Oxford Protein Informatics Group (OPIG)
@OPIGlets
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Research group led by Charlotte Deane, based in the Department of Statistics at the University of Oxford.
Oxford, England
Joined November 2018
Work by Alex Greenshields-Watson, Odysseas Vavourakis, Fabian Spoendlin, @CagiadaMatteo Charlotte Deane
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Applications are now open for UNIQ+ @UniofOxford - deadline Wed 19 Feb 2025 We're delighted to be offering a project on Nanobody Language Modelling. Learn about deep learning and language modelling and apply these methods to nanobody sequences
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New blog post from 1st year DPhil student @NicholasRuncie on visualising cheminformatics data as molecular networks
🔥 Molecule networks 🔥 New cheminformatics data visualisation: 📊 Rapid interpretation of SAR 🔊 Find molecules in the noise ❌ No more lists of molecules My new favourite visualisation method! 🚀 Read how I visualise Free Wilson analysis here
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PhD opportunity! Up to 60 fully-funded places are available on the new ILESLA program @UniofOxford and partners across a wide range of research areas. Come work with us! Deadline: 29th January 2025 12:00 (midday) UK time
Two weeks to go until the application deadline for ILESLA. If you or anyone you know would benefit from full funding to carry out a PhD in Life and/or Environmental Science please visit/refer to their website where you can see open day videos and guidance
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"A new era, where AI is at the centre of the drug discovery process, is emerging" A recent @BBCNews article by @ZoeCorbyn exploring AI in drug discovery features Charlotte Deane
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PLAbDab-nano was formally published this week in Nucleic Acid Research's @NAR_Open annual database issue! Work led by DPhil student @GemmaLGordon. Read the paper and explore the database via our web app below. Paper: Database:
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Work involving Dan Nissley (from his Postdoc with @OPIGlets) shows the importance of running simulations of an antibody's "reach" to understand its viral neutralisation potential. Read the paper published in Nature Communications (@NatureComms) here:
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Happy 2025 from everyone at OPIG! DPhil student Isaac Ellmen has written a News & Views article for Nature Chemical Biology (@nchembio) reflecting on the impact of AlphaFold2 and remaining challenges in the field. Read "The Protein Universe in 3D" here:
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The @OPIGlets are out in force at @NeurIPSConf - check out our work at the @workshopmlsb and AIDrugX workshops today. @lucyvost, @nelequast and Nikhil Branson are presenting work on diffusion for small molecules, protein flexibility estimation and deep drug response models!
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RT @benjie_mcmaster: I am happy to say this work is now published in Frontiers in Immunology! Again, I would like…
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RT @LewisChinery: Happy to share that Humatch, @OPIGlets new humanisation tool, is now available at mAbs - Please…
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Charlotte Deane will be presenting at this year's Medicine at the Crick event [Monday 18th November]. Her talk will be titled "How far are we from designing an antibody therapeutic on a computer?" Virtual tickets to the event are still available! #medicineatthecrick
Virtual tickets are still available for our #MedicineAtTheCrick event, exploring new frontiers in drug discovery. Speakers include @miklosbekes, @mmbronstein, @SagarLonialMD, @iDikic2 and many more. 📆 18 November, 9:30-17:15
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p-IgGen, our generative machine learning approach for paired-chain antibody library design, is now published in Bioinformatics. Work led by OPIG DPhil student Ollie Turnbull (@oliverturnbull1). Read the article here:
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We contributed to a correspondence article in @NatureBiotech detailing the AI-ntibody contest, a new initiative to benchmark in silico methods for antibody discovery/design against a modern in vitro screening approach. Read more here:
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Our paper describing AbLang2, an antibody-specific language model trained with focal loss to mitigate against germline bias, was published last week in Bioinformatics (@OUPBioinfo)! Work led by Tobias Olsen (@HegelundOlsen).
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OPIG DPhil @GuyDurant2 led a perspective piece on the future of machine learning for small molecule drug discovery. Now available @NatComputSci!
Excited to share our perspective article in Nature Computational Science! We explore how ML can transform small-molecule drug discovery, but holistically addressing data quality, diversity, and validation is key to breakthroughs. #AI #DrugDiscovery #ML
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Professor Charlotte Deane keynoted the Cadence Molecular Sciences (OpenEye) XXII life science event, and afterwards spoke with Dr. Geoff Skillman to consider the biggest challenges facing antibody therapeutics. Watch clips from their discussion here:
This year at CUP, OpenEye's Geoff Skillman talked with Charlotte Deane - Professor at the University of Oxford and the Executive Chair of the UK’s @EPSRC about some of the biggest challenges with antibody therapeutics. Watch their conversation here:
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OPIG DPhil Student @GemmaLGordon led efforts to accurately curate camelid (nanobody) and shark (VNAR) single-domain antibody sequences from the patent and academic literature. PLAbDab-Nano is now published @NAR_Open and can be searched on our website:
Our nanobody database (PLAbDab-nano) has now been published in @NAR_Open! We collate ~5000 nanobodies including VHHs and for the first time, VNARs, which add valuable CDR3 diversity for library design. You can find the paper here: 🦈🦙
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Posebusters, work by Martin @Buttenschoen, Garrett Morris (@gmm) & Charlotte Deane that identifies physically implausible molecular binding predictions, was featured by @nathanbenaich and @airstreet Capital in this year's State of AI Report. Full report:
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