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Gonzalo Parra

@gonzaparra.bsky.social
790 followers 275 following 157 posts

Ramón y Cajal Junior Group Leader @BSC_CNS 🇦🇷🇪🇸🏳️‍🌈 ENFJ | Bioinformatics | 3DSIG Co-Chair | @fi_uner, @exactas_uba, @mpi_bpc, @embl, @dkfz alumnus | @iscb BoD | Opinions my own

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Gonzalo Parra @gonzaparra.bsky.social · 20/08/2026
🚨 Last days to submit your abstract! 🚨 Join us at the ELIXIR 3D-BioInfo & ISCB 3D-SIG Annual Conference 🇮🇹 in Rome (25–27 Nov 2026) and share your latest research with the structural bioinformatics community. ⏳ Submission deadline: August 31 🔗 iscb.org/3dbioinfo202...
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Bioinformatics Advances @bioinfoadv.bsky.social · 13/08/2026
🌐 Just published in Bioinformatics Advances: "Bioinformatics in Español: Expanding open, diverse, and collaborative science through SEH2Bioinfo"  Find it here: doi.org/10.1093/bioadv/vbag182
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Gonzalo Parra @gonzaparra.bsky.social · 13/08/2026
Join us in Rome later this year! we have six topic sessions and we are eager to get your abstracts!!! 🙌 The submission deadline for 3DBioInfo has been extended to August 31! Submit your abstract!! 🔗 iscb.org/3dbioinfo202...
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BF Francis Ouellette @bffo.bsky.social · 12/08/2026
From @gonzaparra.bsky.social and colleagues in #OUP 's @bioinfoadv.bsky.social journal | Bioinformatics in Español: expanding open, diverse, and collaborative science through SEH2Bioinfo | #Bioinformatics #OpenScience #Education | 🧬🖥️🧪🔓 ⬇️ academic.oup.com/bioinformati...
academic.oup.com
Bioinformatics in Español: expanding open, diverse, and collaborative science through SEH2Bioinfo
Abstract. Linguistic inequality remains a silent barrier in contemporary science, particularly in rapidly evolving and interdisciplinary fields such as bio
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Ezequiel Galpern @eag91.bsky.social · 05/08/2026
1/ New preprint! with @solersanchisx.bsky.social @cwjpugh.bsky.social @federicobilleci.bsky.social @jonnyfrazer.bsky.social and Mafalda Dias, we introduce a scalable framework to improve stability prediction and separate folding from functional constraints. www.biorxiv.org/content/10.6...
biorxiv.org
Blending physics-based and inverse folding models to disentangle variant effects on stability and function
Protein sequences are constrained not only by the need to fold into stable structures, but also by specific functional requirements imposed by natural selection. Yet predictions of how amino-acid chan...
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Ezequiel Galpern @eag91.bsky.social · 08/08/2026
🚨 Paid MSc research opportunity at CRG Barcelona! With Mafalda Dias and @jonnyfrazer.bsky.social, we’re hosting a 4-month MSc project: 🧬 “Folding versus function: disentangling the molecular mechanisms of missense variants in gene-trait associations” More info 👇 www.crg.eu/en/content/t...
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Gonzalo Parra @gonzaparra.bsky.social · 10/08/2026
Happy to share our review "Local energetic frustration: Protein evolution, conformational dynamics and design in the age of AI" now in press in BBA – Proteins and Proteomics! 1st review article from my lab! authors.elsevier.com/a/1nafq5bCYA...
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Jonathan Frazer @jonnyfrazer.bsky.social · 05/08/2026
Blend to disentangle! New preprint led by our talented postdoc @eag91.bsky.social
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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 19/07/2026
It’s time for the World Cup final with one of the greatest footballers that may be playing his last cup So time for a short thread on a link between Messi and an intrinsically disordered protein. 1/n
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Proceedings of the National Academy of Sciences @pnas.org · 01/06/2026
Could molecules from long-extinct species help fight #antibioticresistance? Researchers are exploring #MolecularDeextinction to uncover novel #antimicrobials, including #peptides from the #extinct moa. A PNAS Core Concept piece: ow.ly/hxAy50Z6fHF #evolution #genome
A painting of the moa, a large wingless bird that disappeared about 500 years ago. 
Image credit: Science Source/MARK P. WITTON.
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🫶🏻Layla🫶🏻 @laylabelle3.bsky.social · 27/05/2026
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IRB Barcelona @irbbarcelona.org · 27/05/2026
📢 #KRAS degradation induces rapid lung #cancer regression in preclinical mouse models: A study by #IRBBarcelona & @ciccancer.bsky.social demonstrates that eliminating mutated KRAS protein using #PROTACs induces rapid tumour regression in mouse models of lung adenocarcinoma. ➡️ bit.ly/4dFWhm1
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Ana Conesa @anaconesa.bsky.social · 27/05/2026
Forgot spike-ins in your lrRNA-seq experiment? 😅 No problem! Our TUSCO benchmarks your transcript models using endogenous single-isoform genes as internal ground truth. Integrated in SQANTI3 for human & mouse. 🧬 Just out in @natcomms.nature.com @pacbio.bsky.social @nanoporetech.com rdcu.be/fkZCb
rdcu.be
TUSCO: benchmarking transcriptome reconstruction with endogenous single-isoform controls
Nature Communications - Long-read sequencing enables comprehensive transcriptome characterization but remains challenging to benchmark due to sequencing errors, sample variability, and the limited...
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Gonzalo Parra @gonzaparra.bsky.social · 21/05/2026
www.biorxiv.org/content/10.6...
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Mart Krupovic @mkrupovic.bsky.social · 11/05/2026
With Eugene Koonin, we wrote a rather comprehensive review on the origin, evolution and organization of the #virosphere. We describe all 10 viral realms and the logic behind them, and so much more. Check it out! comptes-rendus.academie-sciences.fr/biologies/ar...
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Gonzalo Parra @gonzaparra.bsky.social · 24/04/2026
I am writing my first review as a last author without collaborating with any of my previous mentors. Scary... I feel like moving alone far from my parents for the first time 😅
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Gonzalo Parra @gonzaparra.bsky.social · 02/04/2026
Please, don't write cover letters with AI when applying to jobs. Selection committees see so many of them in a short time window and artificial constructions become too evident. I prefer an honest cover letter with grammar errors, made with effort, rather than a fake one.
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Joe Greener @jgreener64.bsky.social · 01/04/2026
On this 1st April I'm happy to release a technical report from our startup MirageBio, describing a new protein structure model with state-of-the-art performance. jgreener64.github.io/posts/techni...
jgreener64.github.io
MirageBio technical report
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Gonzalo Parra @gonzaparra.bsky.social · 30/03/2026
Could not have said it better how it feels!
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Ewan Birney @ewanbirney.bsky.social · 30/03/2026
Paper accepted in my inbox. WooHoo! It never, ever, gets old. Another brick in our edifice of knowledge of life and the universe, and I helped craft this brick.
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Alexis Verger 🧬🧫🧪 @alexis-verger.cpesr.fr · 26/03/2026
Atlas of predicted protein complex structures across kingdoms www.nature.com/articles/s41... www.biopredictnavigator.cn
nature.com
Atlas of predicted protein complex structures across kingdoms - Nature Communications
Protein complexes are the machinery of life, yet mapping their structures across different species is challenging. This study presents an atlas of 1.1million cross-kingdom structures, revealing 181,67...
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CSIC @csic.es · 27/03/2026
🔬 El #CSIC es el mayor organismo científico de España, con 124 institutos 👩‍🔬👨‍🔬 Sus equipos realizan investigación básica para ampliar las fronteras del conocimiento Repasa aquí las noticias destacadas de esta #SemanaCSIC 👇📹🧵
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Brian Merchant @bcmerchant.bsky.social · 26/03/2026
This is the way
404media.co
Wikipedia Bans AI-Generated Content
“In recent months, more and more administrative reports centered on LLM-related issues, and editors were being overwhelmed.”
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MwahahahahahadScientist @mads100tist.bsky.social · 27/03/2026
"genAI can be used to create podcasts from a paper to teach st-" Let me stop you right there. Before you feed somebody's paper to a slop machine, invite that somebody to talk to your students about their paper. We're right here. We academics won't shut up about our work, man. 🧪
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Gonzalo Parra @gonzaparra.bsky.social · 27/03/2026
🚨 New postdoc opening in my group at @bsc-cns.bsky.social! We’re looking for someone excited about protein evolution, local frustration, ML, & large-scale computational biophysics 🧬 Access to world-class HPC (MareNostrum) + great team! www.bsc.es/join-us/job-...
bsc.es
158_26_LS_ESB_R2
Reference: 158_26_LS_ESB_R2 Job title: Postdoctoral Researcher – Protein Computational Biophysics (R2) About BSC The Barcelona Supercomputing Center - Centro N
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Gonzalo Parra @gonzaparra.bsky.social · 26/03/2026
Are protein–ligand models moving beyond memorization? 🤔 & what does physically informed deep learning really mean for drug design? Find out more about the webinar & register in this link: 👇 elixir-europe.org/events/3d-bi... 🎤 Janani Durairaj 🎤 Markus Lill 📅 April 15 | 17:00 CET
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Bioinformatics Advances @bioinfoadv.bsky.social · 24/03/2026
🧩 Just out in Bioinformatics Advances: "Deciphering cis-regulatory elements using REgulamentary"  Read the full paper here: doi.org/10.1093/bioadv/vbag079
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ISCB News @iscb.bsky.social · 18/03/2026
📣 Reminder: #ISMB2026 is accepting abstracts for talk and poster presentations until Thursday, April 9, 2026. 📥 Submit here: www.iscb.org/ismb2026/call-for-subm…
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Gonzalo Parra @gonzaparra.bsky.social · 10/03/2026
Today!!! Register and attend by using the links in the post below!
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ELIXIR Europe @elixir-europe.org · 09/03/2026
✨ The next #ELIXIR_3DBioInfo webinar will focus on computational #biophysics. 🗓️ 10 March 2026 | 🕔 17:00-18:00 CET Join the webinar to hear the recent activities in the Community, including dark energy in functional #protein and fold-switching behaviour of RfaH. 👉 loom.ly/ctFNLug
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Gonzalo Parra @gonzaparra.bsky.social · 26/02/2026
New webinar! March 10th 5pm CET/4pm UK! Exciting computational biophysics! 1) Ezequiel Galpern from @crg.eu Dark Energy in Proteins! 2) Cesar Ramirez Sarmiento (@cxarramirez) from Pontificia Universidad Catolica de Chile! Metamorphic Proteins! Register: elixir-europe.org/events/3d-bi...
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Gonzalo Parra @gonzaparra.bsky.social · 26/02/2026
New webinar! March 10th 5pm CET/4pm UK! Exciting computational biophysics! 1) Ezequiel Galpern from @crg.eu Dark Energy in Proteins! 2) Cesar Ramirez Sarmiento (@cxarramirez) from Pontificia Universidad Catolica de Chile! Metamorphic Proteins! Register: elixir-europe.org/events/3d-bi...
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Gonzalo Parra @gonzaparra.bsky.social · 24/02/2026
Nice editorial! "Protein dynamics prediction by integrating biophysics and artificial intelligence" sciencedirect.com/science/arti...
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Gonzalo Parra @gonzaparra.bsky.social · 12/02/2026
Finally out! Miriam's 1st, 1st author article! 1st last author paper as a group leader! A work that started 3 years ago when I was a postdoc in Alfonso Valencia's group 🥹 doi.org/10.64898/202... Thread🧵
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Protein Data Bank in Europe (PDBe) @pdbeurope.bsky.social · 12/02/2026
By 2028, all 4-character PDB IDs will be exhausted. After that, all new entries will receive extended IDs: 12 characters total, formatted as pdb_ + 8 alphanumeric characters (pdb_1000axyz) Test it from PDB Beta Archive Read more: www.wwpdb.org/news/news?ye...
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Gonzalo Parra @gonzaparra.bsky.social · 12/02/2026
Finally out! Miriam's 1st, 1st author article! 1st last author paper as a group leader! A work that started 3 years ago when I was a postdoc in Alfonso Valencia's group 🥹 doi.org/10.64898/202... Thread🧵
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澪乃ゆい@Bioinfo VTuber @mionoyui.bsky.social · 06/02/2026
FrustrAI-Seq predicts local energetic frustration from sequence alone. ProtT5 with LoRA fine-tuning trained on ~1M proteins analyzes the human proteome in 17 min, extracting physical energy constraints embedded in evolutionary statistics and enabling de novo protein design. doi.org/10.64898/202...
FrustrAI-Seq: Scaling Local Energetic Frustration to the Protein Sequence Space
Jan-Philipp Leusch, Miriam Poley-Gil, Miguel Fernandez-Martin, Nicola Bordin, Burkhard Rost, R. Gonzalo Parra, Michael Heinzinger
bioRxiv 2026.02.03.703498; doi: https://doi.org/10.64898/2026.02.03.703498
from Figure 1 (CC BY 4.0)
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AI x Bio Discovery @aixbiobot.bsky.social · 06/02/2026
FrustrAI-Seq: Scaling Local Energetic Frustration to the Protein Sequence Space [new] direct sequence-based prediction of local frustration using pLM embeddings enabling analysis of diverse protein regions without structural data.
FrustrAI-Seq: Scaling Local Energetic Frustration to the Protein Sequence SpaceFigure 1Figure 2Figure 3
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bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 06/02/2026
FrustrAI-Seq: Scaling Local Energetic Frustration to the Protein Sequence Space www.biorxiv.org/content/10.64898/20…
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Gonzalo Parra @gonzaparra.bsky.social · 06/02/2026
🚀 FrustrAI-seq is out! Local energetic frustration, a key link between protein folding, dynamics & function, can be inferred from sequences using pLMs. This bridges physical energy landscapes & evolutionary sequence space, scaling frustration to the entire protein universe! doi.org/10.64898/202...
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Alfonso Valencia @alfonsovalencia.bsky.social · 06/02/2026
Big ⁦‪@icreacommunity‬⁩ day for our 25th anniversary. (Humble, honoured, proud and happy to be part of this community) Now words of recognition to prof. Mas-Colell for his leading role founding icrea.
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Gonzalo Parra @gonzaparra.bsky.social · 06/02/2026
🚀 FrustrAI-seq is out! Local energetic frustration, a key link between protein folding, dynamics & function, can be inferred from sequences using pLMs. This bridges physical energy landscapes & evolutionary sequence space, scaling frustration to the entire protein universe! doi.org/10.64898/202...
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Gonzalo Parra @gonzaparra.bsky.social · 24/01/2026
FrustraMPNN is out! You can predict local frustration in seconds+a full deep mutational scanning for every residue in a protein! This opens the door to lots of large scale studies of frustration in the protein universe! Thanks to the team for letting me be part of this!
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Ezequiel Galpern @eag91.bsky.social · 22/01/2026
"Probing the Dark Energy in the Functional Protein Universe" is now published in @pnas.org 🎉 www.pnas.org/doi/10.1073/...
pnas.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
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Gonzalo Parra @gonzaparra.bsky.social · 24/01/2026
FrustraMPNN is out! You can predict local frustration in seconds+a full deep mutational scanning for every residue in a protein! This opens the door to lots of large scale studies of frustration in the protein universe! Thanks to the team for letting me be part of this!
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ISCB News @iscb.bsky.social · 12/01/2026
📣 Abstract submissions for #ISMB2026 are open! Submit your #computationalbiology research for a chance to present at the premier conference in the field. 📅 Submission deadline: Thurs, April 9, 2026 📥Submit here: www.iscb.org/ismb2026/call-for-subm… @anaconesa.bsky.social
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BSC-CNS @bsc-cns.bsky.social · 12/01/2026
🌐Alfonso Valencia sobre la nueva función de #OpenAI con la que impulsa a sus usuarios a compartir su historia clínica con #ChatGPT: "Va a cometer errores, a generar malas interpretaciones y a poner al doctor en una posición complicada".
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Gonzalo Parra @gonzaparra.bsky.social · 19/12/2025
Last official working day of 2025!! I can't believe I made it in one piece to the end of the year. I have earned a couple of beers at the end of the day 🤣
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RCSB Protein Data Bank @rcsbpdb.bsky.social · 17/12/2025
wwPDB has received a record number of depositions this year--more than 20,000! Many thanks to all of our depositors and biocurators more making these important data available to all Details:
rcsb.org
Milestone: >20,000 Structures Deposited to the PDB in 2025
wwPDB has received a record number of depositions this year
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Proceedings of the National Academy of Sciences @pnas.org · 18/12/2025
RNA could have formed spontaneously in the environment of early Earth, some 4.3 billion years ago, according to a study. A key requirement for some steps is borate, which was thought—incorrectly, according to the authors—to inhibit other steps. In PNAS: ow.ly/TAuc50XL3ZS
Borate minerals and the decomposition of ribose. 
CREDIT: Steven A. Benner
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