Paweł Mackiewicz

The paper analyzes codon usage evolution in SARS-CoV-2 genes, showing different adaptation trends between structural, non-structural, and accessory proteins.

This study shows that AMP prediction benchmarks are biased due to negative data selection and introduces a web server for fair benchmarking.

The paper evaluates the genetic code's structure using graph clustering principles, showing it is not globally optimal but has many locally optimal codon groups.

The paper investigates the theoretical aspects of extending the genetic code to include non-canonical amino acids by optimizing codon assignments for robustness and minimizing reversion.

The paper proposes a stepwise method to extend the standard genetic code using non-canonical base pairs, leveraging graph theory to analyze codon relationships and improve mutation robustness.