- Jing Xiao, Lusheng Wang, Xiaowen Liu, Tao Jiang. An Efficient Voting Algorithm for Finding Additive Biclusters with Random Background. Journal of Computational Biology, 15(10):1275-1293, 2008.
- Jing Wu, Jun Xie. Computation-Based Discovery of Cis-Regulatory Modules by Hidden Markov Model. Journal of Computational Biology, 15(3):279-290, 2008.
- Jing Li. Prioritize and Select SNPs for Association Studies with Multi-Stage Designs. Journal of Computational Biology, 15(3):241-257, 2008.
- Anne Kupczok, Arndt von Haeseler, Steffen Klaere. An Exact Algorithm for the Geodesic Distance between Phylogenetic Trees. Journal of Computational Biology, 15(6):577-591, 2008.
- Cedric Chauve, Jean-Philippe Doyon, Nadia El-Mabrouk. Gene Family Evolution by Duplication, Speciation, and Loss. Journal of Computational Biology, 15(8):1043-1062, 2008.
- Kanti V. Mardia, Vysaul B. Nyirongo. Simulating Virtual Protein C::alpha:: Traces with Applications. Journal of Computational Biology, 15(9):1209-1220, 2008.
- Zhiyu Zhao, Bin Fu, Francisco J. Alanis, Christopher M. Summa. Feedback Algorithm and Web-Server for Protein Structure Alignment. Journal of Computational Biology, 15(5):505-524, 2008.
- Anthony A. Philippakis, Aaron M. Qureshi, Michael F. Berger, Martha L. Bulyk. Design of Compact, Universal DNA Microarrays for Protein Binding Microarray Experiments. Journal of Computational Biology, 15(7):655-665, 2008.
- Hiroyuki Kuwahara, Chris J. Myers. Production-Passage-Time Approximation: A New Approximation Method to Accelerate the Simulation Process of Enzymatic Reactions. Journal of Computational Biology, 15(7):779-792, 2008.
- Sébastien Angibaud, Guillaume Fertin, Irena Rusu, Annelyse Thévenin, Stéphane Vialette. Efficient Tools for Computing the Number of Breakpoints and the Number of Adjacencies between Two Genomes with Duplicate Genes. Journal of Computational Biology, 15(8):1093-1115, 2008.