Noelia Ferruz
@noeliaferruz.bsky.social
Generative models for protein design. Group leader at CRG
Save the date: April 9 from 4pm to 6pm CET. Our department is hosting an online seminar with @noeliaferruz.bsky.social @sdomcke.bsky.social @const-ae.bsky.social who will talk about models for protein design, large-scale perturbation screens, and benchmarking of perturbation prediction models.
The CRG PhD call is now open. Exciting opportunities across diverse topics and within a world-class scientific environment. Our group is offering one PhD position to study chromatin evolution. Consider applying or share with anyone who might be interested! www.crg.eu/en/content/t...
Centre de Regulació Genòmica (CRG)@crg.eu · 10mo agoAre you looking for a PhD? Join us in Barcelona! You'll dive into a community of >100 PhD students from 30 countries exploring the frontiers of biology. You can also join an online workshop on 6 November (15:00 CET) to learn how to find the right lab for you. More info: www.crg.eu/en/content/t...
Protein Structure Evolution (ProSe) Seminar is now on BlueSky! Every 2nd Tuesday, 4PM GMT. Sign-Up: tinyurl.com/prose-seminar2 Organized by Claudia Alvarez Carreño, Zachary Ardern, Lars Eicholt, Carolina Sanchez-Rocha, Sergio Romero Romero and Md. Hassan Uz-Zaman.
Are you looking for a PhD? Join us in Barcelona! You'll dive into a community of >100 PhD students from 30 countries exploring the frontiers of biology. You can also join an online workshop on 6 November (15:00 CET) to learn how to find the right lab for you. More info: www.crg.eu/en/content/t...
#Research #Biomedicine Generative AI is more efficient than nature at designing proteins to edit the genome 🧬💻✂️ This is the conclusion of research published at @natbiotech.nature.com by @marcguellc.bsky.social Integra Therapeutics & @noeliaferruz.bsky.social - @crg.eu 📰 tuit.cat/n7ap6
This work has been possible thanks to an incredible team effort w/ Alejandro, @marcguellc.bsky.social @noeliaferruz.bsky.social and the integra therapeutics team!
my father-in-law is a “I know a guy” Guy. sadly all the old Guys are aging out of the Guy Economy. Guys are fundamentally incompatible with Hustle Culture because it’s not about “winning” a deal, it’s about collecting favors and goodwill in a mutually-beneficial cycle. protect your local Guy Economy
What is this marvel of the universe?🤯 www.nature.com/articles/s41...
A fluorescent-protein spin qubit - Nature
An optically addressable fluorescent-protein spin qubit is realized using enhanced yellow fluorescent protein; the qubit can be coherently controlled at liquid-nitrogen temperatures and the spin detec...
nature.com
CATH turns 30 years old this year! We are organising a 1-day symposium on September 16th at UCL, highlighting recent AI-based developments to enhance protein family classifications, annotations and analyses. www.eventbrite.co.uk/e/protein-an...
Protein Annotations in the age of AI
A not-for-profit symposium hosted at UCL - more details about speakers and venue below.
eventbrite.co.uk
Woke up this morning in Greenland. It is game time for my cameras. National Geographic Endurance safely crossed the Denmark Straight and into this fjord! #EastCoastKin #photography #Greenland
This preprint from Helen Sakharova is one of the coolest things to come out of my lab: “Protein language models reveal evolutionary constraints on synonymous codon choice.” Codon choice is a big puzzle in how information is encoded in genomes, and we have a new angle. www.biorxiv.org/content/10.1...
Protein language models reveal evolutionary constraints on synonymous codon choice
Evolution has shaped the genetic code, with subtle pressures leading to preferences for some synonymous codons over others. Codons are translated at different speeds by the ribosome, imposing constrai...
biorxiv.org
Evaluating zero-shot prediction of protein design success by AlphaFold, ESMFold, and ProteinMPNN [new] Zero-shot protein design assessment filters, but accuracy predicting success is limited.
🚀 We’re excited to share our latest publication in collaboration with Verena Ruprecht's group at @crg.eu Mechanobiology meets Nuclear Metabolism www.nature.com/articles/s41...
Mitochondria-derived nuclear ATP surge protects against confinement-induced proliferation defects - Nature Communications
The authors uncover a mechano-metabolic adaptation where confinement induces rapid mitochondrial relocalization to the nuclear periphery, generating localized nuclear ATP surges that support chromatin...
nature.com
Thank you everyone for the congratulations and the large number of applications! I want to specifically encourage applications for these positions: * Postdoc in structural biology (cryoEM, ideally with X-ray too) * Full time lab manager/technician with wetlab experience
Martin Pacesa@martinpacesa.bsky.social · last yr.I am super excited to announce that I will be starting my lab at the Department of Pharmacology of the University of Zurich in Switzerland next year!
🚨🚨🚨 Please RT! We're looking for a postdoc to join an exciting joint project between our lab @upf.edu & @crg.eu (Barcelona) and the Sander lab @mdc-berlin.bsky.social (Berlin) investigating how alternative splicing and microexons influences the maturation of pancreatic islets. Deadline: 30/09/25👇
upf.edu
Join Martin’s new lab, great location, super cool project, and the best advisor! What’s not to like?
Martin Pacesa@martinpacesa.bsky.social · last yr.I am looking to interview prospective PhD students, Postdocs and technicians, particularly with wetlab expertise, but computational skills are a bonus.
Struct bio ms titles over the years 1965 - A three-dimensional model of X 1985 - The structure of X 1995 - The structure of X reveals Y 2005 - Structural basis of 2015 - The molecular mechanism of 2025 - Harnessing AlphaFold
We are looking to recruit a tenure track group leader in the field of Chemical/Synthetic Biology (in the broadest sense) to lead a research program within the Division of Protein & Nucleic Acid Chemistry ( www.jobs.ac.uk/job/DNW809/r... ) at the MRC Laboratory of Molecular Biology (LMB).
Research Group Leader in Chemical/Synthetic Biology at MRC Laboratory of Molecular Biology
Start your UK & international job search for academic jobs, research jobs, science jobs and managerial jobs in leading universities and top...
jobs.ac.uk
An insightful thread by Miguel as usual! - worth reading
GAMA Miguel Angel@miangoar.bsky.social · last yr.🧵 1/9 I want to share some (inconclusive) thoughts about the generalization capabilities of protein language models under this main question: ¿what does it mean IN distribution generalization and what does it mean OUT of distribution generalization in (protein) biology?
In our newest preprint, we discuss current explainable AI (XAI) methods. We divided the workflow of a generative decoder-only model into four information contexts for XAI: training dataset, input query, model components, and output sequence. See here: arxiv.org/abs/2506.19532 @aichemist.bsky.social
Are you curious about what protein language models learn? Check out our newest preprint! 🚀https://arxiv.org/abs/2506.19532 We reviewed explainable AI (XAI) techniques across all parts of the generative protein design workflow and discussed their applications, limitations, and untapped potential!
Noooo😭 This was the BEST workshop at NeurIPS!!
Gina El Nesr@ginaelnesr.bsky.social · last yr.Unfortunately, the MLSB Workshop @ NeurIPS (@workshopmlsb.bsky.social) was rejected this year. Feedback from the deciding committee indicates it was a coin flip decision, with 283 proposals & a number related to “computational biology” More on the future of MLSB soon…
This is absolutely nuts and I wonder how the future of peer review is gonna look like
Christian Wolf@chriswolfvision.bsky.social · last yr.After all these reports of authors adding language instructions for LLM reviews in their papers I wanted to check this myself and I downloaded the .tex source from one of these papers. Here is an example. (I will not share the identity of the paper)
🚨 New paper 🚨 RNA modeling just got its own Gym! 🏋️ Introducing RNAGym, large-scale benchmarks for RNA fitness and structure prediction. 🧵 1/9
Then, according to this doctor's logic, why do whales have menopause? 🧪
Rebecca Sear@rebeccasear.bsky.social · last yr.“Historically, no one lived past age 35” "I’ve heard *so* many versions of this claim, including recently from a menopause doctor (implying menopause is not “natural” because noone lived long enough to go through it). Every time someone states this “fact,” a demographer loses a piece of their soul"
End-to-end differentiable homology search for protein fitness prediction. @yaringal.bsky.social @deboramarks.bsky.social @pascalnotin.bsky.social arxiv.org/abs/2506.089...
