| 2014 | WAIFI | Reducing the Complexity of Normal Basis Multiplication. | mer Egecioglu, etin Kaya Ko |
| 2013 | WALCOM | Fixed-Parameter Tractability of Error Correction in Graphical Linear Systems. | Peter Damaschke, mer Egecioglu, Leonid Molokov |
| 2012 | SOFSEM | Multitape NFA: Weak Synchronization of the Input Heads. | mer Egecioglu, Oscar H. Ibarra, Nicholas Q. Trn |
| 2011 | IWANN | Hierarchy Results on Stateless Multicounter 5′ → 3′ Watson-Crick Automata. | Benedek Nagy, Lszl Hegeds, mer Egecioglu |
| 2010 | ICDE | Anonymizing weighted social network graphs. | Sudipto Das, mer Egecioglu, Amr El Abbadi |
| 2009 | CiE | On Stateless Multicounter Machines. | mer Egecioglu, Oscar H. Ibarra |
| 2009 | COCOON | Hierarchies and Characterizations of Stateless Multicounter Machines. | Oscar H. Ibarra, mer Egecioglu |
| 2009 | DLT | Strongly Regular Grammars and Regular Approximation of Context-Free Languages. | mer Egecioglu |
| 2009 | INFOCOM | Rome: Performance and Anonymity using Route Meshes. | Krishna P. N. Puttaswamy, Alessandra Sala, mer Egecioglu, Ben Y. Zhao |
| 2007 | DNA | Asynchronous Spiking Neural P Systems: Decidability and Undecidability. | Matteo Cavaliere, mer Egecioglu, Oscar H. Ibarra, Mihai Ionescu, Gheorghe Paun, Sara Woodworth |
| 2007 | ICDE | DeltaSky: Optimal Maintenance of Skyline Deletions without Exclusive Dominance Region Generation. | Ping Wu, Divyakant Agrawal, mer Egecioglu, Amr El Abbadi |
| 2003 | MFCS | Characterizations of Catalytic Membrane Computing Systems. | Oscar H. Ibarra, Zhe Dang, mer Egecioglu, Gaurav Saxena |
| 2002 | COCOON | Dictionary Look-Up within Small Edit Distance. | Abdullah N. Arslan, mer Egecioglu |
| 2002 | LATIN | Algorithms for Local Alignment with Length Constraints. | Abdullah N. Arslan, mer Egecioglu |
| 2002 | SPIRE | Efficient Computation of Long Similar Subsequences. | Abdullah N. Arslan, mer Egecioglu |
| 2001 | COCOON | An Improved Upper Bound on the Size of Planar Convex-Hulls. | Abdullah N. Arslan, mer Egecioglu |
| 2001 | RECOMB | A new approach to sequence comparison: normalized sequence alignment. | Abdullah N. Arslan, mer Egecioglu, Pavel A. Pevzner |
| 2000 | CIKM | Dimensionality Reduction and Similarity Computation by Inner Product Approximations. | mer Egecioglu, Hakan Ferhatosmanoglu |
| 1999 | SPIRE | An Efficient Uniform-Cost Normalized Edit Distance Algorithm. | Abdullah N. Arslan, mer Egecioglu |
| 1998 | CIKM | Iterated DFT Based Techniques for Join Size Estimation. | Kamil Sara, mer Egecioglu, Amr El Abbadi |
| 1998 | COCOON | Algorithms for Almost-uniform Generation with an Unbiased Binary Source. | mer Egecioglu, Marcus Peinado |
| 1997 | COCOON | A Compact Storage Scheme for Fast Wavelet-Based Subregion Retrieval. | Athanassios S. Poulakidas, Ashok Srinivasan, mer Egecioglu, Oscar H. Ibarra, Tao Yang |
| 1996 | DCC | Experimental Studies on a Compact Storage Scheme for Wavelet-Based Multiresolution Subregion Retrieval. | Athanassios S. Poulakidas, Ashok Srinivasan, mer Egecioglu, Oscar H. Ibarra, Tao Yang |
| 1995 | COCOON | Analysis of Quorum-Based Protocols for Distributed (k+1)-Exclusion. | Divyakant Agrawal, mer Egecioglu, Amr El Abbadi |
| 1993 | ICCI | A Combinatorial View of Visibility Graphs of Simple Polygons. | James Abello, Krishna Kumar, mer Egecioglu |
| 1992 | Interspeech | Topology preservation for speech recognition. | Gregory R. De Haan, mer Egecioglu |