| 2006 | CCS | Protomatching network traffic for high throughputnetwork intrusion detection. | Shai Rubin, Somesh Jha, Barton P. Miller |
| 2005 | CCS | An auctioning reputation system based on anomaly. | Shai Rubin, Mihai Christodorescu, Vinod Ganapathy, Jonathon T. Giffin, Louis Kruger, Hao Wang, Nicholas Kidd |
| 2005 | SP | Language-Based Generation and Evaluation of NIDS Signatures. | Shai Rubin, Somesh Jha, Barton P. Miller |
| 2004 | ACSAC | Automatic Generation and Analysis of NIDS Attacks. | Shai Rubin, Somesh Jha, Barton P. Miller |
| 2004 | DIMVA | Foundations for Intrusion Prevention. | Shai Rubin, Ian D. Alderman, David W. Parter, Mary K. Vernon |
| 2002 | POPL | An efficient profile-analysis framework for data-layout optimizations. | Shai Rubin, Rastislav Bodk, Trishul M. Chilimbi |
| 2001 | ISCA | Focusing processor policies via critical-path prediction. | Brian A. Fields, Shai Rubin, Rastislav Bodk |
| 1999 | CC | Virtual Cache Line: A New Technique to Improve Cache Exploitation for Recursive Data Structures. | Shai Rubin, David Bernstein, Michael Rodeh |
| 1999 | ICASSP | Fast construction of test-program generators for digital signal processors. | Shai Rubin, Moshe Levinger, Randall R. Pratt, William P. Moore |