Integration of molecular coarse-grained model into geometric representation learning framework for protein-protein complex property prediction
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DOI: 10.1038/s41467-024-53583-w
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- Patrick Bryant & Gabriele Pozzati & Arne Elofsson, 2022. "Author Correction: Improved prediction of protein-protein interactions using AlphaFold2," Nature Communications, Nature, vol. 13(1), pages 1-1, December.
- Patrick Bryant & Gabriele Pozzati & Arne Elofsson, 2022. "Improved prediction of protein-protein interactions using AlphaFold2," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
- Josh Abramson & Jonas Adler & Jack Dunger & Richard Evans & Tim Green & Alexander Pritzel & Olaf Ronneberger & Lindsay Willmore & Andrew J. Ballard & Joshua Bambrick & Sebastian W. Bodenstein & David , 2024. "Accurate structure prediction of biomolecular interactions with AlphaFold 3," Nature, Nature, vol. 630(8016), pages 493-500, June.
- Seyed Ziaeddin Alborzi & Amina Ahmed Nacer & Hiba Najjar & David W Ritchie & Marie-Dominique Devignes, 2021. "PPIDomainMiner: Inferring domain-domain interactions from multiple sources of protein-protein interactions," PLOS Computational Biology, Public Library of Science, vol. 17(8), pages 1-18, August.
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