Alessandra Carbone

New OpenFold3 preview out! (OF3p2) It closes the gap to AlphaFold3 for most modalities. Most critically, we're releasing everything, including training sets & configs, making OF3p2 the only current AF3-based model that is functionally trainable & reproducible from scratch🧵1/9

A new application of MuLAN. This time it helps digging into self-incompatibility - Genomic architecture of the self-incompatibility locus in apple provides insights into the evolution of collaborative non-self recognition biorxiv.org/content/10.110…

Take a look at our article on how to use iGEMME and ESCOTT/PRESCOTT to think about mutations in structured and disordered regions. A new book! link.springer.com/book/978-1-071…

We connected molecular signatures of selection with their mechanistic and functional relevance opening new ways of guiding experimental assays without requiring exhaustive testing of tens or hundreds of candidates. Read in Molecular Biology and Evolution: academic.oup.com/mbe/advance-ar…

A new concept, new software and new data in disorder research. Gianluca Lombardi talks at ISMB/ECCB 2025 in Liverpool next week - LoRA-DR-suite: adapted embeddings predict intrinsic and soft disorder from protein sequences - see you at 14:00 - 14:20, Monday, July 21 - Room 01A!

See you at Imperial College London this week! imperial.ac.uk/events/191042/… Thank you for the kind invitation to the event!

PRESCOTT online in Genome Biology! see how it works on differentiating mutational effects across isoforms, unique genetic heritage, recessive and dominant inheritance modes, gain-of-function mutations at link.springer.com/article/10.118…. Work done with @mtekpinar T.Henry L.David

Thank you very much for the invitation to talk to ISSAID 2025. I really enjoyed the conference! looking forward to day 2 tomorrow. @ISSAID_official

it is online! recoding of TRX functions by switching specific functional determinants: frontiersin.org/journals/plant… with @julhenri @SLemaire75 Gianluca Lombardi and Andrea Mancini.

As always, a particularly stimulating collaboration with @julhenri , @SLemaire75 , Gianluca Lombardi and Andrea Mancini.

We recoded a function of C.reinhardtii thioredoxin type-h into a photosynthetic type-f. Functional determinants (catalytic site and specific residues allowing partner selection) can be identified computationally. Soon out in Frontiers in Plant Science:lnkd.in/emVPNHHa

It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS, indeterminate dendritic cell histiocytosis or other (non-LCH) histiocytic sarcomas cases. I'm trying to understand non-surgical chemo and targeted therapy options, new pathology markers to better diagnose subtypes/treatments, and any data on progression in pediatric patients. Please feel free to share – I’m trying to cast a wide net due to the rarity of this condition and how little is known. People can contact me directly at my first name (as written in my profile) at octant.bio.

great work with Gianluca Lombardi and @BeatrizSeoaneB #disorder #proteins #AF2 #alphafold

Diversifying disorders by distinguishing intrinsic and soft disorders, improves our understanding of proteins. See our new preprint on "LoRA-DR-suite: adapted embeddings predict intrinsic and soft disorder from protein sequences" - lnkd.in/esSD3qxq

Join my team! Please, tweet it. #AI #MachineLearningandAI #Artificialintelligence #MachineLearning #proteins #enzymes

Happy to share with you "Integrative spatial and genomic analysis of tumor heterogeneity with Tumoroscope", with @ShadiShafighi, @ewa_szczurek, and ..... rdcu.be/dYuYO Great work Shadi!

Prix Nobel de chimie 2024 : design des protéines et prédiction de leurs structures, deux facettes d’une même médaille theconversation.com/prix-nobel-de-… via @FR_Conversation

Mini-symposium “AI in structural biology: What’s next ?” on November 12 2024 at @institutpasteur organised by @BardiauxB @DBSC_IP and myself. With @grudinin @jessica_compbio @acarbone16 G. Bouvier S. Cocco @LP_ENS_ More info + free registration👇research.pasteur.fr/en/event/half-…

Thank you Eugenio De La Mora for the invitation at @IBS_Grenoble. It was an inspiring day with a lot of interesting projects going on and very engaged researchers! a great place to visit!!

As part of my recently funded ANR-JCJC grant @AgenceRecherche, I’m looking for a postdoc researcher and an engineer with background in deep learning for protein science. Please contact me if you’re interested. @Inria_Nancy @labo_Loria