Vasilisa A. Kovaleva

The paper develops a framework to analyze long-term sequence dynamics from context-dependent mutation processes, applied to somatic hypermutation in antibodies, revealing mutational biases and their effects on sequence evolution.

The paper analyzes the prevalence of human T-cell epitopes in microbial proteomes, finding significant overlap with HLA-I and HLA-II ligands, suggesting potential pro-inflammatory effects of molecular mimicry.

This paper introduces copepodTCR, a tool for designing and interpreting TCR specificity assays, which efficiently identifies antigen-specific TCRs using combinatorial peptide pooling and Bayesian modeling.