Indika Rajapakse

Indika Rajapakse is a Professor of Mathematics and affiliated as a Professor of Computational Medicine and Bioinformatics at the University of Michigan. His primary affiliation is with the Department of Mathematics within the College of Literature, Science, and the Arts (LSA). He can be reached at indikar@umich.edu. Rajapakse’s research bridges mathematical theory and biomedical applications, focusing on genomic organization, hypergraph modeling, and computational methods for cell reprogramming and disease analysis.

His research interests include mathematical biology, genomics, and systems biology, with a particular emphasis on understanding how genome architecture influences cellular identity and function. He develops tools like the 4DNvestigator and Bioinformatics Retrieval Augmentation Data (BRAD) system to analyze genomic and transcriptomic data. His work also explores machine learning applications in medicine, such as adversarial immune-inspired learning systems and language model integration in digital biology.

Rajapakse’s publications highlight trends in hypergraph theory for biological networks, dynamic sensor selection for biomarkers, and computational platforms for medical research. He has contributed to studies on obesity-driven immune network disruptions, lineage-specific chromosomal topologies, and the role of macrophages in diabetes. His research often combines mathematical frameworks with experimental biology to address clinical and theoretical challenges.

He advises students through the Mathematics department at U-M and collaborates on grants related to genome dynamics and computational medicine. Notable projects include developing the SEWAL platform for genomic data analysis and exploring the 4D Nucleome’s functional organization. Rajapakse’s interdisciplinary work advances both fundamental biology and translational medical research.