Jeanne Kowalski

The paper introduces NBBC, a web-based tool for quantifying non-B DNA motifs in cancer, and provides a detailed protocol for its use in analyzing genomic stability and mutation signatures.

This paper introduces two novel markers, nbTMB and mlTNB, to improve prediction of treatment response and outcomes in cancer by incorporating non-B DNA mutation information.

The paper introduces TTSBBC, a platform for analyzing and visualizing TFO target site sequences to aid in designing and validating TTSs.

The paper introduces methods to identify molecular alterations that frequently co-occur across cancer models, aiming to discover cancer maintenance markers and inform translational study design.

MoCoLo tests motif co-localization by analyzing reciprocal co-occurrence and accounting for confounders, confirming histone marker co-occurrence and oxidative DNA damage localization.

NOJAH is an interactive tool for genome-wide cluster analysis and heatmap construction, providing replicable results through integrated workflows and documentation.