Aleksandr B. Sahakyan

This paper shows that incorporating prior knowledge of sequence context-driven DNA fragmentation probabilities improves de novo genome assembly, especially for ultrashort reads.

The paper identifies sequence determinants of long-range chromatin contacts across cell types, showing AT-rich sequences and heterochromatin association.

The paper provides a database of quantum mechanical and geometric features for DNA k-mers and demonstrates their use in predicting A to C mutation rate constants.

Optimus is an R-based optimisation engine that enables flexible and adaptive parameter sampling for computational biology tasks.

The paper investigates how G-quadruplex structures influence DNA damage propensity at different sites and shows that damage patterns vary depending on G4 strength and strand localization.