Non-B DNA
- Ylagan, M., Xu, Q. and Kowalski, J.* (2024) TTSBBC: triplex target site biomarkers and barcodes in cancer. Nucleic Acids Research, gkae312. https://doi.org/10.1093/nar/gkae312
- Xu, Q., del Mundo, I.M.A., Zewail-Foote, M., Luke, B.T., Vasquez, K.M.* and Kowalski, J.* (2024) MoCoLo: a testing framework for motif co-localization. Briefings in Bioinformatics, 25, bbae019. https://doi.org/10.1093/bib/bbae019
- Xu, Q. and Kowalski, J.* (2023) NBBC: a non-B DNA burden explorer in cancer. Nucleic Acids Research, 51, W357-W364. https://doi.org/10.1093/nar/gkad379
Cancer Clinical Genomics
- Kowalski, J.*, Xu, Q., Ylagan, M., Hurtado-Castillo, M., Aldawoodi, T., Meyyappan, D., Goodgame, B., Mahadevan, D. and Capasso, A. (2024) PACMIDS: Patient-Centered, AI-Enabled, Molecular-Informed Data Fabric for Clinical Treatment Decision Support. AI in Precision Oncology, 1, 127-144. https://doi.org/10.1089/aipo.2024.0006
- Xu, Q. and Kowalski, J.* (2023) myCMIE: My cancer molecular information exchange. iScience, 26, 107324. https://doi.org/10.1016/j.isci.2023.107324