Nataša Jonoska

The paper introduces an R-loop grammar to predict R-loop formation using sequence data and shows it outperforms previous methods across different DNA topologies.

The paper maps DNA-embedded ribonucleotides (rNMPs) across human cell types, revealing their non-random distribution and role as a novel epigenetic mark affecting gene expression.

SDRAP improves DNA rearrangement annotation by providing complete mappings, transparency, and flexibility for analyzing genomic data from different sources.

This study links RNA secondary structure to R-loop formation using tree-polynomial representations, identifying structural features predictive of R-loop formation.

This study shows that transcript RNA facilitates DSB repair in human cells through NHEJ and MMEJ, promoting repair or mediating RNA-templated repair based on sequence complementarity.

The paper describes the germline organization of highly scrambled genes in Oxytricha trifallax and introduces mathematical methods to analyze nesting and scrambling in chromosome rearrangements.