Nele Quast
@nele-q.bsky.social
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Deep learning for Biologics @ Oxford Protein Informatics Group
I'm really pleased that our collaboration with Shira Sagie, Tomer Babu and Yardena Samuels has been published in Cell Reports Medicine. This has been a really fun and productive collaboration as well as an incredible learning process.
www.cell.com/cell-reports...
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Lymphodepleting chemotherapy potentiates neoantigen-directed T cell therapy by enhancing antigen presentation
Sagie et al. identify a KRAS.G12V-specific TCR and show that lymphodepleting chemotherapy enhances antigen presentation via immunoproteasome activation and HLA-I upregulation. Together, these changes ...
https://www.cell.com/cell-reports-medicine/fulltext/S2666-3791(25)00579-8
13 days ago
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STCRpy, an easy-to-use python package for T-cell receptor structures has just been published in Bioinformatics! Big thanks to
@mraybould.bsky.social
and Charlotte Deane for their support, and to
@opig.stats.ox.ac.uk
for being an amazing collaborative group! Paper:
doi.org/10.1093/bioi...
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STCRpy: a software suite for T-cell receptor structure parsing, interaction profiling, and machine learning dataset preparation
AbstractSummary. Computational methods to guide early-stage TCR drug discovery and TCR repertoire informatics currently under-utilize solved and predicted
https://doi.org/10.1093/bioinformatics/btaf566
2 months ago
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We won the Boltz Hackathon Challenge improving computational efficiency! Big thanks to Boltz team and
@merckgroup.bsky.social
for the event and very proud of our prototype Boltz Flow Matching model. Huge thanks to Niklas Abraham and Aaron Schöne for being excellent collaborators!
ms.spr.ly/6043tBeAL
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https://www.merckgroup.com/en/news/protein-folding-hackathon-27-10-2025.html?utm_source=linkedin&utm_medium=social-media-organic&utm_content=100008869329958&utm_campaign=12088_Protein-Design-campaign_Innovation
2 months ago
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Do you wish working with T-cell receptor structures was easier? Us too! STCRpy, our software suite for T cell receptor structure parsing, interaction profiling and machine learning dataset preparation is now available! Github:
github.com/npqst/stcrpy/
Pre-print:
www.biorxiv.org/content/10.1...
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GitHub - npqst/STCRpy
Contribute to npqst/STCRpy development by creating an account on GitHub.
https://github.com/npqst/stcrpy/
8 months ago
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reposted by
Nele Quast
Oxford Protein Informatics Group (OPIG)
11 months ago
Applications are now open for UNIQ+
@ox.ac.uk
(deadline Wed 19 February 2025)! We're delighted to be offering a project on Nanobody Language Modelling. Learn about deep learning and language modelling and gain experience applying these methods to nanobody sequences
www.ox.ac.uk/admissions/g...
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UNIQ+ | University of Oxford
UNIQ+ Research Internships are aimed at talented undergraduates from under-represented groups, who would find continuing into postgraduate study a challenge for reasons other than their academic
https://www.ox.ac.uk/admissions/graduate/access/uniq-plus
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reposted by
Nele Quast
Oxford Protein Informatics Group (OPIG)
12 months ago
OPIG is now on Bluesky! Follow us for updates about the group's latest work, web app updates, and more.
opig.stats.ox.ac.uk
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OPIG
Oxford Protein Informatics Group
https://opig.stats.ox.ac.uk/
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