Hadeer Elhabashy
@hadeerelhabashy.bsky.social
Postdoc & Ph.D @MPI_BIO & @uni_tue | http://M.Sc in Physics @AUC | http://B.Sc in Biophysics @CairoUniv #LINO70 #LINO23
Structural Bioinformatics
Structural Bioinformatics
Reposted by Hadeer Elhabashy
November is here and for our #WeAreMPIBio #WeAreFML portrait series we’re highlighting postdoctoral researcher Hadeer Elhabashy and her team in the Department of Protein Evolution. Find out more about what drives her, her team's research and how they connect as a team: tinyurl.com/3ez3csd6
November 6, 2025 at 2:58 PM
November is here and for our #WeAreMPIBio #WeAreFML portrait series we’re highlighting postdoctoral researcher Hadeer Elhabashy and her team in the Department of Protein Evolution. Find out more about what drives her, her team's research and how they connect as a team: tinyurl.com/3ez3csd6
Reposted by Hadeer Elhabashy
OpenFold3-preview (OF3p) is out: a sneak peek of our AF3-based structure prediction model. Our aim for OF3 is full AF3-parity for every modality. We now believe we have a clear path towards this goal and are releasing OF3p to enable building in the OF3 ecosystem. More👇
October 28, 2025 at 6:30 PM
OpenFold3-preview (OF3p) is out: a sneak peek of our AF3-based structure prediction model. Our aim for OF3 is full AF3-parity for every modality. We now believe we have a clear path towards this goal and are releasing OF3p to enable building in the OF3 ecosystem. More👇
Reposted by Hadeer Elhabashy
End-to-end protein design in the browser through evedesign. Generate and interactively explore designs in 2D/3D and export them as codon-optimized DNA. The underlying open source framework (released soon) is build to easily add new methods, more on that soon.
🌐 evedesign.bio
🌐 evedesign.bio
October 22, 2025 at 2:30 PM
End-to-end protein design in the browser through evedesign. Generate and interactively explore designs in 2D/3D and export them as codon-optimized DNA. The underlying open source framework (released soon) is build to easily add new methods, more on that soon.
🌐 evedesign.bio
🌐 evedesign.bio
Turns out there’s more to life than just being happy.
What really matters? Having a purpose.
If you haven’t already, watch this TED Talk — it might just change how you define a fulfilling life.
youtu.be/y9Trdafp83U?...
What really matters? Having a purpose.
If you haven’t already, watch this TED Talk — it might just change how you define a fulfilling life.
youtu.be/y9Trdafp83U?...
There's more to life than being happy | Emily Esfahani Smith | TED
YouTube video by TED
youtu.be
October 11, 2025 at 1:09 PM
Turns out there’s more to life than just being happy.
What really matters? Having a purpose.
If you haven’t already, watch this TED Talk — it might just change how you define a fulfilling life.
youtu.be/y9Trdafp83U?...
What really matters? Having a purpose.
If you haven’t already, watch this TED Talk — it might just change how you define a fulfilling life.
youtu.be/y9Trdafp83U?...
“Nothing will be accepted as knowledge or understanding until it has been challenged by someone competent to challenge it.”
— Prof. Larry McEnerney, former Director of the University of Chicago Writing Program
From his famous lecture (youtu.be/vtIzMaLkCaM?...)
Definitely worth watching!
— Prof. Larry McEnerney, former Director of the University of Chicago Writing Program
From his famous lecture (youtu.be/vtIzMaLkCaM?...)
Definitely worth watching!
LEADERSHIP LAB: The Craft of Writing Effectively
YouTube video by UChicago Social Sciences
youtu.be
August 26, 2025 at 10:31 AM
“Nothing will be accepted as knowledge or understanding until it has been challenged by someone competent to challenge it.”
— Prof. Larry McEnerney, former Director of the University of Chicago Writing Program
From his famous lecture (youtu.be/vtIzMaLkCaM?...)
Definitely worth watching!
— Prof. Larry McEnerney, former Director of the University of Chicago Writing Program
From his famous lecture (youtu.be/vtIzMaLkCaM?...)
Definitely worth watching!
“The move from physics has been the intellectual immigration that has mattered most to biology.” — Horace Freeland Judson, The Eighth Day of Creation
August 25, 2025 at 8:54 PM
“The move from physics has been the intellectual immigration that has mattered most to biology.” — Horace Freeland Judson, The Eighth Day of Creation
🥇 The Protein People strike again!
I’m incredibly proud that my fantastic team and I won the first place at the Health Day of the Max Planck Institutes Tübingen! 🎉
We tackled sporty team challenges, had tons of fun, and built even stronger bonds along the way.
A big thank you to the organizers 🙌
I’m incredibly proud that my fantastic team and I won the first place at the Health Day of the Max Planck Institutes Tübingen! 🎉
We tackled sporty team challenges, had tons of fun, and built even stronger bonds along the way.
A big thank you to the organizers 🙌
July 30, 2025 at 5:14 PM
🥇 The Protein People strike again!
I’m incredibly proud that my fantastic team and I won the first place at the Health Day of the Max Planck Institutes Tübingen! 🎉
We tackled sporty team challenges, had tons of fun, and built even stronger bonds along the way.
A big thank you to the organizers 🙌
I’m incredibly proud that my fantastic team and I won the first place at the Health Day of the Max Planck Institutes Tübingen! 🎉
We tackled sporty team challenges, had tons of fun, and built even stronger bonds along the way.
A big thank you to the organizers 🙌
Reposted by Hadeer Elhabashy
Very excited about our latest all-atom generative model proteina, check out the project page (research.nvidia.com/labs/genair/...) and stay tuned for the code release soon!
July 19, 2025 at 8:46 PM
Very excited about our latest all-atom generative model proteina, check out the project page (research.nvidia.com/labs/genair/...) and stay tuned for the code release soon!
Reposted by Hadeer Elhabashy
o3, an AI model developed by the creators of ChatGPT, has been ranked the best AI tool for answering science questions in multiple fields
go.nature.com/4lzaWlC
go.nature.com/4lzaWlC
OpenAI's o3 tops new AI league table for answering scientific questions
SciArena uses votes by researchers to evaluate large language models’ responses on technical topics.
go.nature.com
July 12, 2025 at 5:32 PM
o3, an AI model developed by the creators of ChatGPT, has been ranked the best AI tool for answering science questions in multiple fields
go.nature.com/4lzaWlC
go.nature.com/4lzaWlC
Reposted by Hadeer Elhabashy
📢 Today’s the day! #genomDESymposium 2025 kicks off in Berlin. Proud to co-host with TMF, BfArM and @denbi.bsky.social – bringing together voices from care, research, infrastructure, policy & patient advocacy.
#GHGA #GenomicMedicine #DataForHealth #FAIRData
#GHGA #GenomicMedicine #DataForHealth #FAIRData
July 10, 2025 at 9:19 AM
📢 Today’s the day! #genomDESymposium 2025 kicks off in Berlin. Proud to co-host with TMF, BfArM and @denbi.bsky.social – bringing together voices from care, research, infrastructure, policy & patient advocacy.
#GHGA #GenomicMedicine #DataForHealth #FAIRData
#GHGA #GenomicMedicine #DataForHealth #FAIRData
Reposted by Hadeer Elhabashy
New EU rules adopted today mean better access for qualified researchers to online data gathered by very large online platforms & search engines.
This is important for investigations into systemic risks (e.g illegal content or disinformation).
See 👉 europa.eu/!XHYdGN
This is important for investigations into systemic risks (e.g illegal content or disinformation).
See 👉 europa.eu/!XHYdGN
July 2, 2025 at 11:02 AM
New EU rules adopted today mean better access for qualified researchers to online data gathered by very large online platforms & search engines.
This is important for investigations into systemic risks (e.g illegal content or disinformation).
See 👉 europa.eu/!XHYdGN
This is important for investigations into systemic risks (e.g illegal content or disinformation).
See 👉 europa.eu/!XHYdGN
Got a huge list of protein IDs and want a quick look at their structure models—but it's too much work?
I wrote a small script that automatically fetches models from the AlphaFold DB and generates PyMOL images and interactive sessions. Just feed it your list and go!
🔗 github.com/ElhabashyLab...
I wrote a small script that automatically fetches models from the AlphaFold DB and generates PyMOL images and interactive sessions. Just feed it your list and go!
🔗 github.com/ElhabashyLab...
June 23, 2025 at 8:34 AM
Got a huge list of protein IDs and want a quick look at their structure models—but it's too much work?
I wrote a small script that automatically fetches models from the AlphaFold DB and generates PyMOL images and interactive sessions. Just feed it your list and go!
🔗 github.com/ElhabashyLab...
I wrote a small script that automatically fetches models from the AlphaFold DB and generates PyMOL images and interactive sessions. Just feed it your list and go!
🔗 github.com/ElhabashyLab...
Reposted by Hadeer Elhabashy
Our structural core gene pipeline Unicode is now published at GBE
📄 doi.org/10.1093/gbe/...
Please also check out @dongwookkim.bsky.social’s
🧵 bsky.app/profile/dong...
📄 doi.org/10.1093/gbe/...
Please also check out @dongwookkim.bsky.social’s
🧵 bsky.app/profile/dong...
June 3, 2025 at 5:19 PM
Our structural core gene pipeline Unicode is now published at GBE
📄 doi.org/10.1093/gbe/...
Please also check out @dongwookkim.bsky.social’s
🧵 bsky.app/profile/dong...
📄 doi.org/10.1093/gbe/...
Please also check out @dongwookkim.bsky.social’s
🧵 bsky.app/profile/dong...
Reposted by Hadeer Elhabashy
Planning to apply for #research #funding from the ERC?
From the next application rounds, expect changes to the:
• proposal structure
• evaluation process
• extra funding you can request
• eligibility for Starting & Consolidator #Grants (from 2027)
More 👇 europa.eu/!RPHWvv
From the next application rounds, expect changes to the:
• proposal structure
• evaluation process
• extra funding you can request
• eligibility for Starting & Consolidator #Grants (from 2027)
More 👇 europa.eu/!RPHWvv
Changes to the 2026 and 2027 Work Programmes
With the launch of the competitions for grants under ERC Work Programme 2026 in July of this year, several changes to the submission of applications and the evaluation of proposals will apply. The mai...
europa.eu
June 2, 2025 at 10:02 AM
Planning to apply for #research #funding from the ERC?
From the next application rounds, expect changes to the:
• proposal structure
• evaluation process
• extra funding you can request
• eligibility for Starting & Consolidator #Grants (from 2027)
More 👇 europa.eu/!RPHWvv
From the next application rounds, expect changes to the:
• proposal structure
• evaluation process
• extra funding you can request
• eligibility for Starting & Consolidator #Grants (from 2027)
More 👇 europa.eu/!RPHWvv
Reposted by Hadeer Elhabashy
Fantastic Proteins, Fantastic Team, Fantastic Diversity Day! 🪄
At this year's diversity day at @mpi-bio-fml.bsky.social , we shared our fascination with proteins with our colleagues.🧪
Huge thanks to my winning team: @hadeerelhabashy.bsky.social , Alex Waldherr, and Claudio Piselli ❤️
At this year's diversity day at @mpi-bio-fml.bsky.social , we shared our fascination with proteins with our colleagues.🧪
Huge thanks to my winning team: @hadeerelhabashy.bsky.social , Alex Waldherr, and Claudio Piselli ❤️
June 2, 2025 at 11:58 AM
Fantastic Proteins, Fantastic Team, Fantastic Diversity Day! 🪄
At this year's diversity day at @mpi-bio-fml.bsky.social , we shared our fascination with proteins with our colleagues.🧪
Huge thanks to my winning team: @hadeerelhabashy.bsky.social , Alex Waldherr, and Claudio Piselli ❤️
At this year's diversity day at @mpi-bio-fml.bsky.social , we shared our fascination with proteins with our colleagues.🧪
Huge thanks to my winning team: @hadeerelhabashy.bsky.social , Alex Waldherr, and Claudio Piselli ❤️
Reposted by Hadeer Elhabashy
We've updated our AFESM website to now include biome filtering, allowing exploration of protein structures adapted to specific environments.
🌐 afesm.foldseek.com
Read more about the work in the skeetorial
🦋 bsky.app/profile/mart...
or our preprint
📄 www.biorxiv.org/content/10.1...
🌐 afesm.foldseek.com
Read more about the work in the skeetorial
🦋 bsky.app/profile/mart...
or our preprint
📄 www.biorxiv.org/content/10.1...
May 15, 2025 at 2:03 PM
We've updated our AFESM website to now include biome filtering, allowing exploration of protein structures adapted to specific environments.
🌐 afesm.foldseek.com
Read more about the work in the skeetorial
🦋 bsky.app/profile/mart...
or our preprint
📄 www.biorxiv.org/content/10.1...
🌐 afesm.foldseek.com
Read more about the work in the skeetorial
🦋 bsky.app/profile/mart...
or our preprint
📄 www.biorxiv.org/content/10.1...
Reposted by Hadeer Elhabashy
Excited to share our new preprint on HLp—a bacterial histone from Leptospira perolatii that forms stable tetramers and wraps ~60 bp of DNA: "DNA Wrapping by a Tetrameric Bacterial Histone" www.biorxiv.org/content/10.1...
@mpi-bio-fml.bsky.social
@mpi-bio-fml.bsky.social
May 12, 2025 at 9:17 AM
Excited to share our new preprint on HLp—a bacterial histone from Leptospira perolatii that forms stable tetramers and wraps ~60 bp of DNA: "DNA Wrapping by a Tetrameric Bacterial Histone" www.biorxiv.org/content/10.1...
@mpi-bio-fml.bsky.social
@mpi-bio-fml.bsky.social
Reposted by Hadeer Elhabashy
Our work on deriving protein-protein (functional) associations across different human tissues from proteomics data is now published. There is quite a lot in this paper, so I will just touch on a few highlights:
www.nature.com/articles/s41...
www.nature.com/articles/s41...
A tissue-specific atlas of protein–protein associations enables prioritization of candidate disease genes - Nature Biotechnology
Protein–protein interactions specific to 11 individual tissues are presented in a comprehensive resource.
www.nature.com
May 2, 2025 at 10:31 AM
Our work on deriving protein-protein (functional) associations across different human tissues from proteomics data is now published. There is quite a lot in this paper, so I will just touch on a few highlights:
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Hadeer Elhabashy
I haven't seen the official announcement but would prefer to see more grants instead. I know it is not under the control of the ERC but I hope the EU manages instead to double the ERC budget. Take money away from the other research initiatives if needed.
the ERC has added a million euro for researchers moving to Europe.
ERC to double allowance for researchers moving to EU
The European Research Council (ERC) is doubling the relocation allowance it makes to researchers coming to the EU to take up one of its grants. At present it offers third-country researchers up to €1 ...
sciencebusiness.net
April 19, 2025 at 6:38 AM
I haven't seen the official announcement but would prefer to see more grants instead. I know it is not under the control of the ERC but I hope the EU manages instead to double the ERC budget. Take money away from the other research initiatives if needed.
Reposted by Hadeer Elhabashy
The age-old trade-off: the more AI remembers you, the smarter and more proactive it gets—but it also means handing over more of your privacy to big corps. Helpful or intrusive? One thing is for sure, I’m not ready to jump in just yet. #AI #Privacy #DataControl #AIEthics
The New Moat: Memory
A Massive Win for AI Products
jeffmorrisjr.substack.com
April 20, 2025 at 3:34 PM
The age-old trade-off: the more AI remembers you, the smarter and more proactive it gets—but it also means handing over more of your privacy to big corps. Helpful or intrusive? One thing is for sure, I’m not ready to jump in just yet. #AI #Privacy #DataControl #AIEthics
Reposted by Hadeer Elhabashy
Job alert: Join us in Mainz as
Max Planck Research Group Leader (W2) in Molecular Design
...and make your own research dreams happen on de novo design, generative models, proteins, materials ...
tinyurl.com/r2xjxnuk
@mpip-mainz.mpg.de
Max Planck Research Group Leader (W2) in Molecular Design
...and make your own research dreams happen on de novo design, generative models, proteins, materials ...
tinyurl.com/r2xjxnuk
@mpip-mainz.mpg.de
Max Planck Research Group Leader (W2) in Molecular Design
We are looking for exceptional early-career scientists conducting computational research with a proven record of accomplishment. The primary focus of this call is on candidates proposing research on b...
tinyurl.com
April 4, 2025 at 4:00 PM
Job alert: Join us in Mainz as
Max Planck Research Group Leader (W2) in Molecular Design
...and make your own research dreams happen on de novo design, generative models, proteins, materials ...
tinyurl.com/r2xjxnuk
@mpip-mainz.mpg.de
Max Planck Research Group Leader (W2) in Molecular Design
...and make your own research dreams happen on de novo design, generative models, proteins, materials ...
tinyurl.com/r2xjxnuk
@mpip-mainz.mpg.de
Reposted by Hadeer Elhabashy
Complex Portal release 250 is out! 5,049 manually curated biological complexes. www.ebi.ac.uk/complexporta... (in sync with UniProt release 2025_02)
April 4, 2025 at 12:07 PM
Complex Portal release 250 is out! 5,049 manually curated biological complexes. www.ebi.ac.uk/complexporta... (in sync with UniProt release 2025_02)
Reposted by Hadeer Elhabashy
Are you a beginner in systems biology modelling? Apply to "Mathematics of Life" training course to get hands-on training to model and simulate pathway dynamics and listen to lectures from experts in academia and pharmaceutical industry. Deadline 22nd July
ebi.ac.uk/training/event…
ebi.ac.uk/training/event…
Mathematics of life: modelling molecular mechanisms -
www.ebi.ac.uk
December 9, 2024 at 11:55 AM
Are you a beginner in systems biology modelling? Apply to "Mathematics of Life" training course to get hands-on training to model and simulate pathway dynamics and listen to lectures from experts in academia and pharmaceutical industry. Deadline 22nd July
ebi.ac.uk/training/event…
ebi.ac.uk/training/event…
Reposted by Hadeer Elhabashy
Crosslinks can sometimes improve AlphaFold3 models. Crosslinking is an experimental method often used as a source of distance restraints in modeling. In AlphaFold3, instead of using restraints, crosslinks can be included as covalent ligands. Thanks to Agnieszka Obarska-Kosinska for the idea.
December 4, 2024 at 9:40 AM
Crosslinks can sometimes improve AlphaFold3 models. Crosslinking is an experimental method often used as a source of distance restraints in modeling. In AlphaFold3, instead of using restraints, crosslinks can be included as covalent ligands. Thanks to Agnieszka Obarska-Kosinska for the idea.
AlphaFold is running out of data — so drug firms are building their own version
Source: Nature
search.app/Ytywt
Shared via the Google App
Source: Nature
search.app/Ytywt
Shared via the Google App
AlphaFold is running out of data — so drug firms are building their own version
Thousands of 3D protein structures locked up in big-pharma vaults will be used to create a new AI tool that won’t be open to academics.
search.app
March 29, 2025 at 10:01 PM
AlphaFold is running out of data — so drug firms are building their own version
Source: Nature
search.app/Ytywt
Shared via the Google App
Source: Nature
search.app/Ytywt
Shared via the Google App