Publications by Computational Biology and Bioinformatics

Nissley, D. et al. (2025) “Use of Molecular Simulations to Understand Structural Dynamics of Antibodies”, in Biopharmaceutical Informatics. Taylor & Francis, pp. 201–227.

Ellmen, I., Raybould, M. and Deane, C. (2025) “The protein universe in 3D”, Nature Chemical Biology, 21(1), pp. 27–28.

Sanchez-Garcia, R. et al. (2025) “Supervised Deep Learning for Efficient Cryo-EM Image Alignment in Drug Discovery with cryoPARES”, bioRxiv.

Ellmen, I. et al. (2025) “Transformers trained on proteins can learn to attend to Euclidean distance”, Transactions on Machine Learning Research, July-2025.

Christopher, J. et al. (2025) “Global Proteomics Indicates Subcellular-Specific Anti-Ferroptotic Responses to Ionizing Radiation”, Molecular & Cellular Proteomics, 24(1), p. 100888.

Segura, J. et al. (2025) “Multi-scale structural similarity embedding search across entire proteomes”, bioRxiv.

Quast, N., Deane, C. and Raybould, M. (2025) “STCRpy: a software suite for T cell receptor structure parsing, interaction profiling and machine learning dataset preparation”, bioRxiv.

Adams, J. et al. (2025) “Individualised Counterfactual Examples Using Conformal Prediction Intervals”, in Proceedings of Machine Learning Research, pp. 425–444.

Condado-Morales, I. et al. (2024) “A comparative study of the developability of full-length antibodies, fragments, and bispecific formats reveals higher stability risks for engineered constructs”, mAbs, 16(1), p. 2403156.

Hung, E., Mantziou, A. and Reinert, G. (2024) “A Bayesian mixture model for Poisson network autoregression.”