GPX: A Tool for the Exploration and Visualization of Genome Evolution. - Neha Nahar; Lutz Hamel; Maria S. Poptsova; J. Peter Gogarten (BIBE, 2007)

Unsupervised Learning in Spectral Genome Analysis. - Lutz Hamel; Neha Nahar; Maria S. Poptsova; Olga Zhaxybayeva; J. Peter Gogarten (FBIT, 2007)

BranchClust: a phylogenetic algorithm for selecting gene families. - Maria S. Poptsova; J. Peter Gogarten (BMC Bioinform., 2007)

Quartet decomposition server: a platform for analyzing phylogenetic trees. - Fenglou Mao; David Williams 003; Olga Zhaxybayeva; Maria S. Poptsova; Pascal Lapierre; J. Peter Gogarten; Ying Xu 001 (BMC Bioinform., 2012)

Kolmogorov-Arnold networks for genomic tasks. - Oleksandr Cherednichenko; Maria S. Poptsova (Briefings Bioinform., 2025)

Data augmentation with generative models improves detection of Non-B DNA structures. - Oleksandr Cherednichenko; Maria S. Poptsova (Comput. Biol. Medicine, 2025)