Using graph theory to analyze biological networks. - Georgios A. Pavlopoulos; Maria Secrier; Charalampos N. Moschopoulos; Theodoros G. Soldatos; Sophia Kossida; Jan Aerts; Reinhard Schneider 002; Pantelis G. Bagos (BioData Min., 2011)

How neurons migrate: a dynamic in-silico model of neuronal migration in the developing cortex. - Yaki Setty; Chih-Chun Chen; Maria Secrier; Nikita Skoblov; Dimitrios Kalamatianos; Stephen Emmott (BMC Syst. Biol., 2011)

Arena3D: visualizing time-driven phenotypic differences in biological systems. - Maria Secrier; Georgios A. Pavlopoulos; Jan Aerts; Reinhard Schneider 002 (BMC Bioinform., 2012)

Visualizing time-related data in biology, a review. - Maria Secrier; Reinhard Schneider 002 (Briefings Bioinform., 2014)

Teaching pathology foundation models to accurately predict gene expression with parameter efficient knowledge transfer. - Shi Pan; Jianan Chen; Maria Secrier (CoRR, 2025)