Rapid discovery of monoclonal antibodies by microfluidics-enabled FACS of single pathogen-specific antibody-secreting cells go.nature.com/4dHLaHB

OPIGlets are out in force at #AIChem24, organised by our very own Garrett M. Morris DPhil students Lucy Vost, Arun Raja and Ísak Valsson are presenting posters, and Yael is giving a talk about her recent work MolSnapper on Wednesday! Please come and chat to them!

We have just advertised a new permanent Research Software Engineer role within the group (Grade 8 salary band £47-55K pa). Application deadline: 1st November. Details in the image below, and more info available at the link. Please share widely! my.corehr.com/pls/uoxrecruit…

OPIG DPhil student Ollie Turnbull and postdocs Alissa Hummer & Matt Raybould contributed computational profiling to a comparative assessment of developability across various therapeutic formats. Collab w/ Arosio lab ETH Zürich & Egebjerg/Lorezen groups Novo Nordisk tandfonline.com/doi/full/10.10…

AIntibody: an experimentally validated in silico antibody discovery design challenge go.nature.com/40xrx1D

Happy 2025 from everyone at OPIG! DPhil student Isaac Ellmen has written a News & Views article for Nature Chemical Biology (Nature Chemical Biology) reflecting on the impact of AlphaFold2 and remaining challenges in the field. Read "The Protein Universe in 3D" here: nature.com/articles/s4158…

Our manuscript "T-cell receptor structures and predictive models reveal comparable alpha and beta chain structural diversity despite differing genetic complexity" is now published in Communications Biology: nature.com/articles/s4200…

This International Women's Day, we proudly recognise the amazing women in OPIG and all their exceptional work and achievements

We apologise for the recent disruption of our weekly update of SAbDab. The database has now been updated and we will return to the weekly update schedule. We are continuing to check and make sure that SAbDab is as up to date and complete as possible. opig.stats.ox.ac.uk/webapps/sabdab…

This was a huge amount of work. Thanks to my Proceedings Co-Chair Karsten Borgwardt and all Area Chairs, reviewers, subreviewers, and of course, the authors. Karsten and I, the #ISMBECCB2025 Steering Committee, and ISCB News greatly value all of your contributions, expertise, and effort!

Predicting protein conformational flexibility remains a major challenge in structural biology. While we can now accurately model static protein structures, understanding their dynamics is still difficult, largely due to a lack of suitable training data.

We have released a web application for Humatch, our new antibody humanisation tool. Humatch enables experimental-like antibody humanisation in seconds and is free to use at opig.stats.ox.ac.uk/webapps/sabdab… For more info, Humatch is described here: doi.org/10.1080/194208…

AntiFold, our antibody inverse folding model, has just been published at Bioinformatics Advances. Work led by Magnus Haraldson Høie & Alissa Hummer. Paper: academic.oup.com/bioinformatics… Try out the webserver: opig.stats.ox.ac.uk/webapps/antifo… Codebase available on Github: github.com/oxpig/AntiFold

Really happy that our work on conditioning diffusion models is published - have a read if you fancy hearing how we tried to encourage models to generate more physically plausible compounds by training conditionally with synthetic, distorted molecules!

Was an honour for our collaboration with Sarosh Irani's group to be recognised with the PNAS Cozzarelli Prize #immunoinformatics #encephalitis #autoreactivity #bcells

Do you wish working with T-cell receptor structures was easier? Us too! STCRpy, our software suite for TCR structure parsing, interaction profiling and machine learning dataset preparation is now available! Github: github.com/npqst/stcrpy/ Pre-print: doi.org/10.1101/2025.0… 1/3

Come and find OPIG at #PEGSummit today (Thursday) C089: LICHEN: Light-Chain Immunoglobulin Sequence Generation Conditioned on the Heavy Chain and Experimental Needs - Henriette Capel C090: Predicting the Developability of Nanobodies to Improve Therapeutic Design - Gemma Gordon

Our work exploring the ability of and requirements for ML to predict the effects of mutations on antibody–antigen binding affinity (ΔΔG) is out now in Nature Computational Science!

Our paper "Transformers trained on proteins can learn to attend to Euclidean distance" is now published in Transactions on Machine Learning Research Accepted papers at TMLR openreview.net/forum?id=mU59b… We investigate how models like AlphaFold3 and ESM2 learn to reason about structural data using standard inner-product attention

Our preprint, LICHEN: Light-chain Immunoglobulin sequence generation Conditioned on the Heavy chain and Experimental Needs, is now on bioRxiv. LICHEN is a machine learning tool to generate an appropriate light sequence for a given heavy sequence. biorxiv.org/content/10.110…