PUBLICATIONS

2025

1. 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},
   }

2. 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},
   }

2023

1. JAMIA

   Using artificial intelligence to learn optimal regimen plan for Alzheimer’s disease

   Bhattarai, Kritib,  Rajaganapathy, Sivaraman, Das, Trisha, Kim, Yejin, Chen, Yongbin, Initiative, Alzheimer’s Disease Neuroimaging, Biomarkers, Australian Imaging, Ageing, Lifestyle Flagship Study, Dai, Qiying,  Li, Xiaoyang and 2 more authors

   Journal of the American Medical Informatics Association 2023

   Bib LINK

   @article{bhattarai2023using,
     title = {Using artificial intelligence to learn optimal regimen plan for Alzheimer’s disease},
     author = {Bhattarai, Kritib and Rajaganapathy, Sivaraman and Das, Trisha and Kim, Yejin and Chen, Yongbin and Initiative, Alzheimer’s Disease Neuroimaging and Biomarkers, Australian Imaging and of Ageing, Lifestyle Flagship Study and Dai, Qiying and Li, Xiaoyang and Jiang, Xiaoqian and others},
     journal = {Journal of the American Medical Informatics Association},
     volume = {30},
     number = {10},
     pages = {1645--1656},
     year = {2023},
     publisher = {Oxford University Press},
   }

2. 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},
   }

2022

1. APS

   Confidence bounds for the Jarzynski estimator

   Rajaganapathy, Sivaraman, Hua, Cailong,  and Salapaka, Murti

   Bulletin of the American Physical Society 2022

   Bib LINK

   @article{rajaganapathy2022confidence,
     title = {Confidence bounds for the Jarzynski estimator},
     author = {Rajaganapathy, Sivaraman and Hua, Cailong and Salapaka, Murti},
     journal = {Bulletin of the American Physical Society},
     year = {2022},
     publisher = {APS},
   }

2. 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},
   }

2019

1. 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},
   }

2018

1. ACC

   Learning and estimation of single molecule behavior

   Rajaganapathy, Sivaraman, Melbourne, James, Aggarwal, Tanuj, Shrivastava, Rachit,  and Salapaka, Murti V

   In 2018 Annual American Control Conference (ACC) 2018

   Bib LINK

   @inproceedings{rajaganapathy2018learning,
     title = {Learning and estimation of single molecule behavior},
     author = {Rajaganapathy, Sivaraman and Melbourne, James and Aggarwal, Tanuj and Shrivastava, Rachit and Salapaka, Murti V},
     booktitle = {2018 Annual American Control Conference (ACC)},
     pages = {5125--5130},
     year = {2018},
     organization = {IEEE},
   }