| 1 | -- | 0 | Ying Xu. Editorial from the Editor-in-Chief |
| 2 | -- | 3 | Srinivas Aluru, Donna K. Slonim. Guest Editors' Introduction: Selected Papers from ACM-BCB 2013 |
| 4 | -- | 16 | Noah M. Daniels, Andrew Gallant, Norman Ramsey, Lenore J. Cowen. MRFy: Remote Homology Detection for Beta-Structural Proteins Using Markov Random Fields and Stochastic Search |
| 17 | -- | 29 | Manabu Torii, Cecilia N. Arighi, Gang Li, Qinghua Wang, Cathy H. Wu, K. Vijay-Shanker. RLIMS-P 2.0: A Generalizable Rule-Based Information Extraction System for Literature Mining of Protein Phosphorylation Information |
| 30 | -- | 39 | Kun Wang, Avinash Das, Zheng-Mei Xiong, Kan Cao, Sridhar Hannenhalli. Phenotype-Dependent Coexpression Gene Clusters: Application to Normal and Premature Ageing |
| 40 | -- | 52 | Fazle Elahi Faisal, Han Zhao, Tijana Milenkovic. Global Network Alignment in the Context of Aging |
| 53 | -- | 66 | Haitham Gabr, Andrei Todor, Alin Dobra, Tamer Kahveci. Reachability Analysis in Probabilistic Biological Networks |
| 67 | -- | 78 | Yongtao Ye, David Wai-Lok Cheung, Yadong Wang, Siu-Ming Yiu, Qing Zhan, Tak Wah Lam, Hing-Fung Ting. GLProbs: Aligning Multiple Sequences Adaptively |
| 79 | -- | 91 | Hui Li, Xiaoyi Li, Murali Ramanathan, Aidong Zhang. Prediction and Informative Risk Factor Selection of Bone Diseases |
| 92 | -- | 102 | Michael A. DeJesus, Thomas R. Ioerger. Capturing Uncertainty by Modeling Local Transposon Insertion Frequencies Improves Discrimination of Essential Genes |
| 103 | -- | 112 | Matt Spencer, Jesse Eickholt, Jianlin Cheng. A Deep Learning Network Approach to ab initio Protein Secondary Structure Prediction |
| 113 | -- | 122 | Bo Liao, Xiong Li, Lijun Cai, Zhi Cao, Haowen Chen. A Hierarchical Clustering Method of Selecting Kernel SNP to Unify Informative SNP and Tag SNP |
| 123 | -- | 135 | Shing-Chow Chan, Li Zhang, Ho-Chun Wu, Kai Man Tsui. A Maximum A Posteriori Probability and Time-Varying Approach for Inferring Gene Regulatory Networks from Time Course Gene Microarray Data |
| 136 | -- | 141 | Ye-tian Fan, Wei Wu, Jie Yang, Wenyu Yang, Rongrong Liu. An Algorithm for Motif Discovery with Iteration on Lengths of Motifs |
| 142 | -- | 154 | Man Hon Wong, Ho-Yin Antonio Sze-To, Leung-Yau Peter Lo, Tak-Ming Cyrus Chan, Kwong-Sak Leung. Discovering Binding Cores in Protein-DNA Binding Using Association Rule Mining with Statistical Measures |
| 155 | -- | 165 | Pawel Górecki, Oliver Eulenstein. Gene Tree Diameter for Deep Coalescence |
| 166 | -- | 178 | Chao Wang, Xi Li, Peng Chen, Aili Wang, Xuehai Zhou, Hong Yu. Heterogeneous Cloud Framework for Big Data Genome Sequencing |
| 179 | -- | 192 | Wei Peng, Jianxin Wang, Bihai Zhao, Lusheng Wang. Identification of Protein Complexes Using Weighted PageRank-Nibble Algorithm and Core-Attachment Structure |
| 193 | -- | 204 | Nan Du, Marc R. Knecht, Mark T. Swihart, Zhenghua Tang, Tiffany R. Walsh, Aidong Zhang. Identifying Affinity Classes of Inorganic Materials Binding Sequences via a Graph-Based Model |
| 205 | -- | 218 | Xiangyuan Zhu, Kenli Li, Ahmad Salah, Lin Shi, Keqin Li. Parallel Implementation of MAFFT on CUDA-Enabled Graphics Hardware |
| 219 | -- | 233 | Guo-Xian Yu, Huzefa Rangwala, Carlotta Domeniconi, Guoji Zhang, Zili Zhang. Predicting Protein Function Using Multiple Kernels |
| 234 | -- | 247 | Judith Keijsper, Tim Oosterwijk. Tractable Cases of (*, 2)-Bounded Parsimony Haplotyping |