Theoretical Biophysics
@theobiophysics.bsky.social
Theoretical Biophysics, Quantitative Biology
https://sites.google.com/view/theoreticalbiophysics/theoretical-biophysics
Our podcast
https://creators.spotify.com/pod/show/theobiophysics
An online seminar series
https://sites.google.com/view/popdyn/home
https://sites.google.com/view/theoreticalbiophysics/theoretical-biophysics
Our podcast
https://creators.spotify.com/pod/show/theobiophysics
An online seminar series
https://sites.google.com/view/popdyn/home
Pinned
🚨NEWS!
We are organising a new monthly event:
The Young Biophysicists Virtual Meetings
where early career researchers can present their work in a friendly environment. All the info and abstract submission on our website
sites.google.com/view/theoret...
Host by Divya Choudhary and Satyam Anand
We are organising a new monthly event:
The Young Biophysicists Virtual Meetings
where early career researchers can present their work in a friendly environment. All the info and abstract submission on our website
sites.google.com/view/theoret...
Host by Divya Choudhary and Satyam Anand
Reposted by Theoretical Biophysics
🚨 Soon at 15:30 EU (in 1h), Guillaume Salbreux (Geneva University) will present the talk
From active surfaces to evo-devo-mechanobiology
at the Population Dynamics Seminars.
sites.google.com/view/popdyn/
From active surfaces to evo-devo-mechanobiology
at the Population Dynamics Seminars.
sites.google.com/view/popdyn/
November 14, 2025 at 1:36 PM
🚨 Soon at 15:30 EU (in 1h), Guillaume Salbreux (Geneva University) will present the talk
From active surfaces to evo-devo-mechanobiology
at the Population Dynamics Seminars.
sites.google.com/view/popdyn/
From active surfaces to evo-devo-mechanobiology
at the Population Dynamics Seminars.
sites.google.com/view/popdyn/
Reposted by Theoretical Biophysics
What is the most profitable industry in the world, this side of the law? Not oil, not IT, not pharma.
It's *scientific publishing*.
We call this the Drain of Scientific Publishing.
Paper: arxiv.org/abs/2511.04820
Background: doi.org/10.1162/qss_...
Thread @markhanson.fediscience.org.ap.brid.gy 👇
It's *scientific publishing*.
We call this the Drain of Scientific Publishing.
Paper: arxiv.org/abs/2511.04820
Background: doi.org/10.1162/qss_...
Thread @markhanson.fediscience.org.ap.brid.gy 👇
November 12, 2025 at 10:31 AM
What is the most profitable industry in the world, this side of the law? Not oil, not IT, not pharma.
It's *scientific publishing*.
We call this the Drain of Scientific Publishing.
Paper: arxiv.org/abs/2511.04820
Background: doi.org/10.1162/qss_...
Thread @markhanson.fediscience.org.ap.brid.gy 👇
It's *scientific publishing*.
We call this the Drain of Scientific Publishing.
Paper: arxiv.org/abs/2511.04820
Background: doi.org/10.1162/qss_...
Thread @markhanson.fediscience.org.ap.brid.gy 👇
Reposted by Theoretical Biophysics
Can we leverage bacterial competition for targeted replacement of harmful strains? Maybe! Our recent piece in @natmicrobiol.nature.com provides a theoretical framework and a set of experiments to show what it might take: www.nature.com/articles/s41...
Strain displacement in microbiomes via ecological competition - Nature Microbiology
Mathematical modelling and experimental tests reveal principles that govern displacement of a resident strain by an invader in microbial communities.
www.nature.com
November 7, 2025 at 10:34 PM
Can we leverage bacterial competition for targeted replacement of harmful strains? Maybe! Our recent piece in @natmicrobiol.nature.com provides a theoretical framework and a set of experiments to show what it might take: www.nature.com/articles/s41...
Reposted by Theoretical Biophysics
🆕 in "Ecological Monographs": Static models miss the mark—adding nonlinear, density-based facilitation helps predict coexistence, persistence, and realistic community dynamics
📄Neighbor density-dependent facilitation promotes coexistence and internal oscillation
doi.org/10.1002/ecm....
📄Neighbor density-dependent facilitation promotes coexistence and internal oscillation
doi.org/10.1002/ecm....
November 10, 2025 at 7:45 PM
🆕 in "Ecological Monographs": Static models miss the mark—adding nonlinear, density-based facilitation helps predict coexistence, persistence, and realistic community dynamics
📄Neighbor density-dependent facilitation promotes coexistence and internal oscillation
doi.org/10.1002/ecm....
📄Neighbor density-dependent facilitation promotes coexistence and internal oscillation
doi.org/10.1002/ecm....
Reposted by Theoretical Biophysics
🚨 Next Friday 24/11 15:30 EU, Guillaume Salbreux (Geneva University) will present the talk
From active surfaces to evo-devo-mechanobiology
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
From active surfaces to evo-devo-mechanobiology
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
November 10, 2025 at 1:33 PM
🚨 Next Friday 24/11 15:30 EU, Guillaume Salbreux (Geneva University) will present the talk
From active surfaces to evo-devo-mechanobiology
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
From active surfaces to evo-devo-mechanobiology
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
Reposted by Theoretical Biophysics
How can we organize current theoretical approaches for developmental biology - from information to dynamical systems & GRNs - into a common framework?
We propose to think along Marr's 3 levels: computational problem, algorithm, implementation
Check out our review:
arxiv.org/abs/2510.24536
We propose to think along Marr's 3 levels: computational problem, algorithm, implementation
Check out our review:
arxiv.org/abs/2510.24536
November 10, 2025 at 6:46 AM
How can we organize current theoretical approaches for developmental biology - from information to dynamical systems & GRNs - into a common framework?
We propose to think along Marr's 3 levels: computational problem, algorithm, implementation
Check out our review:
arxiv.org/abs/2510.24536
We propose to think along Marr's 3 levels: computational problem, algorithm, implementation
Check out our review:
arxiv.org/abs/2510.24536
Reposted by Theoretical Biophysics
Brückner, D. B., & Tkačik, G. (2024). Information content and optimization of self-organized developmental systems. Proceedings of the National Academy of Sciences, #EpithelialMechanics www.pnas.org/doi/10.1073/...
November 10, 2025 at 8:00 AM
Brückner, D. B., & Tkačik, G. (2024). Information content and optimization of self-organized developmental systems. Proceedings of the National Academy of Sciences, #EpithelialMechanics www.pnas.org/doi/10.1073/...
Reposted by Theoretical Biophysics
interested in mechanobiology and physics of living systems? this is the conference for you! Join us 9-12 June in Heidelberg! with @nicolettapetridou.bsky.social @xaviertrepat.bsky.social Enrique Rojas & Alba Diz-Munoz
Registration OPEN
www.embl.org/about/info/c...
Registration OPEN
www.embl.org/about/info/c...
November 6, 2025 at 11:50 AM
interested in mechanobiology and physics of living systems? this is the conference for you! Join us 9-12 June in Heidelberg! with @nicolettapetridou.bsky.social @xaviertrepat.bsky.social Enrique Rojas & Alba Diz-Munoz
Registration OPEN
www.embl.org/about/info/c...
Registration OPEN
www.embl.org/about/info/c...
Reposted by Theoretical Biophysics
'Beyond Simplifications: Overlooked Physics of Macromolecular Behaviors in Living Cells' from Macromolecules is currently free to read as an #ACSEditorsChoice.
📖 Read the article: buff.ly/fGxe8gE
📖 Read the article: buff.ly/fGxe8gE
November 3, 2025 at 1:02 PM
'Beyond Simplifications: Overlooked Physics of Macromolecular Behaviors in Living Cells' from Macromolecules is currently free to read as an #ACSEditorsChoice.
📖 Read the article: buff.ly/fGxe8gE
📖 Read the article: buff.ly/fGxe8gE
Reposted by Theoretical Biophysics
Reposted by Theoretical Biophysics
#microsky #mevosky @spp2389.bsky.social
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
October 28, 2025 at 8:43 AM
#microsky #mevosky @spp2389.bsky.social
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
Reposted by Theoretical Biophysics
🚨 On Friday 24/10 15:30 EU, Dani Rodríguez Amor (École Normale Supérieure - Paris Sciences et Lettres) will present the talk
Cooperation-driven multistability in synthetic microbial communities
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
Cooperation-driven multistability in synthetic microbial communities
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
October 20, 2025 at 11:27 PM
🚨 On Friday 24/10 15:30 EU, Dani Rodríguez Amor (École Normale Supérieure - Paris Sciences et Lettres) will present the talk
Cooperation-driven multistability in synthetic microbial communities
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
Cooperation-driven multistability in synthetic microbial communities
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
Reposted by Theoretical Biophysics
Apply now to join us for a fully funded #biophysics #internship @mpipks.bsky.social ! What better way to spend your summer?
Fully funded summer #internships in #biophysics @mpipks.bsky.social for Bachelor's and Master's students!
Apply by the 30th of November 2025: www.pks.mpg.de/biophys-inte...
Apply by the 30th of November 2025: www.pks.mpg.de/biophys-inte...
October 20, 2025 at 7:20 AM
Apply now to join us for a fully funded #biophysics #internship @mpipks.bsky.social ! What better way to spend your summer?
Reposted by Theoretical Biophysics
One more open position at the Data Science Centre here! This one is working on our recently open-sourced ELN/LIMS/all-in-one solution LabID (gitlab.com/lab-integrat...). If you have either full stack or scientific workflows experience, check it out! embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
Scientific Developer or Full Stack Developer
The European Molecular Biology Laboratory (EMBL) is a world leader in scientific research and at the forefront in the development of cutting-edge technologies. EMBL core facilities and scientists gene...
embl.wd103.myworkdayjobs.com
October 20, 2025 at 8:06 AM
One more open position at the Data Science Centre here! This one is working on our recently open-sourced ELN/LIMS/all-in-one solution LabID (gitlab.com/lab-integrat...). If you have either full stack or scientific workflows experience, check it out! embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
Reposted by Theoretical Biophysics
📣Tomorrow our next series of online seminars restarts: Chris Klausmeier (MSU) will present:
⭐Microbial cross-feeding: coexistence and collapse, spatial patterns and population cycles⭐
Free and open to all:
Zoom link: iite.info/seminar/
Global Times: www.timeanddate.com/worldclock/f...
⭐Microbial cross-feeding: coexistence and collapse, spatial patterns and population cycles⭐
Free and open to all:
Zoom link: iite.info/seminar/
Global Times: www.timeanddate.com/worldclock/f...
October 20, 2025 at 10:50 AM
📣Tomorrow our next series of online seminars restarts: Chris Klausmeier (MSU) will present:
⭐Microbial cross-feeding: coexistence and collapse, spatial patterns and population cycles⭐
Free and open to all:
Zoom link: iite.info/seminar/
Global Times: www.timeanddate.com/worldclock/f...
⭐Microbial cross-feeding: coexistence and collapse, spatial patterns and population cycles⭐
Free and open to all:
Zoom link: iite.info/seminar/
Global Times: www.timeanddate.com/worldclock/f...
Reposted by Theoretical Biophysics
🚨 On Friday 24/10 15:30 EU, Dani Rodríguez Amor (École Normale Supérieure - Paris Sciences et Lettres) will present the talk
Cooperation-driven multistability in synthetic microbial communities
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
Cooperation-driven multistability in synthetic microbial communities
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
October 13, 2025 at 10:01 AM
🚨 On Friday 24/10 15:30 EU, Dani Rodríguez Amor (École Normale Supérieure - Paris Sciences et Lettres) will present the talk
Cooperation-driven multistability in synthetic microbial communities
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
Cooperation-driven multistability in synthetic microbial communities
at the Population Dynamics Seminars.
Subscription sites.google.com/view/popdyn/
Reposted by Theoretical Biophysics
The next MSC Seminar will be given by Nicolas Bain (Institut Lumière Matière, Lyon): on Monday October 13th 2025 at 11.30am.
Title: "Unravelling the multiscale surface mechanics of soft solids"
For more details see :
msc.u-paris.fr/events/event...
Title: "Unravelling the multiscale surface mechanics of soft solids"
For more details see :
msc.u-paris.fr/events/event...
Seminar Nicolas Bain | MSC
msc.u-paris.fr
October 13, 2025 at 7:37 AM
The next MSC Seminar will be given by Nicolas Bain (Institut Lumière Matière, Lyon): on Monday October 13th 2025 at 11.30am.
Title: "Unravelling the multiscale surface mechanics of soft solids"
For more details see :
msc.u-paris.fr/events/event...
Title: "Unravelling the multiscale surface mechanics of soft solids"
For more details see :
msc.u-paris.fr/events/event...
Reposted by Theoretical Biophysics
Join #MVIF 42
cassyni.com/s/mvif-42
and #MeetTheSpeakers
🇺🇸 Danica Schmidtke will talk about the prototypic crAssphage (Carjivirus communis)!
cassyni.com/s/mvif-42
and #MeetTheSpeakers
🇺🇸 Danica Schmidtke will talk about the prototypic crAssphage (Carjivirus communis)!
October 9, 2025 at 7:52 AM
Join #MVIF 42
cassyni.com/s/mvif-42
and #MeetTheSpeakers
🇺🇸 Danica Schmidtke will talk about the prototypic crAssphage (Carjivirus communis)!
cassyni.com/s/mvif-42
and #MeetTheSpeakers
🇺🇸 Danica Schmidtke will talk about the prototypic crAssphage (Carjivirus communis)!
Reposted by Theoretical Biophysics
Join #MVIF 42
cassyni.com/s/mvif-42
and #MeetTheSpeakers
🇦🇺 George Bouras @gbouras13.bsky.social will introduce Phold, an annotation framework utilising protein structural information that combines the ProstT5 protein language model and structural alignment tool Foldseek.
cassyni.com/s/mvif-42
and #MeetTheSpeakers
🇦🇺 George Bouras @gbouras13.bsky.social will introduce Phold, an annotation framework utilising protein structural information that combines the ProstT5 protein language model and structural alignment tool Foldseek.
October 9, 2025 at 7:46 AM
Join #MVIF 42
cassyni.com/s/mvif-42
and #MeetTheSpeakers
🇦🇺 George Bouras @gbouras13.bsky.social will introduce Phold, an annotation framework utilising protein structural information that combines the ProstT5 protein language model and structural alignment tool Foldseek.
cassyni.com/s/mvif-42
and #MeetTheSpeakers
🇦🇺 George Bouras @gbouras13.bsky.social will introduce Phold, an annotation framework utilising protein structural information that combines the ProstT5 protein language model and structural alignment tool Foldseek.
Reposted by Theoretical Biophysics
Magnetotactic bacteria swim along geomagnetic field lines to navigate sediments. Using microfluidics and simulations, this study shows their motility is optimised, revealing how evolution fine-tunes life for challenging environments.
Magnetotactic bacteria optimally navigate natural pore networks
Diverse magnetotactic bacteria are adapted to the local geomagnetic field and grain size to maximize their swimming speed through the pore space.
buff.ly
September 21, 2025 at 10:01 AM
Magnetotactic bacteria swim along geomagnetic field lines to navigate sediments. Using microfluidics and simulations, this study shows their motility is optimised, revealing how evolution fine-tunes life for challenging environments.
Reposted by Theoretical Biophysics
Dynamic Gene Regulatory Network Inference with Interpretable, Biophysically-Motivated Neural ODEs
doi.org/10.1101/2025...
doi.org/10.1101/2025...
September 21, 2025 at 1:34 PM
Dynamic Gene Regulatory Network Inference with Interpretable, Biophysically-Motivated Neural ODEs
doi.org/10.1101/2025...
doi.org/10.1101/2025...
Reposted by Theoretical Biophysics
Deciphering Global Patterns of Marine Microbial Community Assembly and Network Stability https://www.biorxiv.org/content/10.1101/2025.09.19.677047v1
September 21, 2025 at 2:05 PM
Deciphering Global Patterns of Marine Microbial Community Assembly and Network Stability https://www.biorxiv.org/content/10.1101/2025.09.19.677047v1
🚨Starting in 30 minutes (Friday 12/09 15:30 EU), Susann Müller (UFZ Leipzig) will present the talk
Ecological forces dictate microbial community assembly processes in bioreactor systems
at the Population Dynamics Seminars. Subscription sites.google.com/view/popdyn/
Ecological forces dictate microbial community assembly processes in bioreactor systems
at the Population Dynamics Seminars. Subscription sites.google.com/view/popdyn/
September 12, 2025 at 1:09 PM
🚨Starting in 30 minutes (Friday 12/09 15:30 EU), Susann Müller (UFZ Leipzig) will present the talk
Ecological forces dictate microbial community assembly processes in bioreactor systems
at the Population Dynamics Seminars. Subscription sites.google.com/view/popdyn/
Ecological forces dictate microbial community assembly processes in bioreactor systems
at the Population Dynamics Seminars. Subscription sites.google.com/view/popdyn/
Reposted by Theoretical Biophysics
E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism | Science www.science.org/doi/10.1126/...
E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism
Transcription factors (TFs) may activate or repress gene expression through an interplay of different mechanisms, including RNA polymerase (RNAP) recruitment, exclusion, and initiation. However, depen...
www.science.org
September 11, 2025 at 7:19 PM
E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism | Science www.science.org/doi/10.1126/...
Reposted by Theoretical Biophysics
🚨 PopDyn is back! Tomorrow, Friday 12/09 15:30 EU, Susann Müller (UFZ Leipzig) will present the talk
Ecological forces dictate microbial community assembly processes in bioreactor systems
at the Population Dynamics Seminars. Subscription sites.google.com/view/popdyn/
Ecological forces dictate microbial community assembly processes in bioreactor systems
at the Population Dynamics Seminars. Subscription sites.google.com/view/popdyn/
September 11, 2025 at 2:29 PM
🚨 PopDyn is back! Tomorrow, Friday 12/09 15:30 EU, Susann Müller (UFZ Leipzig) will present the talk
Ecological forces dictate microbial community assembly processes in bioreactor systems
at the Population Dynamics Seminars. Subscription sites.google.com/view/popdyn/
Ecological forces dictate microbial community assembly processes in bioreactor systems
at the Population Dynamics Seminars. Subscription sites.google.com/view/popdyn/