pedrobeltrao.bsky.social - Profile | ThreadSky | a Reddit-style client for Bluesky

Now published! Big congrats to first author @gginell.bsky.social We are actively working improving/updating various aspects of FINCHES; don't hesitate to reach out if you run into issues, have questions. www.science.org/doi/10.1126/...

submitted 9 hours ago • 4 comments

@cp-cellsystems.bsky.social organized a set of short commentaries on: "What is the current bottleneck in mapping molecular interaction networks?" with contributions from many scientists working on these problems. www.cell.com/cell-systems...

submitted 1 day ago • 0 comments

Great to see this announced into early access - lots of fiddly complex stuff - it is peptide fingerprinting in a single molecule counting manner and will open up for sure some workflows that are not so easy to do in mass spec (and just to say - I love mass spec for protein id/abundance as well)

submitted 1 day ago • 2 comments

We apologize for #SCP2025 being oversubscribed for in person attendance. We are sad to miss some colleagues. If you could not register for in-person attendance, you can join the broadcast. single-cell.net/proteomics/s...

submitted 2 days ago • 1 comment

📖 The #SIBProfile 2025 is out! Discover our latest contibutions to: 👉🏼 accelerating life science discoveries; 👉🏼 supporting research and innovation; 👉🏼 maximizing science investments; 🇨🇭 as the Swiss organization of reference for biological and biomedical data. Enjoy the read! issuu.com/sibswissinst...

submitted 2 days ago • 0 comments

Regeneron buys 23andMe out of bankruptcy https://www.ft.com/content/362bcad4-8f4a-42b4-ab86-38821d74352f

submitted 4 days ago • 3 comments

Crick researchers have developed a new stem cell model of the mature amniotic sac development. The team is now exploring the potential for using these new 3D models in clinical applications, such as cornea reconstruction and treating ulcers. www.crick.ac.uk/news/2025-05...

submitted 8 days ago • 5 comments

Tune in to our next seminar on June 9, at a new time of 3pm CET. We’ll hear from Dr. Lucía Chemes (@unsamoficial.bsky.social) and Julian van Gerwen (@julianvangerwen.bsky.social). Register to attend: tinyurl.com/PMCseminar2 Recordings of previous seminars: www.youtube.com/@PMCModularity

submitted 7 days ago • 0 comments

We present SELPHI 2.0 a machine learning model integrating >40 sequence, omics and structural features to predict kinase-substrate interactions between 420 kinases and 240K phosphosites and improve interpretation of global phosphoproteomics data www.sciencedirect.com/science/arti...

submitted 7 days ago • 1 comment

Breaking news and a great honour for D-BIOL professor Jörn Piel: he wins the very prestigious Jung Prize for Medicine! Our congratulations! ethz.ch/en/news-and-...

submitted 8 days ago • 1 comment

We are happy to share our new work on glutamine addiction in cancer cells. By characterizing the exchange rate and dynamic metabolite response to extracellular glutamine deprivation, we shed light on long standing questions about glutamine addiction. www.biorxiv.org/content/10.1...

submitted 10 days ago • 1 comment

This is a wild paper. The anaerobic biochemistry is definitely worth your while (and beyond me to explain), but let me try to explain why this is also an evolutionary bombshell. This is about how nitrogen fixation evolved as we know it.

submitted 37 days ago • 2 comments

Inverse folding NNs are better at predicting changes to a mutated protein's equilibrium dynamics, relative to WT, than protein folding NNs (BioEmu & AF-Cluster). This was shown on an enzyme that is more enzymatically promiscuous in the open state.

submitted 11 days ago • 0 comments

Phosphorylation depends both on the sequence and on spatial proximity in vivo between kinases and their substrates. Both of these factors are accounted for in this preprint 1/2

submitted 13 days ago • 1 comment

Switzerland remains so behind in these types of efforts.

submitted 13 days ago • 0 comments

We are pleased to present our position paper outlining EMBL’s recommendations for European Commission’s upcoming ‘Strategy for European Life Sciences'. Our recommendations span several interconnected areas, e.g. research infrastructures, data resources, AI & training. www.embl.org/news/embl-an...

submitted 15 days ago • 1 comment

Are you a postdoc ready for transition to an independent position? You connect infection biology with cutting-edge structural biology or multimodal imaging? Are you aware of such a colleague? I am seeking speakers for "The Next Generation in Infection Biology" microsymposium on June 6 2025.

submitted 37 days ago • 0 comments

Yes, that is me, for those who did not yet know. This was not planned but I am very happy to go 'home' even though I will miss a lot about Portugal. If you still want to visit, hurry, otherwise see you in Cambridge. If you want to know more contact me directly. www.pdn.cam.ac.uk/news/dr-care...

submitted 15 days ago • 30 comments

Introducing Finch, a new agent that fully automates data-driven discovery in biology. We are launching a closed beta for it today (sign up below). This is still early, but impressive, maybe similar to a good 1st yr grad student. 1/

submitted 17 days ago • 1 comment

Check out our latest work on the evolution of animal genome regulation out today in @nature.com. Nicely summarized below by @ianakim.bsky.social. www.nature.com/articles/s41... This is a major output from our ERC-StG project Evocellmap @erc.europa.eu at @crg.eu

submitted 16 days ago • 8 comments

“The Website” is here! It can be intimidating getting into analysis of #CryoET data, and software is evolving all the time👩‍💻🚀. @phaips.vd.st & @florentwaltz.bsky.social put our lab’s workflows into an online guide. We hope this helps lower the bar to joining #TeamTomo. Feedback much appreciated! 🧪🧶🧬🔬

submitted 16 days ago • 2 comments

Our new contribution to the quest to find causal GWAS genes! Sam Ghatan from my lab at @nygenome.org led a systematic comparison of eQTLs and CRISPRi+scRNA-seq screens. TL;DR: they provide highly complementary insights, with ortogonal pros and cons. 🧵👇 www.biorxiv.org/content/10.1...

submitted 17 days ago • 1 comment

An atlas predicting protein interactions in 11 human tissues created by @pedrobeltrao.bsky.social's team at @imsb-eth.bsky.social will help uncover cell-type specific functions, elucidate disease mechanisms, and choose safer targets for drug discovery 🧬🖥️ blog.opentargets.org/an-atlas-of-...

submitted 17 days ago • 0 comments

Come and join us! We’re hiring a new Group Leader in Generative Biology at the @sangerinstitute.bsky.social Building AI models or the data to train them? Core funding of >$130M a year for a faculty of ~30. www.nature.com/naturecareer... acrobat.adobe.com/id/urn:aaid:... pls RT!

submitted 17 days ago • 1 comment

In this evaluation of AlphaFold3 (and other methods), we show that (i) accurate predictions are limited to RNA structures/complexes with structural similarity to PDB and (ii) that current methods are bad at estimating the accuracy of the predictions. www.biorxiv.org/content/10.1...

submitted 18 days ago • 1 comment

500 million euro budget increase for EU science 2025-2027 including the previously announced extra funding for those moving in and a new 7 year ERC grant (not just for those moving to Europe). I am not sure a new ERC program is needed but at least it does mean a boost to the ERC budget.

submitted 18 days ago • 1 comment

We quantify the aggregation of >100,000 random protein sequences to train CANYA, a convolution-attention hybrid neural network to predict aggregation from sequence. With @bennibolo.bsky.social www.science.org/doi/10.1126/...

submitted 19 days ago • 1 comment

Delighted to share our latest work deciphering the landscape of chromatin accessibility and modeling the DNA sequence syntax rules underlying gene regulation during human fetal development! www.biorxiv.org/content/10.1... Read on for more: 🧵 1/16 #GeneReg 🧬🖥️

submitted 20 days ago • 2 comments

Please save-the-date for the #AITHYRA Symposium “AI for Life Science”, which will take place in Vienna at the House of Industry from 8-10 September 2025. Great speakers, interesting framework programme and beautiful location. Registration will open mid May. More info: www.oeaw.ac.at/aithyra/news...

submitted 21 days ago • 0 comments

Our new call for VIB.AI group leaders is online! Junior and senior positions available to develop innovative ML methods in biology. With professorship at CS or Medical Faculty. Deadline 14th June. DM for more info.

submitted 27 days ago • 0 comments

I got hit by some rather sudden and extreme financial hardship so if anyone is in need of remote wetlab contract research, strictly BSL1, do let me know. Currently scrambling for gigs. Plant, Bacterial, Archaeal Non-model Bioeng Custom Lab Hardware Turn Key Genetic Design Please repost for reach 💚

submitted 21 days ago • 7 comments

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...

submitted 21 days ago • 3 comments

The Gulbenkian Institute of Molecular Medicine (GIMM) is one of the best research institutes in Portugal. It's currently recruiting for three Group Leaders (junior or senior) across different areas, including systems biology and bioinformatics. gimm.pt/jobs/open-ca...

submitted 22 days ago • 0 comments

Olivier's paper out now! We find that similarity metrics derived from AlphaFold structures & PLM embeddings can help identify pairs of paralogs with shared functions. Not always better than sequence identity, but not redundant with it, so combining them works best. academic.oup.com/nargab/artic...

submitted 23 days ago • 0 comments

Berend Snijder, former Assistant Prof of or institute, will join the Botnar Institute of Immune Engineering (BIIE) a Faculty Professor and Research Group Leader. Until the move, he will remain a visitor group leader at the institute. immune.engineering/news/dr-bere...

submitted 23 days ago • 0 comments

Want to know how the ligands interact with proteins beyond model cell lines, e.g., in tissues or bacteria? Interested in membrane targets? Check out our High-Throughput PELSA method which allows you do all these cool screenings for dozens of ligands within two hours! www.biorxiv.org/content/10.1...

submitted 24 days ago • 1 comment