| 865 | -- | 866 | Mark Borodovsky, Teresa M. Przytycka, Sanguthevar Rajasekaran, Alexander Zelikovsky. Guest Editors Introduction to the Special Section on Bioinformatics Research and Applications |
| 867 | -- | 875 | Yosi Shibberu, Allen Holder. A Spectral Approach to Protein Structure Alignment |
| 876 | -- | 889 | Nicola Ferraro, Luigi Palopoli, Simona Panni, Simona E. Rombo. Asymmetric Comparison and Querying of Biological Networks |
| 890 | -- | 901 | John Wiedenhoeft, Roland Krause, Oliver Eulenstein. The Plexus Model for the Inference of Ancestral Multidomain Proteins |
| 902 | -- | 911 | Nicholas D. Pattengale, Andre J. Aberer, Krister M. Swenson, Alexandros Stamatakis, Bernard M. E. Moret. Uncovering Hidden Phylogenetic Consensus in Large Data Sets |
| 912 | -- | 917 | Rob Gysel, Dan Gusfield. Extensions and Improvements to the Chordal Graph Approach to the Multistate Perfect Phylogeny Problem |
| 918 | -- | 928 | Ming-Chi Tsai, Guy E. Blelloch, R. Ravi, Russell Schwartz. A Consensus Tree Approach for Reconstructing Human Evolutionary History and Detecting Population Substructure |
| 929 | -- | 942 | Sanghamitra Bandyopadhyay, Malay Bhattacharyya. A Biologically Inspired Measure for Coexpression Analysis |
| 943 | -- | 958 | Nuno Tenazinha, Susana Vinga. A Survey on Methods for Modeling and Analyzing Integrated Biological Networks |
| 959 | -- | 975 | Chao-Wen Huang, Wun-Shiun Lee, Sun-Yuan Hsieh. An Improved Heuristic Algorithm for Finding Motif Signals in DNA Sequences |
| 976 | -- | 986 | Sebastian Böcker, Birte Kehr, Florian Rasche. Determination of Glycan Structure from Tandem Mass Spectra |
| 987 | -- | 1003 | Samuel S. Y. Wong, Weimin Luo, Keith C. C. Chan. EvoMD: An Algorithm for Evolutionary Molecular Design |
| 1004 | -- | 1016 | Ivan Merelli, Paolo Cozzi, Daniele D Agostino, Andrea Clematis, Luciano Milanesi. Image-Based Surface Matching Algorithm Oriented to Structural Biology |
| 1017 | -- | 1028 | Pietro di Lena, Piero Fariselli, Luciano Margara, Marco Vassura, Rita Casadio. Is There an Optimal Substitution Matrix for Contact Prediction with Correlated Mutations? |
| 1029 | -- | 1040 | Katharina T. Huber, Andreas Spillner, Radoslaw Suchecki, Vincent Moulton. Metrics on Multilabeled Trees: Interrelationships and Diameter Bounds |
| 1041 | -- | 1053 | Xin Zhao, Leo Wang-Kit Cheung. Multiclass Kernel-Imbedded Gaussian Processes for Microarray Data Analysis |
| 1054 | -- | 1066 | Peng Zhang, Houqiang Li, Honghui Wang, Stephen T. C. Wong, Xiaobo Zhou. Peak Tree: A New Tool for Multiscale Hierarchical Representation and Peak Detection of Mass Spectrometry Data |
| 1067 | -- | 1079 | Yasser El-Manzalawy, Drena Dobbs, Vasant Honavar. Predicting MHC-II Binding Affinity Using Multiple Instance Regression |
| 1080 | -- | 1092 | Feng Yang, Kezhi Mao. Robust Feature Selection for Microarray Data Based on Multicriterion Fusion |
| 1093 | -- | 1107 | Peter Tiño, Hongya Zhao, Hong Yan. Searching for Coexpressed Genes in Three-Color cDNA Microarray Data Using a Probabilistic Model-Based Hough Transform |
| 1108 | -- | 1119 | Li-San Wang, James Leebens-Mack, P. Kerr Wall, Kevin Beckmann, Claude W. dePamphilis, Tandy Warnow. The Impact of Multiple Protein Sequence Alignment on Phylogenetic Estimation |
| 1120 | -- | 1133 | Bashir Sadjad, Zsolt Zsoldos. Toward a Robust Search Method for the Protein-Drug Docking Problem |
| 1134 | -- | 1140 | Yang Chen, Jinglu Hu. Accurate Reconstruction for DNA Sequencing by Hybridization Based on a Constructive Heuristic |
| 1141 | -- | 1147 | Sylvain Guillemot, Jesper Jansson, Wing-Kin Sung. Computing a Smallest Multilabeled Phylogenetic Tree from Rooted Triplets |
| 1148 | -- | 1151 | Tim Peters, David W. Bulger, To-ha Loi, Jean Yee Hwa Yang, David Ma. Two-Step Cross-Entropy Feature Selection for Microarrays - Power Through Complementarity |