A New Computationally Efficient Measure of Topological Redundancy of Biological and Social Networks - Réka Albert; Bhaskar DasGupta; Anthony Gitter; Gamze Gürsoy; Rashmi Hegde; Pradyut Paul; Gowri Sangeetha Sivanathan; Eduardo D. Sontag (CoRR, 2011)

Computational predictions of structures of multichromosomes of budding yeast. - Gamze Gürsoy; Yun Xu; Jie Liang 002 (EMBC, 2014)

Spatial organization of the budding yeast genome in the cell nucleus and identification of specific chromatin interactions from multi-chromosome constrained chromatin model. - Gamze Gürsoy; Yun Xu; Jie Liang 002 (PLoS Comput. Biol., 2017)

Session Introduction. - Gamze Gürsoy; Arif Ozgun Harmanci; Haixu Tang; Erman Ayday; Steven E. Brenner (PSB, 2019)

Navigating Ethical Quandaries with the Privacy Dilemma of Biomedical Datasets. - Gamze Gürsoy; Megan Doerr; John Wilbanks; Jennifer K. Wagner; Haixu Tang; Steven E. Brenner (PSB, 2020)

DiNeR: a Differential graphical model for analysis of co-regulation Network Rewiring. - Jing Zhang 062; Jason Liu 003; Donghoon Lee 006; Shaoke Lou; Zhanlin Chen; Gamze Gürsoy; Mark Gerstein (BMC Bioinform., 2020)

Fast and Scalable Private Genotype Imputation Using Machine Learning and Partially Homomorphic Encryption. - Esha Sarkar; Eduardo Chielle; Gamze Gürsoy; Oleg Mazonka; Mark Gerstein; Michail Maniatakos (IEEE Access, 2021)

FANCY: fast estimation of privacy risk in functional genomics data. - Gamze Gürsoy; Charlotte M. Brannon; Fabio C. P. Navarro; Mark Gerstein (Bioinform., 2021)

A consortium blockchain for secure, unified, and efficient sharing of EHR and genomics data. - Ahmed Elhussein; Gamze Gürsoy (AMIA, 2022)

How to Achieve Privacy in Large Diverse Health Systems. - Gamze Gürsoy; Bradley A. Malin; Erman Ayday; Ellen Wright Clayton (AMIA, 2022)

Privacy-preserving Model Training for Disease Prediction Using Federated Learning with Differential Privacy. - Amol Khanna; Vincent Schaffer; Gamze Gürsoy; Mark Gerstein (EMBC, 2022)

Scalable privacy-preserving cancer type prediction with homomorphic encryption. - Esha Sarkar; Eduardo Chielle; Gamze Gürsoy; Leo Chen; Mark Gerstein; Michail Maniatakos (CoRR, 2022)

A generalizable physiological model for detection of Delayed Cerebral Ischemia using Federated Learning. - Ahmed Elhussein; Jude P. Savarraj; E. Sander Connolly; Murad Megjhani; Soon Bin Kwon; Angela Velazquez; Daniel Nametz; David J. Roh; Jan Claassen; Miriam Weiss; Sachin Agarwal 005; Huimahn A. Choi; et al. (BIBM, 2023)

Privacy-preserving patient clustering for personalized federated learnings. - Ahmed Elhussein; Gamze Gürsoy (MLHC, 2023)

Privacy-preserving patient clustering for personalized federated learning. - Ahmed Elhussein; Gamze Gürsoy (CoRR, 2023)

LDmat: efficiently queryable compression of linkage disequilibrium matrices. - Rockwell J. Weiner; Chirag M. Lakhani; David A. Knowles; Gamze Gürsoy (Bioinform., 2023)

Recent Advances, Applications, and Open Challenges in Machine Learning for Health: Reflections from Research Roundtables at ML4H 2023 Symposium. - Hyewon Jeong; Sarah Jabbour; Yuzhe Yang 003; Rahul Thapa; Hussein Mozannar; William Jongwon Han; Nikita Mehandru; Michael Wornow; Vladislav Lialin; Xin Liu 034; Alejandro Lozano; Jiacheng Zhu; et al. (CoRR, 2024)

A Universal Metric of Dataset Similarity for Cross-silo Federated Learning. - Ahmed Elhussein; Gamze Gürsoy (CoRR, 2024)

Optimal Defenses Against Gradient Reconstruction Attacks. - Yuxiao Chen; Gamze Gürsoy; Qi Lei (CoRR, 2024)

On the overflow and p-adic theory applied to homomorphic encryption. - Jacob A. Blindenbach; Jung Hee Cheon; Gamze Gürsoy; Jiayi Kang (IACR Cryptol. ePrint Arch., 2024)

Privacy-preserving model evaluation for logistic and linear regression using homomorphically encrypted genotype data. - Seungwan Hong 001; Yoolim A. Choi; Daniel S. Joo; Gamze Gürsoy (J. Biomed. Informatics, 2024)

KEEP: Integrating Medical Ontologies with Clinical Data for Robust Code Embeddings. - Ahmed Elhussein; Paul Meddeb; Abigail Newbury; Jeanne Mirone; Martin Stoll; Gamze Gürsoy (CHIL, 2025)

ScatTR: Estimating the Size of Long Tandem Repeat Expansions from Short-Reads. - Rashid Al-Abri; Gamze Gürsoy (RECOMB, 2025)

Multi-domain rule-based phenotyping algorithms enable improved GWAS signal. - Abigail Newbury; Ahmed Elhussein; Gamze Gürsoy (npj Digit. Medicine, 2025)

PLayer-FL: A Principled Approach to Personalized Layer-wise Cross-Silo Federated Learning. - Ahmed Elhussein; Gamze Gürsoy (CoRR, 2025)