| 133 | -- | 144 | Henry C. M. Leung, Qian Xiang, Siu-Ming Yiu, Francis Y. L. Chin. Predicting Protein Complexes from PPI Data: A Core-Attachment Approach |
| 145 | -- | 157 | Xiaoning Qian, Sing-Hoi Sze, Byung-Jun Yoon. Querying Pathways in Protein Interaction Networks Based on Hidden Markov Models |
| 159 | -- | 167 | Fereydoun Hormozdiari, Raheleh Salari, Michael Hsing, Alexander Schönhuth, Simon K. Chan, Süleyman Cenk Sahinalp, Artem Cherkasov. The Effect of Insertions and Deletions on Wirings in Protein-Protein Interaction Networks: A Large-Scale Study |
| 169 | -- | 180 | Jason E. McDermott, Ronald C. Taylor, Hyunjin Yoon, Fred Heffron. Salmonella typhimurium |
| 181 | -- | 189 | Shaul Karni, Hermona Soreq, Roded Sharan. A Network-Based Method for Predicting Disease-Causing Genes |
| 191 | -- | 200 | Elhanan Borenstein, Marcus W. Feldman. Topological Signatures of Species Interactions in Metabolic Networks |
| 201 | -- | 212 | Karen Sachs, Solomon Itani, Jennifer Carlisle, Garry P. Nolan, Dana Pe'er, Douglas A. Lauffenburger. Learning Signaling Network Structures with Sparsely Distributed Data |
| 213 | -- | 227 | Robert Castelo, Alberto Roverato. Reverse Engineering Molecular Regulatory Networks from Microarray Data with qp-Graphs |
| 229 | -- | 239 | Daniel Marbach, Thomas Schaffter, Claudio Mattiussi, Dario Floreano. In Silico Gene Networks for Performance Assessment of Reverse Engineering Methods |
| 241 | -- | 251 | Francesco Iorio, Roberto Tagliaferri, Diego di Bernardo. Identifying Network of Drug Mode of Action by Gene Expression Profiling |
| 253 | -- | 264 | Saket Navlakha, Michael C. Schatz, Carl Kingsford. Revealing Biological Modules via Graph Summarization |
| 265 | -- | 278 | Xi Chen, Lily Wang. Integrating Biological Knowledge with Gene Expression Profiles for Survival Prediction of Cancer |
| 279 | -- | 290 | Gal Chechik, Daphne Koller. Timing of Gene Expression Responses to Environmental Changes |
| 291 | -- | 302 | Balaji Veeramani, Joel S. Bader. Metabolic Flux Correlations, Genetic Interactions, and Disease |
| 303 | -- | 316 | Tamir Tuller, Udi Rubinstein, Dani Bar, Michael Gurevich, Eytan Ruppin, Martin Kupiec. Higher-Order Genomic Organization of Cellular Functions in Yeast |
| 317 | -- | 329 | Leping Li. GADEM: A Genetic Algorithm Guided Formation of Spaced Dyads Coupled with an EM Algorithm for Motif Discovery |
| 331 | -- | 339 | J. William Lee, Tomasz Zemojtel, Eugene I. Shakhnovich. Systems-Level Evidence of Transcriptional Co-Regulation of Yeast Protein Complexes |
| 341 | -- | 355 | Guo-Cheng Yuan. Targeted Recruitment of Histone Modifications in Humans Predicted by Genomic Sequences |
| 357 | -- | 368 | Zhen Xuan Yeo, Hock Chuan Yeo, Joan Keng Suan Yeo, Ai Li Yeo, Ye Li, Neil D. Clarke. Inferring Transcription Factor Targets from Gene Expression Changes and Predicted Promoter Occupancy |
| 369 | -- | 377 | Albert Erives. Ciona Genome |
| 379 | -- | 393 | Giovanni Russo, Mario di Bernardo. How to Synchronize Biological Clocks |
| 395 | -- | 406 | Boguslaw Kluge, Anna Gambin, Wojciech Niemiro. Modeling Exopeptidase Activity from LC-MS Data |