EVE is a VAE-based generative method for Variant effect prediction prediction that is trained on MSAs (1).
Ref (1)
Variations
- EVEscape uses EVE results, solvent accessibility, and hydrophobicity/charge changes to predict the probability of specific amino acids to occur during antibody escape of viral proteins (2). It was spplied to the Spike protein of SARS-CoV-2.
1.
Frazer J, Notin P, Dias M, Gomez A, Min JK, Brock K, et al. Disease variant prediction with deep generative models of evolutionary data. Nature. 2021;599(7883):91–5. Available from: https://doi.org/10.1038/s41586-021-04043-8
2.
Thadani NN, Gurev S, Notin P, Youssef N, Rollins NJ, Ritter D, et al. Learning from prepandemic data to forecast viral escape. Nature. 2023;622(7984):818–25. Available from: https://doi.org/10.1038/s41586-023-06617-0