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
2 months 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
4 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
4 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/
10 months ago
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reposted by
Nele Quast
Oxford Protein Informatics Group (OPIG)
about 1 year 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)
about 1 year 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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