| 2021 | DCC | Efficiently Merging r-indexes. | Marco Oliva, Massimiliano Rossi, Jouni Sirn, Giovanni Manzini, Tamer Kahveci, Travis Gagie, Christina Boucher |
| 2013 | PSB | From Uncertain Protein Interaction Networks to Signaling Pathways Through Intensive Color Coding. | Haitham Gabr, Alin Dobra, Tamer Kahveci |
| 2012 | PSB | SSLPred : Predicting Synthetic Sickness Lethality. | Nirmalya Bandyopadhyay, Sanjay Ranka, Tamer Kahveci |
| 2010 | BIBE | Finding Dynamic Modules of Biological Regulatory Networks. | Ferhat Ay, Thang N. Dinh, My T. Thai, Tamer Kahveci |
| 2010 | ICDE | Surrogate ranking for very expensive similarity queries. | Fei Xu, Ravi Jampani, Mingxi Wu, Chris Jermaine, Tamer Kahveci |
| 2010 | RECOMB | SubMAP: Aligning Metabolic Pathways with Subnetwork Mappings. | Ferhat Ay, Tamer Kahveci |
| 2008 | ISMB | Classification and feature selection algorithms for multi-class CGH data. | Jun Liu, Sanjay Ranka, Tamer Kahveci |
| 2008 | PSB | Mining Metabolic Networks for Optimal Drug Targets. | Padmavati Sridhar, Bin Song, Tamer Kahveci, Sanjay Ranka |
| 2007 | BIBE | QOMA2: Optimizing the alignment of many sequences. | Xu Zhang, Tamer Kahveci |
| 2007 | PSB | An Iterative Algorithm for Metabolic Network-Based Drug Target Identification. | Padmavati Sridhar, Tamer Kahveci, Sanjay Ranka |
| 2006 | EDBT | Finding Data Broadness Via Generalized Nearest Neighbors. | Jayendra Venkateswaran, Tamer Kahveci, Orhan amoglu |
| 2006 | PSB | A New Approach for Alignment of Multiple Proteins. | Xu Zhang, Tamer Kahveci |
| 2006 | VLDB | Reference-based Indexing of Sequence Databases. | Jayendra Venkateswaran, Deepak Lachwani, Tamer Kahveci, Christopher M. Jermaine |
| 2005 | BIBE | Approximate Global Alignment of Sequences. | Tamer Kahveci, Venkatakrishnan Ramaswamy, Han Tao, Tao Li |
| 2005 | BIBE | Highly Scalable and Accurate Seeds for Subsequence Alignment. | Abhijit Pol, Tamer Kahveci |
| 2005 | MASCOTS | Workload Characterization of Bioinformatics Applications. | Yue Li, Tao Li, Tamer Kahveci, Jos A. B. Fortes |
| 2004 | PSB | ProGreSS: Simultaneous Searching of Protein Databases by Sequence and Structure. | Arnab Bhattacharya, Tolga Can, Tamer Kahveci, Ambuj K. Singh, Yuan-Fang Wang |
| 2003 | ICDE | Joining Massive High-Dimensional Datasets. | Tamer Kahveci, Christian A. Lang, Ambuj K. Singh |
| 2003 | ICDE | Fast alignment of large genome databases. | Tamer Kahveci, Ambuj K. Singh |
| 2003 | ISMB | PSI: indexing protein structures for fast similarity search. | Orhan amoglu, Tamer Kahveci, Ambuj K. Singh |
| 2003 | PSB | MAP: Searching Large Genome Databases. | Tamer Kahveci, Ambuj K. Singh |
| 2002 | ICDE | An Efficient Index Structure for Shift and Scale Invariant Search of Multi-Attribute Time Sequences. | Tamer Kahveci, Ambuj K. Singh, Aliekber Grel |
| 2002 | SSDBM | Similarity Searching for Multi-Attribute Sequences. | Tamer Kahveci, Ambuj K. Singh, Aliekber Grel |
| 2001 | ICDE | Variable Length Queries for Time Series Data. | Tamer Kahveci, Ambuj K. Singh |
| 2001 | VLDB | Efficient Index Structures for String Databases. | Tamer Kahveci, Ambuj K. Singh |