Sivaraman Rajaganapathy

Harwick Building,

200 First St. SW,

Rochester MN 55905

I am a Research Fellow at the Department of Artificial Intelligence and Informatics, Mayo Clinic. I obtained my Ph.D. from the University of Minnesota, Twin-Cities in Electrical and Computer Engineering with a minor in Computer Science. I was advised by Prof. Murti Salapaka. My thesis was on the development of experimental as well as analytical tools needed to model the mechanical properties of proteins at the single molecule scale. My research is at the intersection of system identification, biophysics, statistical mechanics, and machine learning.

CV | Google Scholar | GitHub | LinkedIn

Email: sivaraman.rajaganapathy@gmail.com

Selected Publications

ICML

A Physics-Augmented Deep Learning Framework for Classifying Single Molecule Force Spectroscopy Data

Hua, Cailong, Rajaganapathy, Sivaraman, Slick, Rebecca A, Vavra, Joseph, Muretta, Joseph M, Ervasti, James M, and Salapaka, Murti

In Forty-second International Conference on Machine Learning 2025

Bib LINK

@inproceedings{huaphysics,
  title = {A Physics-Augmented Deep Learning Framework for Classifying Single Molecule Force Spectroscopy Data},
  author = {Hua, Cailong and Rajaganapathy, Sivaraman and Slick, Rebecca A and Vavra, Joseph and Muretta, Joseph M and Ervasti, James M and Salapaka, Murti},
  booktitle = {Forty-second International Conference on Machine Learning},
  year = {2025},
}

NPJ HS

Synoptic reporting by summarizing cancer pathology reports using large language models

Rajaganapathy, Sivaraman, Chowdhury, Shaika, Li, Xiaodi, Buchner, Vincent, He, Zhe, Zhang, Rui, Jiang, Xiaoqian, Yang, Ping, Cerhan, James R, and Zong, Nansu

npj Health Systems 2025

Bib LINK

@article{rajaganapathy2025synoptic,
  title = {Synoptic reporting by summarizing cancer pathology reports using large language models},
  author = {Rajaganapathy, Sivaraman and Chowdhury, Shaika and Li, Xiaodi and Buchner, Vincent and He, Zhe and Zhang, Rui and Jiang, Xiaoqian and Yang, Ping and Cerhan, James R and Zong, Nansu},
  journal = {npj Health Systems},
  volume = {2},
  number = {1},
  pages = {11},
  year = {2025},
  publisher = {Nature Publishing Group UK London},
}

JBC

Phosphorylation alters the mechanical stiffness of a model fragment of the dystrophin homologue utrophin

Ramirez, Maria Paz, Rajaganapathy, Sivaraman, Hagerty, Anthony R, Hua, Cailong, Baxter, Gloria C, Vavra, Joseph, Gordon, Wendy R, Muretta, Joseph M, Salapaka, Murti V, and Ervasti, James M

Journal of Biological Chemistry 2023

Bib LINK

@article{ramirez2023phosphorylation,
  title = {Phosphorylation alters the mechanical stiffness of a model fragment of the dystrophin homologue utrophin},
  author = {Ramirez, Maria Paz and Rajaganapathy, Sivaraman and Hagerty, Anthony R and Hua, Cailong and Baxter, Gloria C and Vavra, Joseph and Gordon, Wendy R and Muretta, Joseph M and Salapaka, Murti V and Ervasti, James M},
  journal = {Journal of Biological Chemistry},
  volume = {299},
  number = {2},
  year = {2023},
  publisher = {Elsevier},
}

Automatica

Change detection using an iterative algorithm with guarantees

Rajaganapathy, Sivaraman, Melbourne, James, and Salapaka, Murti V

Automatica 2022

Bib LINK

@article{rajaganapathy2022change,
  title = {Change detection using an iterative algorithm with guarantees},
  author = {Rajaganapathy, Sivaraman and Melbourne, James and Salapaka, Murti V},
  journal = {Automatica},
  volume = {136},
  pages = {110075},
  year = {2022},
  publisher = {Elsevier},
}

Sci.Rep.

Distinct mechanical properties in homologous spectrin-like repeats of utrophin

Rajaganapathy, Sivaraman, McCourt, Jackie L, Ghosal, Sayan, Lindsay, Angus, McCourt, Preston M, Lowe, Dawn A, Ervasti, James M, and Salapaka, Murti V

Scientific reports 2019

Bib LINK

@article{rajaganapathy2019distinct,
  title = {Distinct mechanical properties in homologous spectrin-like repeats of utrophin},
  author = {Rajaganapathy, Sivaraman and McCourt, Jackie L and Ghosal, Sayan and Lindsay, Angus and McCourt, Preston M and Lowe, Dawn A and Ervasti, James M and Salapaka, Murti V},
  journal = {Scientific reports},
  volume = {9},
  number = {1},
  pages = {1--11},
  year = {2019},
  publisher = {Nature Publishing Group},
}