| 2019 | CloudCom | qCUDA: GPGPU Virtualization for High Bandwidth Efficiency. | Yu-Shiang Lin, Chun-Yuan Lin, Che-Rung Lee, Yeh-Ching Chung |
| 2018 | HPCC | A GPU-based Bit-Parallel Multiple Pattern Matching Algorithm. | Che-Lun Hung, Tzu-Hung Hsu, Hsiao-Hsi Wang, Chun-Yuan Lin |
| 2015 | HPCC | Efficient Parallel Muti-pattern Matching Using GPGPU Acceleration for Packet Filtering. | Che-Lun Hung, Po-Chang Wu, Hsiao-Hsi Wang, Chun-Yuan Lin |
| 2015 | HPCC | Constructing a Mobility and Acceleration Computing Platform with NVIDIA Jetson TK1. | Min Su, Jianjun Tan, Chun-Yuan Lin, Jin Ye, Chung-Hung Wang, Che-Lun Hung |
| 2013 | HPCC | Efficient GPU-Based Algorithm for Aligning Huge Sequence Database. | Chun-Yuan Lin, Che-Lun Hung, Jen-Cheng Huang |
| 2012 | CloudCom | Cloud service of analyzing virus data: A case study for Norovirus. | Che-Lun Hung, Chun-Yuan Lin |
| 2012 | CloudCom | Using frequency distance filteration for reducing database search workload on GPU-based cloud service. | Sheng-Ta Lee, Chun-Yuan Lin, Che-Lun Hung, Hsuan Ying Huang |
| 2012 | CloudCom | GPU-based cloud service for multiple sequence alignments with regular expression constrains. | Yu-Shiang Lin, Chun-Yuan Lin, Yeh-Ching Chung |
| 2012 | HPCC | Parallel UPGMA Algorithm on Graphics Processing Units Using CUDA. | Yu-Rong Chen, Che-Lun Hung, Yu-Shiang Lin, Chun-Yuan Lin, Tien-Lin Lee, Kual-Zheng Lee |
| 2012 | HPCC | Efficient Packet Pattern Matching for Gigabit Network Intrusion Detection Using GPUs. | Che-Lun Hung, Chun-Yuan Lin, Hsiao-Hsi Wang, Chin-Yuan Chang |
| 2011 | HPCC | CUDA-FRESCO: Frequency-Based RE-Sequencing Tool Based on CO-clustering Segmentation by GPU. | Chun-Yuan Lin, Chuan Yi Tang, Sheng-Ta Li, Yaw-Ling Lin, Che-Lun Hung |
| 2010 | ICA3PP | Balanced Multi-process Parallel Algorithm for Chemical Compound Inference with Given Path Frequencies. | Jiayi Zhou, Kun-Ming Yu, Chun-Yuan Lin, Kuei-Chung Shih, Chuan Yi Tang |
| 2009 | GRC | Parallel branch-and-bound approach with MPI technology in inferring chemical compounds with path frequency. | Kun-Ming Yu, Chun-Yuan Lin, Hui-Yuan Wang, Chuan Yi Tang, Jiayi Zhou |
| 2008 | AINA | Introducing Variable Gap Penalties into Three-Sequence Alignment for Protein Sequences. | Che-Lun Hung, Chun-Yuan Lin, Yeh-Ching Chung, Chuan Yi Tang |
| 2007 | ICPP | Efficient Parallel Algorithm for Optimal Three-Sequences Alignment. | Chun-Yuan Lin, Chen Tai Huang, Yeh-Ching Chung, Chuan Yi Tang |
| 2007 | PACT | 3-Points Relationship Based Parallel Algorithm for Minimum Ultrametric Tree Construction. | Kun-Ming Yu, Jiayi Zhou, Chun-Yuan Lin, Chuan Yi Tang |
| 2006 | ISPA | An Efficient Parallel Algorithm for Ultrametric Tree Construction Based on 3PR. | Kun-Ming Yu, Jiayi Zhou, Chun-Yuan Lin, Chuan Yi Tang |
| 2005 | BIBE | Feature Selection and Combination Criteria for Improving Predictive Accuracy in Protein Structure Classification. | Chun-Yuan Lin, Ken-Li Lin, Chuen-Der Huang, Hsiu-Ming Chang, Chiao Yun Yang, Chin-Teng Lin, Chuan Yi Tang, D. Frank Hsu |
| 2005 | GLOBECOM | Fast packet classification using bit compression. | Chia-Jen Hsu, Chien Chen, Chun-Yuan Lin |
| 2005 | PACT | A Fast Technique for Constructing Evolutionary Tree with the Application of Compact Sets. | Kun-Ming Yu, Yu-Weir Chang, YaoHua Yang, Jiayi Zhou, Chun-Yuan Lin, Chuan Yi Tang |
| 2005 | SAC | EXONSCAN: EXON prediction with Signal detection and Coding region AligNment in homologous sequences. | Shu Ju Hsieh, Yun Sheng Chung, Chun-Yuan Lin, Chuan Yi Tang |
| 2002 | CW | Efficient Data Compression Methods for Multi-Dimensional Sparse Array Operations. | Chun-Yuan Lin, Yeh-Ching Chung, Jen-Shiuh Liu |