| 2025 | CIBCB | miSAM: Robust MicroRNA Expression Estimation Using Bi-Objective Evolutionary Learning Algorithm in Cancer Transcriptomics. | Yann-Lin Ho, Yann-Jen Ho, Shinn-Ying Ho, Tzong-Yi Lee |
| 2025 | CIBCB | EL-DRP: An Evolutionary Learning-Based Multi-Omics Framework for Drug Response Prediction with Interpretable Biomarker Selection. | Yann-Jen Ho, Paik You Sheng, Yu-Ruo Chen, Yun Tang, Shinn-Ying Ho, Tzong-Yi Lee |
| 2013 | ACIIDS | Prediction of Mouse Senescence from HE-Stain Liver Images Using an Ensemble SVM Classifier. | Hui-Ling Huang, Ming-Hsin Hsu, Hua-Chin Lee, Phasit Charoenkwan, Shinn-Jang Ho, Shinn-Ying Ho |
| 2013 | CIBCB | Designing predictors of halophilic and non-halophilic proteins using support vector machines. | Hui-Ling Huang, Yerukala Sathipati Srinivasulu, Phasit Charoenkwan, Hua-Chin Lee, Shinn-Ying Ho |
| 2013 | CIBCB | Predicting protein crystallization using a simple scoring card method. | Watshara Shoombuatong, Hui-Ling Huang, Jeerayut Chaijaruwanich, Phasit Charoenkwan, Hua-Chin Lee, Shinn-Ying Ho |
| 2012 | IJCNN | Motion sickness estimation system. | Chin-Teng Lin, Shu-Fang Tsai, Hua-Chin Lee, Hui-Ling Huang, Shinn-Ying Ho, Li-Wei Ko |
| 2008 | CEC | Inferring S-system models of genetic networks from a time-series real data set of gene expression profiles. | Hui-Ling Huang, Kuan-Wei Chen, Shinn-Jang Ho, Shinn-Ying Ho |
| 2008 | CIBCB | ProLoc-rGO: Using rule-based knowledge with Gene Ontology terms for prediction of protein subnuclear localization. | Wen-Lin Huang, Chun-Wei Tung, Shih-Wen Ho, Shinn-Ying Ho |
| 2007 | CIBCB | Boosting Evolutionary Support Vector Machine for Designing Tumor Classifiers from Microarray Data. | Hui-Ling Huang, Yi-Hsiung Chen, Dwight D. Koeberl, Shinn-Ying Ho |
| 2006 | PAKDD | Scoring Method for Tumor Prediction from Microarray Data Using an Evolutionary Fuzzy Classifier. | Shinn-Ying Ho, Chih-Hung Hsieh, Kuan-Wei Chen, Hui-Ling Huang, Hung-Ming Chen, Shinn-Jang Ho |
| 2006 | PAKDD | Intelligent Particle Swarm Optimization in Multi-objective Problems. | Shinn-Jang Ho, Wen-Yuan Ku, Jun-Wun Jou, Ming-Hao Hung, Shinn-Ying Ho |
| 2005 | CEC | Evolutionary divide-and-conquer approach to inferring S-system models of genetic networks. | Shinn-Ying Ho, Chih-Hung Hsieh, Fu-Chieh Yu, Hui-Ling Huang |
| 2005 | CEC | Efficient gene selection for classification of microarray data. | Shinn-Ying Ho, Chong-Cheng Lee, Hung-Ming Chen, Hui-Ling Huang |
| 2005 | CEC | Flexible protein-ligand docking using particle swarm optimization. | Bo-Fu Liu, Hung-Ming Chen, Hui-Ling Huang, Shiow-Fen Hwang, Shinn-Ying Ho |
| 2005 | CIBCB | Interpretable Prediction of Protein Stability Changes upon Mutation by Using Decision Tree. | Larry Huang, Wen-Lin Huang, Shinn-Ying Ho, Shiow-Fen Hwang |
| 2005 | GECCO | Quality-time analysis of multi-objective evolutionary algorithms. | Jian-Hung Chen, Shinn-Ying Ho, David E. Goldberg |
| 2005 | GECCO | MeSwarm: memetic particle swarm optimization. | Bo-Fu Liu, Hung-Ming Chen, Jian-Hung Chen, Shiow-Fen Hwang, Shinn-Ying Ho |
| 2005 | ICDE | Inference of S-system Models for Large-Scale Genetic Networks. | Shinn-Ying Ho, Chih-Hung Hsieh, Fu-Chieh Yu |
| 2004 | GECCO | A Novel Multi-objective Orthogonal Simulated Annealing Algorithm for Solving Multi-objective Optimization Problems with a Large Number of Parameters. | Li-Sun Shu, Shinn-Jang Ho, Shinn-Ying Ho, Jian-Hung Chen, Ming-Hao Hung |
| 2004 | PRICAI | Design of Nearest Neighbor Classifiers Using an Intelligent Multi-objective Evolutionary Algorithm. | Jian-Hung Chen, Hung-Ming Chen, Shinn-Ying Ho |
| 2003 | IDEAL | A Non-parametric Image Segmentation Algorithm Using an Orthogonal Experimental Design Based Hill-Climbing. | Kual-Zheng Lee, Wei-Che Chuang, Shinn-Ying Ho |
| 2003 | IDEAL | Model-Based Pose Estimation of Human Motion Using Orthogonal Simulated Annealing. | Kual-Zheng Lee, Ting-Wei Liu, Shinn-Ying Ho |
| 2003 | IDEAL | A Novel Orthogonal Simulated Annealing Algorithm for Optimization of Electromagnetic Problems. | Li-Sun Shu, Shinn-Jang Ho, Shinn-Ying Ho |
| 2002 | CEC | Design of high performance fuzzy controllers using flexible parameterized membership functions and intelligent genetic algorithms. | Shinn-Ying Ho, Tai-Kang Chen, Shinn-Jang Ho |
| 2002 | CEC | An evolutionary approach for pose determination and interpretation of occluded articulated objects. | Shinn-Ying Ho, Zhen-Bang Huang, Shinn-Jang Ho |
| 2002 | CEC | Design of an optimal nearest neighbor classifier using an intelligent genetic algorithm. | Shinn-Ying Ho, Chia-Cheng Liu, Soundy Liu, Jun-Wen Jou |
| 2002 | GECCO | Fitness Inheritance In Multi-objective Optimization. | Jian-Hung Chen, David E. Goldberg, Shinn-Ying Ho, Kumara Sastry |
| 2001 | CEC | An efficient evolutionary image segmentation algorithm. | Shinn-Ying Ho, Kual-Zheng Lee |
| 2001 | CEC | Mesh optimization for surface approximation using an efficient coarse-to-fine evolutionary algorithm. | Hui-Ling Huang, Shinn-Ying Ho |
| 2000 | COMPSAC | Designing an Efficient Fuzzy classifier Using an Intelligent Genetic Algorithm. | Shinn-Ying Ho, Tai-Kang Chen, Shinn-Jang Ho |
| 2000 | GECCO | An Efficient Quadratic Curve Approximation Using an Intelligent Genetic Algorithm. | Shinn-Ying Ho, Meng-Hsun Huang |
| 2000 | GECCO | A Simple and Fast GA-SA hybrid Image Segmentation Algorithm. | Shinn-Ying Ho, Kual-Zheng Lee |