| 2025 | ICLR | MADGEN: Mass-Spec attends to De Novo Molecular generation. | Yinkai Wang, Xiaohui Chen, Liping Liu, Soha Hassoun |
| 2025 | ICML | Graph Generative Pre-trained Transformer. | Xiaohui Chen, Yinkai Wang, Jiaxing He, Yuanqi Du, Soha Hassoun, Xiaolin Xu, Liping Liu |
| 2022 | ICMLA | Few-Shot Link Prediction with Domain-Agnostic Graph Embedding. | Hao Zhu, Mahashweta Das, Mangesh Bendre, Fei Wang, Hao Yang, Soha Hassoun |
| 2021 | ICML | Stochastic Iterative Graph Matching. | Linfeng Liu, Michael C. Hughes, Soha Hassoun, Liping Liu |
| 2013 | DAC | Gene modification identification under flux capacity uncertainty. | Mona Yousofshahi, Michael Orshansky, Kyongbum Lee, Soha Hassoun |
| 2013 | VTS | New topic session 2B: Why (Re-)Designing Biology is ∗Slightly∗ more challenging than designing electronics. | Bozena Kaminska, Bernard Courtois, Soha Hassoun |
| 2012 | ASPDAC | The feasibility of Carbon Nanotubes for power delivery in 3-D Integrated Circuits. | Nauman H. Khan, Soha Hassoun |
| 2012 | DATE | Genetic/bio design automation for (re-)engineering biological systems. | Soha Hassoun |
| 2010 | DAC | Joint DAC/IWBDA special session engineering biology: fundamentals and applications. | Marc D. Riedel, Soha Hassoun, Ron Weiss, Pamela Silver, J. Christopher Anderson, Richard M. Murray |
| 2009 | GECCO | Evolving soft robotic locomotion in PhysX. | John Rieffel, Frank Saunders, Shilpa Nadimpalli, Harvey Zhou, Soha Hassoun, Jason H. Rife, Barry Trimmer |
| 2009 | ICCAD | An algorithm for identifying dominant-edge metabolic pathways. | Ehsan Ullah, Kyongbum Lee, Soha Hassoun |
| 2006 | DAC | Gate sizing: finFETs vs 32nm bulk MOSFETs. | Brian Swahn, Soha Hassoun |
| 2003 | ICCAD | Hardware Scheduling for Dynamic Adaptability using External Profiling and Hardware Threading. | Brian Swahn, Soha Hassoun |
| 2003 | ISCAS | Optimal use of 2-phase transparent latches in buffered maze routing. | Soha Hassoun |
| 2002 | DATE | Verifying Clock Schedules in the Presence of Cross Talk. | Soha Hassoun, Eduardo H. Calvillo Gmez, Christopher Cromer |
| 2002 | ICCAD | Optimal buffered routing path constructions for single and multiple clock domain systems. | Soha Hassoun, Charles J. Alpert, Meera Thiagarajan |
| 2001 | DAC | A Transaction-Based Unified Simulation/Emulation Architecture for Functional Verification. | Murali Kudlugi, Soha Hassoun, Charles Selvidge, Duaine Pryor |
| 2000 | DAC | Critical path analysis using a dynamically bounded delay model. | Soha Hassoun |
| 1999 | ICCAD | Regularity extraction via clan-based structural circuit decomposition. | Soha Hassoun, Carolyn McCreary |
| 1998 | ICCAD | Using precomputation in architecture and logic resynthesis. | Soha Hassoun, Carl Ebeling |
| 1998 | ISCA | Architecture of a Message-Driven Processor. | William J. Dally, Linda Chao, Andrew A. Chien, Soha Hassoun, Waldemar Horwat, Jon Kaplan, Paul Song, Brian Totty, D. Scott Wills |
| 1996 | DAC | Architectural Retiming: Pipelining Latency-Constrained Circuts. | Soha Hassoun, Carl Ebeling |
| 1987 | ISCA | Architecture of a Message-Driven Processor. | William J. Dally, Linda Chao, Andrew A. Chien, Soha Hassoun, Waldemar Horwat, Jon Kaplan, Paul Song, Brian Totty, D. Scott Wills |