Associate Professor, Department of Computer and Data Sciences, Case School of Engineering
Privacy enhancing technologies, trustworthy AI, data security and applied cryptography.
Research Information
Research Interests
- Privacy enhancing technologies
- Trustworthy AI
- Adversarial AI
- Ethical computing
- Genomic privacy
- Fingerprinting correlated data and relational databases
Publications
- H. He, S. Xu, #A. Nemecek, J. Li, E. Ayday, G. Cheng, "Optimal Watermark Generation under Type I and Type II Errors," to appear in Biometrika, 2026.
- #W. Li, A. Halimi, J. Vaidya, X. Jiang, and E. Ayday, “Privacy-Preserving Verification of Preprocessing in Federated Learning for Genomic Data,” JAMIA Open, 2026.
- #W. Yue, Q. Guo, E. Ayday and R. French et al. "Federated Learning for 2D Synchrotron X-Ray Diffractometry: A Cross-Institutional Approach for Phase Quantification of Ti–6Al–4V Alloy" IOPscience, Machine Learning: Science and Technology, 2026.
- M. P. Aghdam, S. S. Tabrizi, *K. Ayöz, E. Ayday, S. Sav, A. E. Çiçek, “A reinforcement learning-based approach for dynamic privacy protection in genomic data sharing beacons”, Genome Biol 26, 400 (2025)
- #W. Li, A. Halimi, J. Vaidya, X. Jiang, and E. Ayday, “Privacy-preserving verification of ML preprocessing via model behavior indicators,” IEEE Trans. Priv., vol. PP, no. 99, pp. 1–16, 2025.
- #M. Namazi, M. Parahpoor, E. Ayday, and F. Perez-Gonzalez, “Privacy-Preserving Framework for Genomic Computations via Multi-Key Homomorphic Encryption”, Bioinformatics 2025
- X. Wang, # L. Dervishi, W. Li, E. Ayday, X. Jiang, J. Vaidya, “Privacy-preserving federated genome-wide association studies via dynamic sampling”, Bioinformatics 2024
- #O. Zafar, R. S. González, M. Namazi, A. Morales, E. Ayday, "Empowering Digital Agriculture: A Privacy-Preserving Framework for Data Sharing and Collaborative Research, to appear in The 21th Conference on Computer Science and Intelligence Systems (FedCSIS) 2026".
- #A. Nemecek, #W. Li, X. Jiang, J. Vaidya, E. Ayday, “Quantifying Memorization and Privacy Risks in Genomic Language Models”, to appear in ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB), 2026.
- #A. Nemecek, #Y. Jiang, and E. Ayday, “Watermarking Without Standards Is Not AI Governance,” to appear in the ICML Workshop on Technical AI Governance, 2026.
- R. Al-Saidi, E. Ayday, Z. Kobti, and R. Alseidi, “Is a Win-Win Possible? Achieving Pareto-Optimal Privacy-Utility Balance in Full Fine-Tuned Genome Language Model Embeddings Against Embedding Reconstruction Attack,” to appear in Intelligent Systems for Molecular Biology (ISMB), 2026.
- #A. Nemecek, E. Yilmaz, E. Ayday, "Cluster-Aware Attacks on Graph Watermarks," to appear in the 31st European Symposium on Research in Computer Security (ESORICS), 2026.
- #A. Nemecek, #Y. Jiang, and E. Ayday, “Topic-Based Watermarks for Large Language Models,” to appear in the 64th Annual Meeting of the Association for Computational Linguistics (ACL), 2026.
- #Y. Jiang, T. Ji, and E. Ayday, “PROVGEN: A Privacy-Preserving Approach for Outcome Validation in Genomic Research,” Proceedings of Privacy Enhancing Technologies (PoPETs), 2026.
- #A. Nemecek, #Y. Jiang, and E. Ayday, “The Feasibility of Topic-Based Watermarking on Academic Peer Reviews,” Proceedings of 14th International Joint Conference on Natural Language Processing & Asia-Pacific Chapter of the Association for Computational Linguistics (IJCNLP-AACL), 2025.
- #A. Nemecek, Z. Yun, Z. Rahmani, Y. Harel, V. Chaudhary, M. Sharif, E. Ayday, "Exploring Membership Inference Vulnerabilities in Clinical Large Language Models," 1st IEEE Workshop on Healthcare and Medical Device Security, Privacy, Resilience, and Trust (IEEE HMD-SPiRiT). 2025.
- R. Al-Saidi, E. Ayday, and Z. Kobti, “VESPA: Vulnerability-Enhanced Security and Privacy Preservation Adaptation Against Nucleotide Inference in Genomic-Embedded Large Language Models,” Proceedings of the International Conference on Information Systems Security and Privacy (ICISSP), 2026.
- R. Al-Saidi, E. Ayday, and Z. Kobti, “Comparing Reconstruction Attacks on Pretrained versus Full Fine-Tuned Large Language Model Embeddings on Homo sapiens Splice Sites Genomic Data,” Proceedings of the IEEE 24th International Conference on Trust, Security and Privacy in Computing and Communications (TrustCom), Guiyang, China, 2025.
- #Y. Xu, #M. Namazi, #S. R. Jalapally, #O. Zafar, Y. Yoo, and E. Ayday, “Privacy-Preserving AI-Enabled Decentralized Learning and Employment Records System,” Proceedings of IEEE TPS: Trust, Privacy and Security in Intelligent Systems and Applications, 2025.
- #O. Zafar, #M. Namazi, #Y. Xu, Y. Yoo, and E. Ayday, “A User-Centric, Privacy-Preserving, and Verifiable Ecosystem for Personal Data Management and Utilization,” Proceedings of ESORICS: European Symposium on Research in Computer Security, 2025.
- #M.Ghasemian, L.H. Gerido, E. Ayday, “Privacy-Preserving Collaborative Population Stratification with Dynamic Algorithm and Hyperparameter Selection”, Proceedings of the 16th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, 2025.
- #O. Zafar, R. S. González, A. Morales, E. Ayday, “Digital Agriculture Sandbox for Collaborative Research”, Proceedings of Gateways 2025.
- A. Abourayya, J. Kleesiek, K. Rao, E. Ayday, B. Rao, G. I. Webb, M. Kamp “Little is Enough: Boosting Privacy by Sharing Only Hard Labels in Federated Semi-Supervised Learning”, Proceedings of AAAI Conference on Artificial Intelligence (AAAI-25).
- #M. Ghasemian, L. Hammond Gerido, E. Ayday, “Safeguarding Privacy in Genome Research: A Comprehensive Framework for Authors”, Proceedings of the American Medical Informatics Association (AMIA) Annual Summit, 2025.
- #C. Oksuz, A. Halimi, E. Ayday, “AUTOLYCUS: Exploiting Explainable Artificial Intelligence (XAI) for Model Extraction Attacks against Interpretable Models”, Proceedings of Privacy Enhancing Technologies Symposium (PETS), 2024
- *,#T. Ji, E. Ayday, E. Yilmaz, P. Li “Privacy-Preserving Fingerprinting Against Collusion and Correlation Threats in Genomic Data”, Proceedings of Privacy Enhancing Technologies Symposium (PETS), 2024.
- *,#Z. Rahmani, *,#N. Shahini, N. Gat, Z. Yun, #Y. Jiang, O. Farchy, Y. Harel, V. Chaudhary, M. Sharif, E. Ayday, “Privacy-Preserving Collaborative Genomic Research: A Real-Life Deployment and Vision”, Proceedings of Cybersecurity in Healthcare (HealthSec), in conjunction with ACM CCS, 2024.
- #M. Ghasemian, E. Ayday, “Privacy-Preserving Optimal Parameter Selection for Collaborative Clustering”, In Proceedings of Data Privacy Management (DPM) International Workshop (in conjunction with ESORICS), 2024.
- #W. Yue, P. K. Tripathi, G. Ponon, Z. Ualikhankyzy, D. W. Brown, B. Clausen, M. Strantza, D. C. Pagan, M. A. Willard, F. Ernst, E. Ayday, V. Chaudhary, R. H. French, “Phase Identification in Synchrotron X-ray Diffraction Patterns of Ti–6Al–4V Using Computer Vision and Deep Learning”, In Proceedings of 7th World Congress on Integrated Computational Materials Engineering, 2024.
- L. Hammond Gerido, E. Ayday, “An Ethical Approach to Genomic Privacy Preserving Technology Development”, In Proceedings of IEEE 12th International Conference on Healthcare Informatics (ICHI), 2024.
- E. Ayday, J. Vaidya, X. Jiang, A. Telenti, “Ensuring Trust in Genomics Research”, Proceedings of IEEE International Conference on Trust, Privacy and Security in Intelligent Systems and Applications (TPS-ISA), 2024.
Education
PhD
Electrical and Computer Engineering
Georgia Institute of Technology
2011
MS
Electrical and Computer Engineering
Georgia Institute of Technology
2007
BS
Electrical and Electronics Engineering
Middle East Technical University
2005