| 2005 | ANOSVA: a statistical method for detecting splice variation from expression data. | Melissa S. Cline, John Blume, Simon Cawley, Tyson Clark, Jing-Shan Hu, Gang Lu, Nathan Salomonis, Hui Wang, Alan Williams |
| 2005 | Maximum likelihood of evolutionary trees: hardness and approximation. | Benny Chor, Tamir Tuller |
| 2005 | YeastHub: a semantic web use case for integrating data in the life sciences domain. | Kei-Hoi Cheung, Kevin Y. Yip, Andrew K. Smith, Remko de Knikker, Andy Masiar, Mark Gerstein |
| 2005 | Three-stage prediction of protein ?-sheets by neural networks, alignments and graph algorithms. | Jianlin Cheng, Pierre Baldi |
| 2005 | Improving protein structure prediction with model-based search. | T. J. Brunette, Oliver Brock |
| 2005 | ExonHunter: a comprehensive approach to gene finding. | Brona Brejov, Daniel G. Brown, Ming Li, Toms Vinar |
| 2005 | Protein function prediction via graph kernels. | Karsten M. Borgwardt, Cheng Soon Ong, Stefan Schnauer, S. V. N. Vishwanathan, Alexander J. Smola, Hans-Peter Kriegel |
| 2005 | Kernel methods for predicting protein-protein interactions. | Asa Ben-Hur, William Stafford Noble |
| 2005 | A systematic approach for comprehensive T-cell epitope discovery using peptide libraries. | Tim Beibarth, Jason A. Tye-Din, Gordon K. Smyth, Terence P. Speed, Robert P. Anderson |
| 2005 | Validation of qualitative models of genetic regulatory networks by model checking: analysis of the nutritional stress response in | Grgory Batt, Delphine Ropers, Hidde de Jong, Johannes Geiselmann, Radu Mateescu, Michel Page, Dominique Schneider |
| 2005 | Conservative extraction of over-represented extensible motifs. | Alberto Apostolico, Matteo Comin, Laxmi Parida |
| 2005 | IntEx: A Syntactic Role Driven Protein-Protein Interaction Extractor for Bio-Medical Text. | Syed Toufeeq Ahmed, Deepthi Chidambaram, Hasan Davulcu, Chitta Baral |
| 2004 | Predicting protein folding pathways. | Mohammed Javeed Zaki, Vinay Nadimpally, Deb Bardhan, Chris Bystroff |
| 2004 | A two-stage classifier for identification of protein-protein interface residues. | Changhui Yan, Drena Dobbs, Vasant G. Honavar |
| 2004 | Protein network inference from multiple genomic data: a supervised approach. | Yoshihiro Yamanishi, Jean-Philippe Vert, Minoru Kanehisa |
| 2004 | Using MoBIoS' scalable genome join to find conserved primer pair candidates between two genomes. | Weijia Xu, Willard J. Briggs, Joanna Padolina, Ruth E. Timme, Wenguo Liu, C. Randal Linder, Daniel P. Miranker |
| 2004 | Reconstructing phylogeny by Quadratically Approximated Maximum Likelihood. | M. D. Woodhams, Michael D. Hendy |
| 2004 | Filtering erroneous protein annotation. | Daniela Wieser, Ernst Kretschmann, Rolf Apweiler |
| 2004 | Exploiting conserved structure for faster annotation of non-coding RNAs without loss of accuracy. | Zasha Weinberg, Walter L. Ruzzo |
| 2004 | Learning kernels from biological networks by maximizing entropy. | Koji Tsuda, William Stafford Noble |
| 2004 | Genomic features in the breakpoint regions between syntenic blocks. | Phil Trinh, Aoife McLysaght, David Sankoff |
| 2004 | ISMB/ECCB 2004 Organization. | Janet M. Thornton, David R. Gilbert, Catherine Brooksbank |
| 2004 | ISMB/ECCB 2004. | Janet M. Thornton, David R. Gilbert, Catherine Brooksbank |
| 2004 | Tracking repeats using significance and transitivity. | Radek Szklarczyk, Jaap Heringa |
| 2004 | Exploring Williams-Beuren syndrome using | Robert D. Stevens, Hannah J. Tipney, Chris Wroe, Thomas M. Oinn, Martin Senger, Phillip W. Lord, Carole A. Goble, Andy Brass, M. Tassabehji |