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Publications by Computational Biology and Bioinformatics

Fischer, A., Reinert, G. and Xu, W. (2025) “Stein’s method of moment estimators for local dependency exponential random graph models.”
Quast, N. et al. (2025) “T-cell receptor structures and predictive models reveal comparable alpha and beta chain structural diversity despite differing genetic complexity”, Communications Biology, 8(1).
Wirth, L., Aminian, G. and Reinert, G. (2025) “Private Synthetic Graph Generation and Fused Gromov-Wasserstein Distance.”
Hu, S. et al. (2025) “Fine-scale population structure and widespread conservation of genetic effect sizes between human groups across traits”, Nature Genetics, 57(2), pp. 379–389.
He, Y. et al. (2025) “Learning to Fuse Temporal Proximity Networks: A Case Study in Chimpanzee Social Interactions”, arXiv.
Lo, T., Reinert, G. and Zhang, R. (2025) “Isolated vertices in two duplication-divergence models with edge deletion.”
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.
Ellmen, I. et al. (2025) “Transformers trained on proteins can learn to attend to Euclidean distance”, Transactions on Machine Learning Research, July-2025.
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.