Publications

Full list of publications in Google Scholar · * denotes equal contribution

2026

Neural Signals Generate Clinical Notes in the Wild
Jathurshan Pradeepkumar, Zheng Chen, and Jimeng Sun
arXiv preprint 2026 (In review at ICML 2026)
First Clinical EEG Language Model!
Paper Code
Tokenizing Single-Channel EEG with Time-Frequency Motif Learning ICLR 2026
Jathurshan Pradeepkumar, Xihao Piao, Zheng Chen, and Jimeng Sun
The Fourteenth International Conference on Learning Representations 2026 (alsoSpotlight at NeurIPS TS4H 2025)
Single-Channel EEG Tokenizer to enhance EEG FMs and scale to ear-EEG!
Paper Code Poster
Automatically Labeling Clinical Trial Outcomes: A Large-Scale Benchmark for Drug Development Nature Health
Chufan Gao*, Jathurshan Pradeepkumar*, Trisha Das*, Shivashankar Thati, and Jimeng Sun.
Nature Health 2026
Paper Project Page Code Dataset Webinar Introduction Video
ODEBrain: Continuous-Time EEG Graph for Modeling Dynamic Brain Networks ICLR 2026
Haohui Jia, Zheng Chen, Lingwei Zhu, Rikuto Kotoge, Jathurshan Pradeepkumar, Yasuko Matsubara, Jimeng Sun, Yasushi Sakurai, and Takashi Matsubara
The Fourteenth International Conference on Learning Representations 2026
Paper
How Well do Multimodal Models Reason on ECG Signals?
Maxwell A Xu, Harish Haresamudram, Catherine Wei Liu, Patrick Langer, Jathurshan Pradeepkumar, Wanting Mao, Sunita Ferns, Aradhana Verma, Jimeng Sun, Paul Schmiedmayer, Xin Liu, Daniel McDuff, Emily Fox and James Rehg
(In review at ICML 2026)
PyHealth 2.0: A Comprehensive Open-Source Toolkit for Accessible and Reproducible Clinical Deep Learning
John Wu, Yongda Fan, Zhenbang Wu, Paul Landes, Eric Schrock, Sayeed Sajjad Razin, Arjun Chatterjee, Naveen Baskaran, Joshua Steier, Andrea Fitzpatrick, Bilal Arif, Rian Atri, Jathurshan Pradeepkumar, Siddhartha Laghuvarapu, Junyi Gao, Adam R Cross, and Jimeng Sun
arXiv preprint 2026 (In review at ICML 2026)
Paper Code Documentation

2025

Survivorship Navigator: Personalized Survivorship Care Plan Generation using Large Language Models AMIA 2025
Jathurshan Pradeepkumar , Shivam Pankaj Kumar, Courtney Bryce Reamer, Marie Dreyer, Jyoti Patel, David Liebovitz, and Jimeng Sun.
AMIA 2025 Annual SymposiumOral
Paper Code Demo Introduction Video
Prostate-VarBench: A Benchmark with Interpretable TabNet Framework for Prostate Cancer Variant Classification ML4H 2025
Abraham Francisco Arellano Tavara, Umesh Kumar, Jathurshan Pradeepkumar, and Jimeng Sun
Machine Learning for Health 2025
I mentored this research project (PyHealth Research Initiative)!
Paper Code
TrialPanorama: Database and Benchmark for Systematic Review and Design of Clinical Trials
Zifeng Wang, Qiao Jin, Jiacheng Lin, Junyi Gao, Jathurshan Pradeepkumar, Pengcheng Jiang, Benjamin Danek, Zhiyong Lu, and Jimeng Sun
arXiv preprint 2025
Paper Code Dataset

2024

Towards Interpretable Sleep Stage Classification using Cross-Modal Transformers IEEE-TNSRE 2024
Jathurshan Pradeepkumar, Mithunjha Anandakumar, Vinith Kugathasan, Dhinesh Suntharalingham, Simon L Kappel, Anjula C De Silva, Chamira US Edussooriya.
IEEE Transactions on Neural Systems and Rehabilitation Engineering 2024
Paper Code
Automated survivorship care plan generation using large language models. ASCO 2024
Jathurshan Pradeepkumar , David Liebovitz, Jyoti D Patel, and Jimeng Sun.
American Society of Clinical Oncology 2024
Paper

2023

A Knowledge Distillation Framework for Enhancing Ear-EEG Based Sleep Staging with Scalp-EEG Data IEEE-SMC 2023
Mithunjha Anandakumar*, Jathurshan Pradeepkumar*, Simon L Kappel, Chamira US Edussooriya, and Anjula C De Silva.
IEEE International Conference on Systems, Man, and Cybernetics 2023
Paper Code
Quantification of Cells in Native Tissues with Object Detection and Weak Supervision
Rusiru Thushara*, Jathurshan Pradeepkumar*, Joshua Corrigan, Bevin Engelward, and Dushan Wadduwage.
Optical Society of America 2023
Paper
Contrastive Deep Encoding Enables Uncertainty-aware Machine-learning-assisted Histopathology
Nirhoshan Sivaroopan, Chamuditha Jayanga, Chalani Ekanayake, Hasindri Watawana, Jathurshan Pradeepkumar, Mithunjha Anandakumar, Ranga Rodrigo, Chamira Edussooriya, and Dushan Wadduwage.
arXiv preprint 2023
Paper

2022

Towards Accurate Cross-domain In-bed Human Pose Estimation ICASSP 2022
Mohamed Afham*, Udith Haputhanthri*, Jathurshan Pradeepkumar*, Mithunjha Anandakumar, Ashwin De Silva, and Chamira US Edussooriya.
IEEE International Conference on Acoustics, Speech and Signal Processing 2022
Paper Code

2021

Decoding of Hand Gestures from Electrocorticography with LSTM based Deep Neural Network EMBC 2021
Jathurshan Pradeepkumar, Mithunjha Anandakumar, Vinith Kugathasan, Thilina D Lalitharatne, Anjula C De Silva, and Simon L Kappel.
43rd Annual International Conference of the IEEE Engineering in Medicine & Biology Society 2021
Paper
Physics Augmented U-Net: A High-Frequency Aware Generative Prior for Microscopy
Jathurshan Pradeepkumar, Mithunjha Anandakumar, Vinith Kugathasan, Andrew Seeber, and Dushan N Wadduwage.
bioRxiv preprint 2021
Paper

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