| 1265 | -- | 0 | Yi-Ping Phoebe Chen. Guest Editorial: Application and Development of Bioinformatics |
| 1266 | -- | 1272 | Stephanus Daniel Handoko, Xuchang Ouyang, Chinh Tran To Su, Chee Keong Kwoh, Yew-Soon Ong. QuickVina: Accelerating AutoDock Vina Using Gradient-Based Heuristics for Global Optimization |
| 1273 | -- | 1280 | Pengyi Yang, Jie Ma, PengHao Wang, Yunping Zhu, Bing Bing Zhou, Jean Yee Hwa Yang. Improving X!Tandem on Peptide Identification from Mass Spectrometry by Self-Boosted Percolator |
| 1281 | -- | 1292 | Lin Wan, Fengzhu Sun. CEDER: Accurate Detection of Differentially Expressed Genes by Combining Significance of Exons Using RNA-Seq |
| 1293 | -- | 1300 | Richard Röttger, Ulrich Rückert, Jan Taubert, Jan Baumbach. How Little Do We Actually Know? On the Size of Gene Regulatory Networks |
| 1301 | -- | 1313 | Hossam M. Ashtawy, Nihar R. Mahapatra. A Comparative Assessment of Ranking Accuracies of Conventional and Machine-Learning-Based Scoring Functions for Protein-Ligand Binding Affinity Prediction |
| 1314 | -- | 1315 | François Fages, Sylvain Soliman. Guest Editors' Introduction to the Special Section on Computational Methods in Systems Biology |
| 1316 | -- | 1325 | Jimmy Omony, Astrid R. Mach-Aigner, Leo H. de Graaff, Gerrit van Straten, Anton J. B. van Boxtel. Evaluation of Design Strategies for Time Course Experiments in Genetic Networks: Case Study of the XlnR Regulon in Aspergillus niger |
| 1326 | -- | 1337 | Eugen Czeizler, Vladimir Rogojin, Ion Petre. The Phosphorylation of the Heat Shock Factor as a Modulator for the Heat Shock Response |
| 1338 | -- | 1351 | Hannes Klarner, Heike Siebert, Alexander Bockmayr. Time Series Dependent Analysis of Unparametrized Thomas Networks |
| 1352 | -- | 1365 | Sucheendra K. Palaniappan, S. Akshay, Bing Liu 0013, Blaise Genest, P. S. Thiagarajan. A Hybrid Factored Frontier Algorithm for Dynamic Bayesian Networks with a Biopathways Application |
| 1366 | -- | 1378 | Nicola Paoletti, Pietro Liò, Emanuela Merelli, Marco Viceconti. Multilevel Computational Modeling and Quantitative Analysis of Bone Remodeling |
| 1379 | -- | 1386 | Blaise Hanczar, Avner Bar-Hen. A New Measure of Classifier Performance for Gene Expression Data |
| 1387 | -- | 1398 | Uday Kamath, Jack Compton, Rezarta Islamaj Dogan, Kenneth A. De Jong, Amarda Shehu. An Evolutionary Algorithm Approach for Feature Generation from Sequence Data and Its Application to DNA Splice Site Prediction |
| 1399 | -- | 1409 | Nadeem Ansari, Riyue Bao, Calin Voichita, Sorin Draghici. Detecting Phenotype-Specific Interactions between Biological Processes from Microarray Data and Annotations |
| 1410 | -- | 1421 | Tatsuya Akutsu, Sven Kosub, Avraham A. Melkman, Takeyuki Tamura. Finding a Periodic Attractor of a Boolean Network |
| 1422 | -- | 1431 | Herbert Pang, Stephen L. George, Ken Hui, Tiejun Tong. Gene Selection Using Iterative Feature Elimination Random Forests for Survival Outcomes |
| 1432 | -- | 1441 | Bilge Karaçali. Hierarchical Motif Vectors for Prediction of Functional Sites in Amino Acid Sequences Using Quasi-Supervised Learning |
| 1442 | -- | 1450 | Pablo H. Hennings-Yeomans, Gregory F. Cooper. Improving the Prediction of Clinical Outcomes from Genomic Data Using Multiresolution Analysis |
| 1451 | -- | 1458 | Nicolas Bonnel, Pierre-Francois Marteau. LNA: Fast Protein Structural Comparison Using a Laplacian Characterization of Tertiary Structure |
| 1459 | -- | 1471 | Francesco Sambo, Marco Antonio Montes de Oca, Barbara Di Camillo, Gianna Toffolo, Thomas Stützle. MORE: Mixed Optimization for Reverse Engineering - An Application to Modeling Biological Networks Response via Sparse Systems of Nonlinear Differential Equations |
| 1472 | -- | 1481 | Neil Jacklin, Zhi Ding, Wei Chen, Chunqi Chang. Noniterative Convex Optimization Methods for Network Component Analysis |
| 1482 | -- | 1491 | Silvana Badaloni, Barbara Di Camillo, Francesco Sambo. Qualitative Reasoning for Biological Network Inference from Systematic Perturbation Experiments |
| 1492 | -- | 1503 | John C. Hawkins, Hongbo Zhu, Joan Teyra, M. Teresa Pisabarro. Reduced False Positives in PDZ Binding Prediction Using Sequence and Structural Descriptors |
| 1504 | -- | 1514 | Jianyong Sun, Jonathan M. Garibaldi, Kim Kenobi. Robust Bayesian Clustering for Replicated Gene Expression Data |
| 1515 | -- | 1528 | Zhi-Zhong Chen, Fei Deng, Lusheng Wang. Simultaneous Identification of Duplications, Losses, and Lateral Gene Transfers |
| 1529 | -- | 1534 | Bo Liao, Xiong Li, Wen Zhu, Zhi Cao. A Novel Method to Select Informative SNPs and Their Application in Genetic Association Studies |
| 1535 | -- | 1538 | Shaini Joseph, Shreyas Karnik, Pravin Nilawe, Vaidyanathan K. Jayaraman, Susan Idicula-Thomas. ClassAMP: A Prediction Tool for Classification of Antimicrobial Peptides |
| 1539 | -- | 1545 | Mohamed N. Nounou, Hazem N. Nounou, Nader Meskin, Aniruddha Datta, Edward R. Dougherty. Multiscale Denoising of Biological Data: A Comparative Analysis |
| 1545 | -- | 1552 | Michael Margaliot, Tamir Tuller. Stability Analysis of the Ribosome Flow Model |