| 2025 | CIBCB | Self-Attention Enhanced Deep Learning Models for Immune Cell Deconvolution from Bulk RNA-Seq. | Chia-Ru Chung, Yen-Lin Chen, Yun Tang, Justin Bo-Kai Hsu, Li-Ching Wu, Tzong-Yi Lee, Jorng-Tzong Horng |
| 2025 | CIBCB | Explainable AI-Enhanced Kinase Activity Profiling Through Phosphoproteomics. | Chia-Ru Chung, Ming-Feng Ho, Yun Tang, Li-Ching Wu, Justin Bo-Kai Hsu, Tzong-Yi Lee, Jorng-Tzong Horng |
| 2025 | CIBCB | AI-Enhanced MALDI-TOF MS Analysis for Important Peaks on Predicting Ciprofloxacin Resistance across Different Gram-Negative Bacteria. | Hsin-Yao Wang, Chia-Ru Chung, Wen-Rui Zhang, Li-Ching Wu, Justin Bo-Kai Hsu, Jang-Jih Lu, Jorng-Tzong Horng |
| 2011 | BIBE | A Prediction of mRNA Polyadenylation Sites in Human Genes. | Jorng-Tzong Horng, Li-Ching Wu, Shun-Kai Liu, Cheng-Wei Chang, Tsung-Ming Chao, Rong-Hwei Yeh, Kuang-Fu Cheng |
| 2011 | BIBE | A System to Discover Correlations within a Biological Pathway between the Expression Levels of Genes. | Li-Ching Wu, Cheng-Wei Chang, Tsung-Ming Chao, Rong-Hwei Yeh, Jorng-Tzong Horng |
| 2009 | BIBE | RiboSW . | Tzu-Hao Chang, Li-Ching Wu, Chi-Ta Yeh, Cheng-Wei Chang, Baw-Jhiune Liu, Hsien-Da Huang, Jorng-Tzong Horng |
| 2009 | BIBE | A Human DNA Methylation Site Predictor Based on SVM. | Yi-Ming Sun, Wei-Li Liao, Hsien-Da Huang, Baw-Jhiune Liu, Cheng-Wei Chang, Jorng-Tzong Horng, Li-Ching Wu |
| 2007 | ICALT | Integrated Paper Slide in Classroom to Enhance Interaction Using Digital Pens. | Yi-Ping Lin, Po-Yao Chao, Gwo-Dong Chen, Jorng-Tzong Horng |
| 2006 | ICALT | Building a Relational Robot to be Student's Private Learning Secretary. | Len-Yan Sun, Chih-Wei Chang, Gwo-Dong Chen, Jorng-Tzong Horng |
| 2005 | APBC | A database to aid probe design for virus identification. | Feng-Mao Lin, Hsien-Da Huang, Yu-Chung Chang, Pak-Leong Chan, Jorng-Tzong Horng, Ming-Tat Ko |
| 2005 | GECCO | Primer design for multiplex PCR using a genetic algorithm. | Feng-Mao Lin, Hsien-Da Huang, Hsi-Yuan Huang, Jorng-Tzong Horng |
| 2004 | BIBE | Identifying the Combination of Genetic Factors that Determine Susceptibility to Cervical Cancer. | Jorng-Tzong Horng, Kai-Chih Hu, Li-Cheng Wu, Hsien-Da Huang, Horn-Cheng Lai, Ton-Yuen Chu |
| 2004 | DEXA | RgS-Miner: A Biological Data Warehousing, Analyzing and Mining System for Identifying Transcriptional Regulatory Sites in Human Genome. | Yi-Ming Sun, Hsien-Da Huang, Jorng-Tzong Horng, Shir-Ly Huang, Ann-Ping Tsou |
| 2003 | BIBE | A Data Mining Method to Predict Transcriptional Regulatory Sites Based on Differentially Expressed Genes in Human Genome. | Hsien-Da Huang, Huei-Lin Chang, Tsung-Shan Tsou, Baw-Jhiune Liu, Cheng-Yan Kao, Jorng-Tzong Horng |
| 2003 | DEXA | Location Query Based on Moving Behaviors. | Ming-Hui Jin, Eric Hsiao-Kuang Wu, Jorng-Tzong Horng |
| 2003 | ICALT | Using Mobile Techniques in Improving Information Awareness to Promote Learning Performance. | Chin-Yeh Wang, Baw-Jhiune Liu, Kuo-En Chang, Jorng-Tzong Horng, Gwo-Dong Chen |
| 2002 | CEC | Devising a cost effective baseball scheduling by evolutionary algorithms. | Jih Tsung Yang, Hsien-Da Huang, Jorng-Tzong Horng |
| 2002 | ICCCN | Location query based on moving behavior. | Ming-Hui Jin, Eric Hsiao-Kuang Wu, Jorng-Tzong Horng |
| 2002 | ICCE | Web Based Peer Assessment Using Knowledge Acquisition Techniques: Tools for Supporting Contexture Awareness. | Chen-Chung Liu, Baw-Jhiune Liu, Tzu-An Hui, Jorng-Tzong Horng |
| 2002 | ICPADS | A Channel Allocation Algorithm for large scale cellular networks. | Ming-Hui Jin, Eric Hsiao-Kuang Wu, Jorng-Tzong Horng |
| 2001 | BIBE | Discovering Common Structural Motifs from SSU 16 S Ribosomal RNA Secondary Structures. | Hsien-Da Huang, Shu-Fen Fang, Jorng-Tzong Horng, Cheng-Yan Kao |
| 2001 | CEC | Integrating adaptive mutations and family competition with differential evolution for flexible ligand docking. | Jinn-Moon Yang, Jorng-Tzong Horng, Cheng-Yan Kao |
| 2001 | INFOCOM | Personal Paging Area Design Based On Mobiles Moving Behaviors. | Hsiao-Kuang Wu, Ming-Hui Jin, Jorng-Tzong Horng |
| 2000 | CEC | Resolution of quadratic assignment problems using an evolutionary algorithm. | Jorng-Tzong Horng, Chien Chin Chen, Baw-Jhiune Liu, Cheng-Yen Kao |
| 2000 | DEXA | Reducing the Location Query Cost Based on Behavior-Based Strategy. | Ming-Hui Jin, Jorng-Tzong Horng, Hsiao-Kuang Wu, Baw-Jhiune Liu |
| 2000 | DEXA | Indexing Semistructured Data Using PATRICIA Tree. | Li-Cheng Wu, Jorng-Tzong Horng, Baw-Jhiune Liu, Chin-Yea Wang, Gwo-Dong Chen |
| 2000 | GECCO | Materialized View Selection in a Data Warehouse Using Evolutionary Algorithms. | Jorng-Tzong Horng, Yu-Jan Chang, Baw-Jhiune Liu, Cheng-Yan Kao |
| 2000 | GECCO | Using Genetic Algorithms to Solve Multiple Sequence Alignments. | Jorng-Tzong Horng, Ching-Mei Lin, Baw-Jhiune Liu, Cheng-Yan Kao |
| 1999 | CEC | Materialized view selection using genetic algorithms in a data warehouse system. | Jorng-Tzong Horng, Yu-Jan Chang, Baw-Jhiune Liu, Cheng-Yan Kao |
| 1999 | CEC | Resolution of simple plant location problems using an adapted genetic algorithm. | Jorng-Tzong Horng, Li-Yi Lin, Baw-Jhiune Liu, Cheng-Yan Kao |
| 1999 | CEC | Incorporation family competition into Gaussian and Cauchy mutations to training neural networks using an evolutionary algorithm. | Jinn-Moon Yang, Jorng-Tzong Horng, Cheng-Yen Kao |
| 1999 | DaWaK | The Design and Implementation of Modularized Wrappers/ Monitors in a Data Warehouse. | Jorng-Tzong Horng, Jye Lu, Baw-Jhiune Liu, Ren-Dar Yang |
| 1999 | IPCCC | A hierarchical routing protocol for large scale ad hoc network. | Ming-Hui Jin, Hsiao-Kuang Wu, Jorng-Tzong Horng |
| 1998 | COMPSAC | Maintaining Execution Histories for Understanding the Execution of Business Processes. | Gwo-Dong Chen, Chen-Chung Liu, Jorng-Tzong Horng |
| 1998 | ICRA | A New Evolutionary Approach to Developing Neural Autonomous Agents. | Jinn-Moon Yang, Jorng-Tzong Horng, Cheng-Yan Kao |
| 1996 | ICEC | A Genetic Algorithm for Structural Query Processing in Hypertext Systems. | Jiunn-Chin Wang, Jorng-Tzong Horng, Kuo-Chin Fan, Baw-Jhiune Liu |
| 1994 | ICEC | A Genetic Algorithm for Database Query Optimization. | Jorng-Tzong Horng, Baw-Jhiune Liu, Cheng-Yan Kao |
| 1994 | ICEC | A Genetic Algorithm Approach for Set Covering Problems. | Wen-Chih Huang, Cheng-Yan Kao, Jorng-Tzong Horng |
| 1993 | DASFAA | Query Processing Techniques in the Team-Oriented Database Query Language. | Jorng-Tzong Horng, Gwo-Dong Chen, Baw-Jhiune Liu |
| 1991 | DASFAA | Expanding the Notion of Operations in an Object-Oriented Database. | Jorng-Tzong Horng, Baw-Jhiune Liu |