Researches

Integrated histopathology–transcriptomic biomarker enhances survival prediction in HNSCC patients treated with immunotherapy
Nitya Thakkar, Merzu Belete, Indu Khatri, Meijian Guan, Yu Sun, Anantharaman Muthuswamy, Iris Kolder, Han Si, David Soong, Brandon W Higgs, Lauren K Brady, James Zou, Sriram Sridhar
Jun 2026
DOI
Characterization of menopause onset and associated disease risks using large-scale electronic health records
Nitya Thakkar, Rajita Patil, Rebecca Levy-Gantt, Yulin Hswen, Monica Agrawal, James Zou, Irene Y Chen
May 2026
DOI
A large-scale randomized study of large language model feedback in peer review
Nitya Thakkar, Mert Yuksekgonul, Jake Silberg, Animesh Garg, Nanyun Peng, Fei Sha, Rose Yu, Carl Vondrick, James Zou
Feb 2026
Code DOI
Predicting A/B compartments from histone modifications using deep learning
Suchen Zheng, Nitya Thakkar, Hannah L. Harris, Megan Zhang, Susanna Liu, Mark Gerstein, Erez Lieberman Aiden, Jordan Rowley, William Stafford Noble, Gamze Gürsoy, Ritambhara Singh
May 2024
Code DOI
Protein generation with evolutionary diffusion: sequence is all you need
Sarah Alamdari, Nitya Thakkar, Rianne van den Berg, Alex X. Lu, Nicolo Fusi, Ava P. Amini, Kevin K. Yang
Sep 2023
Code DOI
Using Graph Neural Networks to Model the Glioblastoma Free Energy Landscape
Nitya Thakkar, Ritambhara Singh
May 2023
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Jan 0001