Burcu Aykac Fas
@baykac.bsky.social
Researcher in Computational Biology, Biophysics | Proteins | Molecular Modeling | Simulations | Paris | Istanbul
Reposted by Burcu Aykac Fas
I am honored and excited to present our recent work on mixed AND asymmetric membranes at @bppbseminar.bsky.social! 🧪
My online talk will be this Friday, 11/21/25, 11am US Eastern time.
Many thanks to the organizers for putting this together! More details here: sites.google.com/view/bppb-se...
My online talk will be this Friday, 11/21/25, 11am US Eastern time.
Many thanks to the organizers for putting this together! More details here: sites.google.com/view/bppb-se...
November 19, 2025 at 8:16 PM
I am honored and excited to present our recent work on mixed AND asymmetric membranes at @bppbseminar.bsky.social! 🧪
My online talk will be this Friday, 11/21/25, 11am US Eastern time.
Many thanks to the organizers for putting this together! More details here: sites.google.com/view/bppb-se...
My online talk will be this Friday, 11/21/25, 11am US Eastern time.
Many thanks to the organizers for putting this together! More details here: sites.google.com/view/bppb-se...
Reposted by Burcu Aykac Fas
We are back, soon!
The secrets of bacterial cell envelopes' our free online seminar series is due to resume in January 2026 after a long break.
Hosted by Georgina Benn and Syma Khalid- supported by the Microbiology Society. More details soon.
@microbiologysociety.org
Please spread the word
The secrets of bacterial cell envelopes' our free online seminar series is due to resume in January 2026 after a long break.
Hosted by Georgina Benn and Syma Khalid- supported by the Microbiology Society. More details soon.
@microbiologysociety.org
Please spread the word
November 20, 2025 at 7:36 AM
We are back, soon!
The secrets of bacterial cell envelopes' our free online seminar series is due to resume in January 2026 after a long break.
Hosted by Georgina Benn and Syma Khalid- supported by the Microbiology Society. More details soon.
@microbiologysociety.org
Please spread the word
The secrets of bacterial cell envelopes' our free online seminar series is due to resume in January 2026 after a long break.
Hosted by Georgina Benn and Syma Khalid- supported by the Microbiology Society. More details soon.
@microbiologysociety.org
Please spread the word
Reposted by Burcu Aykac Fas
We’re renewing our collaboration with Google DeepMind!
We'll keep developing the AlphaFold Database to support protein science worldwide 🎉
To mark the moment we’ve synchronised the database with UniProtKB release 2025_03.
www.ebi.ac.uk/about/news/t...
🖥️🧬 #AlphaFold
@pdbeurope.bsky.social
We'll keep developing the AlphaFold Database to support protein science worldwide 🎉
To mark the moment we’ve synchronised the database with UniProtKB release 2025_03.
www.ebi.ac.uk/about/news/t...
🖥️🧬 #AlphaFold
@pdbeurope.bsky.social
October 7, 2025 at 2:03 PM
We’re renewing our collaboration with Google DeepMind!
We'll keep developing the AlphaFold Database to support protein science worldwide 🎉
To mark the moment we’ve synchronised the database with UniProtKB release 2025_03.
www.ebi.ac.uk/about/news/t...
🖥️🧬 #AlphaFold
@pdbeurope.bsky.social
We'll keep developing the AlphaFold Database to support protein science worldwide 🎉
To mark the moment we’ve synchronised the database with UniProtKB release 2025_03.
www.ebi.ac.uk/about/news/t...
🖥️🧬 #AlphaFold
@pdbeurope.bsky.social
Reposted by Burcu Aykac Fas
Delighted to announce the release of Boltz-2, which demonstrates unprecedented accuracy in predicting structure and binding affinity! Congrats to Sara Passaro, @gcorso.bsky.social + @jeremywohlwend.bsky.social on this stunning achievement!
📄Paper: bit.ly/boltz2-pdf
💻Code: github.com/jwohlwend/bo...
📄Paper: bit.ly/boltz2-pdf
💻Code: github.com/jwohlwend/bo...
June 6, 2025 at 7:39 PM
Delighted to announce the release of Boltz-2, which demonstrates unprecedented accuracy in predicting structure and binding affinity! Congrats to Sara Passaro, @gcorso.bsky.social + @jeremywohlwend.bsky.social on this stunning achievement!
📄Paper: bit.ly/boltz2-pdf
💻Code: github.com/jwohlwend/bo...
📄Paper: bit.ly/boltz2-pdf
💻Code: github.com/jwohlwend/bo...
Reposted by Burcu Aykac Fas
Move over AlphaFold3. Boltz-2 has arrived, bringing affinity prediction for protein-small molecule interactions!
Can’t wait to see what this group does next. Congrats to all @gcorso.bsky.social
Was a pleasure writing this:
www.cancergrandchallenges.org/news/boltz-2...
Can’t wait to see what this group does next. Congrats to all @gcorso.bsky.social
Was a pleasure writing this:
www.cancergrandchallenges.org/news/boltz-2...
Boltz-2: democratising the future of drug design
Open source structure prediction with binding affinity
www.cancergrandchallenges.org
June 6, 2025 at 2:11 PM
Move over AlphaFold3. Boltz-2 has arrived, bringing affinity prediction for protein-small molecule interactions!
Can’t wait to see what this group does next. Congrats to all @gcorso.bsky.social
Was a pleasure writing this:
www.cancergrandchallenges.org/news/boltz-2...
Can’t wait to see what this group does next. Congrats to all @gcorso.bsky.social
Was a pleasure writing this:
www.cancergrandchallenges.org/news/boltz-2...
Reposted by Burcu Aykac Fas
We’re launching the 1st MAVISp BioCurator Training Workshop!
Learn to use MAVISp tools to assess structural impact of missense variants. Fully online | Free
Register by June 27, 2025:
docs.google.com/forms/d/e/1F...
See Events: services.healthtech.dtu.dk/services/MAV...
#bioinformatics #modeling
Learn to use MAVISp tools to assess structural impact of missense variants. Fully online | Free
Register by June 27, 2025:
docs.google.com/forms/d/e/1F...
See Events: services.healthtech.dtu.dk/services/MAV...
#bioinformatics #modeling
MAVISp BioCurator Training 2025
Event Dates: 3rd to 5th of September 2025 (online)
Check out details on the MAVISp website
We can accommodate a maximum of 15 participants, on a first-come first-served basis
If you have questions ...
docs.google.com
May 21, 2025 at 10:36 AM
We’re launching the 1st MAVISp BioCurator Training Workshop!
Learn to use MAVISp tools to assess structural impact of missense variants. Fully online | Free
Register by June 27, 2025:
docs.google.com/forms/d/e/1F...
See Events: services.healthtech.dtu.dk/services/MAV...
#bioinformatics #modeling
Learn to use MAVISp tools to assess structural impact of missense variants. Fully online | Free
Register by June 27, 2025:
docs.google.com/forms/d/e/1F...
See Events: services.healthtech.dtu.dk/services/MAV...
#bioinformatics #modeling
Reposted by Burcu Aykac Fas
We are happy to announce the release of MassiveFold 1.5.0.
It is now possible to add post-translational modifications and to run ligand screening with AlphaFold3!
It is now possible to add post-translational modifications and to run ligand screening with AlphaFold3!
April 11, 2025 at 10:02 AM
We are happy to announce the release of MassiveFold 1.5.0.
It is now possible to add post-translational modifications and to run ligand screening with AlphaFold3!
It is now possible to add post-translational modifications and to run ligand screening with AlphaFold3!
Reposted by Burcu Aykac Fas
Phase Space Invaders' episode 27 is now online, featuring Kresten Lindorff-Larsen @lindorfflarsen.bsky.social! Listen to it on Spotify or other platforms: www.buzzsprout.com/2313153
Phase Space Invaders (ψ)
With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're headed for, and which exciting pathways will ta...
www.buzzsprout.com
March 25, 2025 at 11:25 AM
Phase Space Invaders' episode 27 is now online, featuring Kresten Lindorff-Larsen @lindorfflarsen.bsky.social! Listen to it on Spotify or other platforms: www.buzzsprout.com/2313153
Reposted by Burcu Aykac Fas
Groundbreaking study in Cell from @leventallab.bsky.social: phospholipid asymmetry is a defining feature of the plasma membrane and cholesterol fills the holes — major implications for how this membrane works. A #lipidtime must-read! www.cell.com/cell/abstrac...
Cell membranes sustain phospholipid imbalance via cholesterol asymmetry
This work challenges a major assumption in cell biology by showing that lipid bilayers
can have drastically different phospholipid abundances between their two leaflets.
This lipid abundance asymmetry...
www.cell.com
April 3, 2025 at 3:07 PM
Groundbreaking study in Cell from @leventallab.bsky.social: phospholipid asymmetry is a defining feature of the plasma membrane and cholesterol fills the holes — major implications for how this membrane works. A #lipidtime must-read! www.cell.com/cell/abstrac...
JPhysChem's new Membrane Protein Simulations Special Issue. Read here:
pubs.acs.org/toc/jpcbfk/1...
pubs.acs.org/toc/jpcbfk/1...
The Journal of Physical Chemistry B
Membrane Protein Simulations Special Issue. Membrane proteins play vital roles in cellular functions -- deciding how an individual cell interacts with its environment via signaling, transport, and mor...
pubs.acs.org
March 26, 2025 at 9:34 AM
JPhysChem's new Membrane Protein Simulations Special Issue. Read here:
pubs.acs.org/toc/jpcbfk/1...
pubs.acs.org/toc/jpcbfk/1...
Reposted by Burcu Aykac Fas
Excellent review including a comprehensive section on what Martini can do in this field: "Computational Methods for Modeling Lipid-Mediated Active Pharmaceutical Ingredient Delivery | Molecular Pharmaceutics" pubs.acs.org/doi/10.1021/...
Computational Methods for Modeling Lipid-Mediated Active Pharmaceutical Ingredient Delivery
Lipid-mediated delivery of active pharmaceutical ingredients (API) opened new possibilities in advanced therapies. By encapsulating an API into a lipid nanocarrier (LNC), one can safely deliver APIs n...
pubs.acs.org
February 1, 2025 at 11:25 AM
Excellent review including a comprehensive section on what Martini can do in this field: "Computational Methods for Modeling Lipid-Mediated Active Pharmaceutical Ingredient Delivery | Molecular Pharmaceutics" pubs.acs.org/doi/10.1021/...
Reposted by Burcu Aykac Fas
Awesome paper!
BioEmu from MSR: Scalable emulation of protein equilibrium ensembles with generative deep learning www.biorxiv.org/content/10.1...
Looking forward to hearing more explanainers in tomorrow's reading group session on zoom at 9am PT / 12pm ET / 6pm CET: portal.valencelabs.com/logg
BioEmu from MSR: Scalable emulation of protein equilibrium ensembles with generative deep learning www.biorxiv.org/content/10.1...
Looking forward to hearing more explanainers in tomorrow's reading group session on zoom at 9am PT / 12pm ET / 6pm CET: portal.valencelabs.com/logg
January 12, 2025 at 5:22 PM
Awesome paper!
BioEmu from MSR: Scalable emulation of protein equilibrium ensembles with generative deep learning www.biorxiv.org/content/10.1...
Looking forward to hearing more explanainers in tomorrow's reading group session on zoom at 9am PT / 12pm ET / 6pm CET: portal.valencelabs.com/logg
BioEmu from MSR: Scalable emulation of protein equilibrium ensembles with generative deep learning www.biorxiv.org/content/10.1...
Looking forward to hearing more explanainers in tomorrow's reading group session on zoom at 9am PT / 12pm ET / 6pm CET: portal.valencelabs.com/logg
Reposted by Burcu Aykac Fas
Many diseases have their origin in human development, so developmental studies are crucial in helping us understand disease in the human body. The #HCA2024NatureCollection in @natureportfolio.bsky.social reveals new developmental insights.
The Human Cell Atlas: towards a first draft atlas
In a collection of research articles and related content, the Human Cell Atlas consortium presents tools, data and ideas towards the generation of their first draft atlas of cells in the human body.
buff.ly
December 9, 2024 at 4:10 PM
Many diseases have their origin in human development, so developmental studies are crucial in helping us understand disease in the human body. The #HCA2024NatureCollection in @natureportfolio.bsky.social reveals new developmental insights.
Reposted by Burcu Aykac Fas
Join us for a webinar with Sarah Teichmann and Aviv Regev, co-founders of the Human Cell Atlas, who will discuss the latest research.
Register here: https://go.nature.com/3OKQRKG
Browse the collection: https://go.nature.com/4gnRFRj
#AcademicSky 🧪
Register here: https://go.nature.com/3OKQRKG
Browse the collection: https://go.nature.com/4gnRFRj
#AcademicSky 🧪
December 21, 2024 at 12:22 PM
Join us for a webinar with Sarah Teichmann and Aviv Regev, co-founders of the Human Cell Atlas, who will discuss the latest research.
Register here: https://go.nature.com/3OKQRKG
Browse the collection: https://go.nature.com/4gnRFRj
#AcademicSky 🧪
Register here: https://go.nature.com/3OKQRKG
Browse the collection: https://go.nature.com/4gnRFRj
#AcademicSky 🧪
Reposted by Burcu Aykac Fas
Whatever your starting point, learning about neurodiversity can be challenging thanks to a lack of well-curated and contextualised information.
This collaborative work presents an annotated introductory reading list to get you started.
This collaborative work presents an annotated introductory reading list to get you started.
Point of View: An annotated introductory reading list for neurodiversity
A collaboratively developed annotated reading list expands upon core themes in neurodiversity, aiming to enhance understanding and to promote rigorous, destigmatizing, and inclusive practices in…
buff.ly
December 10, 2024 at 2:59 PM
Whatever your starting point, learning about neurodiversity can be challenging thanks to a lack of well-curated and contextualised information.
This collaborative work presents an annotated introductory reading list to get you started.
This collaborative work presents an annotated introductory reading list to get you started.
Reposted by Burcu Aykac Fas
That was a lot of fun! Listen to Milosz’s podcast Phase Space Invaders, lots of useful content for our community in a format we are not used to!
In episode 22 of Phase Space Invaders 🎙️, I'm talking to Lucie Delemotte @delemottelab.bsky.social! Listen to our conversation on Spotify or other podcast platforms: open.spotify.com/episode/1Yeg...
Episode 22 - Lucie Delemotte: enhanced sampling methods, alternative publishing models, and becoming a parent in academia
Phase Space Invaders (ψ) · Episode
open.spotify.com
December 10, 2024 at 12:24 PM
That was a lot of fun! Listen to Milosz’s podcast Phase Space Invaders, lots of useful content for our community in a format we are not used to!
Reposted by Burcu Aykac Fas
Excited to announce our latest publication: “Keeping it in the family: Using protein family templates to rescue low confidence AlphaFold2 models” where we explore plDDT variability in #AF2 models of @pfamdb.bsky.social
domains. doi.org/10.1093/bioa... 1/7
domains. doi.org/10.1093/bioa... 1/7
Keeping it in the family: using protein family templates to rescue low confidence AlphaFold2 models
AbstractMotivation. High confidence structure prediction models have become available for nearly all protein sequences. More than 200 million AlphaFold2 mo
doi.org
December 9, 2024 at 1:57 PM
Excited to announce our latest publication: “Keeping it in the family: Using protein family templates to rescue low confidence AlphaFold2 models” where we explore plDDT variability in #AF2 models of @pfamdb.bsky.social
domains. doi.org/10.1093/bioa... 1/7
domains. doi.org/10.1093/bioa... 1/7
Reposted by Burcu Aykac Fas
Excited to reveal specific reactive oxygen species as sentinel molecules that control localized protein degradation at #mitochondria to adjust electron transport chain abundance, with many implications for the role of ROS in development and disease.
www.cell.com/molecular-ce...
www.cell.com/molecular-ce...
Reactive oxygen species control protein degradation at the mitochondrial import gate
This work identifies reactive oxygen species released by the electron transport chain as sentinel molecules that regulate localized protein degradation at mitochondrial TOM complexes, a mechanism that controls mitochondrial protein import and adjusts the abundance of the electron transport chain to cellular needs.
www.cell.com
December 6, 2024 at 7:07 AM
Excited to reveal specific reactive oxygen species as sentinel molecules that control localized protein degradation at #mitochondria to adjust electron transport chain abundance, with many implications for the role of ROS in development and disease.
www.cell.com/molecular-ce...
www.cell.com/molecular-ce...
Reposted by Burcu Aykac Fas
Not thinking this will be a popular strategy for improving metabolic health ;-)
www.nature.com/articles/s42...
www.nature.com/articles/s42...
www.nature.com/articles/s42...
www.nature.com/articles/s42...
December 6, 2024 at 2:06 PM
Not thinking this will be a popular strategy for improving metabolic health ;-)
www.nature.com/articles/s42...
www.nature.com/articles/s42...
www.nature.com/articles/s42...
www.nature.com/articles/s42...
Reposted by Burcu Aykac Fas
Super excited to preprint our work on developing a Biomolecular Emulator (BioEmu): Scalable emulation of protein equilibrium ensembles with generative deep learning from @msftresearch.bsky.social ch AI for Science.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
December 6, 2024 at 8:39 AM
Super excited to preprint our work on developing a Biomolecular Emulator (BioEmu): Scalable emulation of protein equilibrium ensembles with generative deep learning from @msftresearch.bsky.social ch AI for Science.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Burcu Aykac Fas
🫧🔍Key breakthrough in #autism: pivotal role of #CPEB4 condensates revealed.
💊The study opens new avenues for the development of targeted treatments for autism.
📰 Nature @natureportfolio.bsky.social
✍️ Carla Garcia-Cabau, Anna Bartomeu et al.
➡️ bit.ly/3BfEGlR
📌 DOI: 10.1038/s41586-024-08289-w
💊The study opens new avenues for the development of targeted treatments for autism.
📰 Nature @natureportfolio.bsky.social
✍️ Carla Garcia-Cabau, Anna Bartomeu et al.
➡️ bit.ly/3BfEGlR
📌 DOI: 10.1038/s41586-024-08289-w
December 4, 2024 at 4:00 PM
🫧🔍Key breakthrough in #autism: pivotal role of #CPEB4 condensates revealed.
💊The study opens new avenues for the development of targeted treatments for autism.
📰 Nature @natureportfolio.bsky.social
✍️ Carla Garcia-Cabau, Anna Bartomeu et al.
➡️ bit.ly/3BfEGlR
📌 DOI: 10.1038/s41586-024-08289-w
💊The study opens new avenues for the development of targeted treatments for autism.
📰 Nature @natureportfolio.bsky.social
✍️ Carla Garcia-Cabau, Anna Bartomeu et al.
➡️ bit.ly/3BfEGlR
📌 DOI: 10.1038/s41586-024-08289-w
Reposted by Burcu Aykac Fas
Incredible structures and detail! I'll have to update my Respirasome animation...
youtu.be/nmoLoiFakxY?...
youtu.be/nmoLoiFakxY?...
Electron Transport Chain (2019) Drew Berry wehi.tv
YouTube video by WEHImovies
youtu.be
November 18, 2024 at 8:08 PM
Incredible structures and detail! I'll have to update my Respirasome animation...
youtu.be/nmoLoiFakxY?...
youtu.be/nmoLoiFakxY?...
Reposted by Burcu Aykac Fas
Excited to see the final published form of this amazing @drewberry.bsky.social animation of DNA repair go live! Watch your favourite friends BRCA1/2, RPA, RAD51, Exo1, BLM, PCNA, MRN, primase and DNA polymerase perform their recombination magic. Cool educational & scientific tool for our community.
Delighted to publish my new molecular animation:
DNA Break Repair by Homologous Recombination
youtu.be/Xe-83tBcxhs
DNA Break Repair by Homologous Recombination
youtu.be/Xe-83tBcxhs
DNA Break Repair by Homologous Recombination (2024) Drew Berry wehi.tv
YouTube video by WEHImovies
youtu.be
December 4, 2024 at 1:46 AM
Excited to see the final published form of this amazing @drewberry.bsky.social animation of DNA repair go live! Watch your favourite friends BRCA1/2, RPA, RAD51, Exo1, BLM, PCNA, MRN, primase and DNA polymerase perform their recombination magic. Cool educational & scientific tool for our community.
Reposted by Burcu Aykac Fas
Surely you have been using AlphaFold3 for your research project? If so, have you considered #AlphaBridge to analyze the output for macromolecule complexes prediction?
Web server: alpha-bridge.eu
Preprint: www.biorxiv.org/content/10.1...
New features coming soon!
Web server: alpha-bridge.eu
Preprint: www.biorxiv.org/content/10.1...
New features coming soon!
December 3, 2024 at 1:53 PM
Surely you have been using AlphaFold3 for your research project? If so, have you considered #AlphaBridge to analyze the output for macromolecule complexes prediction?
Web server: alpha-bridge.eu
Preprint: www.biorxiv.org/content/10.1...
New features coming soon!
Web server: alpha-bridge.eu
Preprint: www.biorxiv.org/content/10.1...
New features coming soon!
Reposted by Burcu Aykac Fas
Here are some free/open-source sites for the preparation of scientific illustrations, including icon libraries: bioicons.com, scidraw.io, bioart.niaid.nih.gov, inkscape.org, biogdp.com, reactome.org/icon-lib
November 17, 2024 at 4:04 PM
Here are some free/open-source sites for the preparation of scientific illustrations, including icon libraries: bioicons.com, scidraw.io, bioart.niaid.nih.gov, inkscape.org, biogdp.com, reactome.org/icon-lib