| 2018 | SNPD | Performance of Convolution Neural Network based on Multiple GPUs with Different Data Communication Models. | Che-Lun Hung, Yi-Yang Lin, Chuan Yi Tang, Chilung Wang, Ming-Chiang Chen |
| 2012 | CISIS | Simpute: A Simple Genotype Imputation Method. | Yen Jen Lin, Chun-Tien Chang, Chuan Yi Tang, Wen-Ping Hsieh |
| 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 |
| 2010 | SAC | An incremental algorithm for efficient unique signature discoveries on DNA databases. | Hsiao Ping Lee, Tzu-Fang Sheu, 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 | ICCSA | Approximation Algorithms for 2-Source Minimum Routing Cost | Yen Hung Chen, Gwo-Liang Liao, 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 | CPM | Efficient Algorithms for Regular Expression Constrained Sequence Alignment. | Yun Sheng Chung, Chin Lung Lu, Chuan Yi Tang |
| 2006 | ICCSA | The Bottleneck Tree Alignment Problems. | Yen Hung Chen, 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 | ICCS | Disjoint Segments with Maximum Density. | Yen Hung Chen, Hsueh-I Lu, Chuan Yi Tang |
| 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 |
| 2004 | BIBE | An Improved Algorithm for the Maximum Agreement Subtree Problem. | Chuan-Min Lee, Ling-Ju Hung, Maw-Shang Chang, Chuan Yi Tang |
| 2004 | BIBE | An IDC-based Algorithm for Efficient Homology Filtration with Guaranteed Seriate Coverage. | Hsiao Ping Lee, Yin-Te Tsai, Ching Hua Shih, Tzu Fang Sheu, Chuan Yi Tang |
| 2004 | ICCSA | Approximation Algorithms for k-Source Bottleneck Routing Cost Spanning Tree Problems. | Yen Hung Chen, Bang Ye Wu, Chuan Yi Tang |
| 2004 | SAC | A seriate coverage filtration approach for homology search. | Hsiao Ping Lee, Yin-Te Tsai, Chuan Yi Tang |
| 2003 | COCOON | On the Full and Bottleneck Full Steiner Tree Problems. | Yen Hung Chen, Chin Lung Lu, Chuan Yi Tang |
| 2003 | SAC | Identify Amino Acid Candidates Critical for Function of Rat Imidase by Cross-reference Voting in Imidase SuperFamily. | Chihan Lee, Ya-ting Lin, Chuan Yi Tang, Yuh-Shyong Yang |
| 2002 | COCOON | The Full Steiner Tree Problem in Phylogeny. | Chin Lung Lu, Chuan Yi Tang, Richard Chia-Tung Lee |
| 2001 | COCOON | A New Measure of Edit Distance between Labeled Trees. | Chin Lung Lu, Zheng-Yao Su, Chuan Yi Tang |
| 2000 | ISAAC | Efficient Minus and Signed Domination in Graphs. | Chin Lung Lu, Sheng-Lung Peng, Chuan Yi Tang |
| 1999 | STACS | Constructing Light Spanning Trees with Small Routing Cost. | Bang Ye Wu, Kun-Mao Chao, Chuan Yi Tang |
| 1998 | COCOON | A Linear-Time Algorithm for Constructing an Optimal Node-Search Strategy of a Tree. | Sheng-Lung Peng, Chin-Wen Ho, Tsan-sheng Hsu, Ming-Tat Ko, Chuan Yi Tang |
| 1998 | COCOON | Approximation and Exact Algorithms for Constructing Minimum Ultrametric Trees from Distance Matrices. | Bang Ye Wu, Kun-Mao Chao, Chuan Yi Tang |
| 1998 | ISAAC | Approximation Algorithms for Some Optimum Communication Spanning Tree Problems. | Bang Ye Wu, Kun-Mao Chao, Chuan Yi Tang |
| 1998 | SODA | A Polynomial Time Approximation Scheme for Minimum Routing Cost Spanning Trees. | Bang Ye Wu, Giuseppe Lancia, Vineet Bafna, Kun-Mao Chao, R. Ravi, Chuan Yi Tang |
| 1997 | COCOON | Effincient Domination of Permutation Graphs and Trapezoid Graphs. | Y. Daniel Liang, Chin Lung Lu, Chuan Yi Tang |
| 1997 | COCOON | Edge and Node Searching Problems on Trees. | Sheng-Lung Peng, Chin-Wen Ho, Tsan-sheng Hsu, Ming-Tat Ko, Chuan Yi Tang |
| 1996 | ISAAC | Graph Searching on Chordal Graphs. | Sheng-Lung Peng, Ming-Tat Ko, Chin-Wen Ho, Tsan-sheng Hsu, Chuan Yi Tang |
| 1994 | ICPADS | An Efficient Emulation for Tree-Connected Networks. | Daw-Jong Shyu, Biing-Feng Wang, Chuan Yi Tang |
| 1994 | ICPP | Fast Algorithms for Simulating the CRCW Shared-Memory Computer on Reconfigurable Meshes. | Daw-Jong Shyu, Biing-Feng Wang, Chuan Yi Tang |
| 1993 | INFOCOM | Minimum-Cost Synchronizable Test Sequence Generation via the DuplexU Digraph. | Wen-Huei Chen, Chuan Yi Tang, Hasan Ural |
| 1991 | ICPP | Ranking Unranking and Parallel Enumerating of Topological Orders. | Bang Ye Wu, Chuan Yi Tang |