dear Executive Board of SRF, Dear Media and Science Policy Makers, We are deeply concerned about SRF’s plans to make significan...
www.openpetition.eu
February 10, 2025 at 8:36 PM
Major cuts planned in SRF science journalism in Switzerland - the public service media. Scientists today launched a petition ‘Facts Instead of Misinformation: For Strong Science Journalism!’ Become one of over 1,800 signatories www.openpetition.eu/ch/petition/...
Starke Kürzungen im SRF Wissenschaftsjournalismus in der Schweiz geplant. WissenschaftlerInnen starteten heute eine Petition "Fakten statt Falschinformationen: Für einen starken Wissenschaftsjournalismus!" Werde eine(r) von bereits über 1'800 UnterzeichnerInnen openpetition.eu/!sciencejour...
Fakten statt Falschinformationen: Für einen starken Wissenschaftsjournalismus! - Online-Petition
Offener Brief aus der Wissenschaft an SRF Sehr geehrte Direktion der SRG, sehr geehrte Geschäftsleitung von SRF, sehr geehrte Medien- und Wissenschaftspolitiker:innen Mit grosser Besorgnis haben wir z...
openpetition.eu
February 10, 2025 at 8:33 PM
Starke Kürzungen im SRF Wissenschaftsjournalismus in der Schweiz geplant. WissenschaftlerInnen starteten heute eine Petition "Fakten statt Falschinformationen: Für einen starken Wissenschaftsjournalismus!" Werde eine(r) von bereits über 1'800 UnterzeichnerInnen openpetition.eu/!sciencejour...
Reposted by Tanja Stadler
Thanks to huge efforts by Uganda’s Central Public Health Laboratory, Uganda Ministry of Health, UVRI, Africa CDC, & SANBI, UWC the sequence from the Ebola Sudan case in Kampala is now available on Pathoplexus pathoplexus.org/seq/PP_0011C... w full analysis here: virological.org/t/near-real-...
February 5, 2025 at 2:52 PM
Thanks to huge efforts by Uganda’s Central Public Health Laboratory, Uganda Ministry of Health, UVRI, Africa CDC, & SANBI, UWC the sequence from the Ebola Sudan case in Kampala is now available on Pathoplexus pathoplexus.org/seq/PP_0011C... w full analysis here: virological.org/t/near-real-...
Reposted by Tanja Stadler
First genome sequence from the Ugandan Ebolavirus outbreak with analysis: virological.org/t/990 and first filovirus genome submitted to Pathoplexus database: pathoplexus.org/seq/PP_0011C.... Great (and rapid) work from the National Health Laboratory, UVRI and partners.
Near Real-Time Genomic Characterization of the 2025 Sudan Ebolavirus Outbreak in Uganda’s Index Case: Insights into Evolutionary Origins
Introduction Case History: On January 30, 2025, the Ministry of Health declared an outbreak of Sudan Ebola Virus (SUDV) Disease in Kampala, Uganda, following the death of a healthcare worker at Mula...
virological.org
February 3, 2025 at 4:32 PM
First genome sequence from the Ugandan Ebolavirus outbreak with analysis: virological.org/t/990 and first filovirus genome submitted to Pathoplexus database: pathoplexus.org/seq/PP_0011C.... Great (and rapid) work from the National Health Laboratory, UVRI and partners.