POPI: predicting immunogenicity of MHC class I binding peptides by mining informative physicochemical properties. - Chun-Wei Tung; Shinn-Ying Ho (Bioinform., 2007)

ProLoc: Prediction of protein subnuclear localization using SVM with automatic selection from physicochemical composition features. - Wen-Lin Huang; Chun-Wei Tung; Hui-Ling Huang; Shiow-Fen Hwang; Shinn-Ying Ho (Biosyst., 2007)

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 (CIBCB, 2008)

ProLoc-GO: Utilizing informative Gene Ontology terms for sequence-based prediction of protein subcellular localization. - Wen-Lin Huang; Chun-Wei Tung; Shih-Wen Ho; Shiow-Fen Hwang; Shinn-Ying Ho (BMC Bioinform., 2008)

Computational identification of ubiquitylation sites from protein sequences. - Chun-Wei Tung; Shinn-Ying Ho (BMC Bioinform., 2008)

Predicting protein subnuclear localization using GO-amino-acid composition features. - Wen-Lin Huang; Chun-Wei Tung; Hui-Ling Huang; Shinn-Ying Ho (Biosyst., 2009)

POPISK: T-cell reactivity prediction using support vector machines and string kernels. - Chun-Wei Tung; Matthias Ziehm; Andreas Kämper; Oliver Kohlbacher; Shinn-Ying Ho (BMC Bioinform., 2011)

PupDB: a database of pupylated proteins. - Chun-Wei Tung (BMC Bioinform., 2012)

Prediction of Non-genotoxic Hepatocarcinogenicity Using Chemical-Protein Interactions. - Chun-Wei Tung (PRIB, 2013)

Acquiring Decision Rules for Predicting Ames-Negative Hepatocarcinogens Using Chemical-Chemical Interactions. - Chun-Wei Tung (PRIB, 2014)

TIPdb-3D: the three-dimensional structure database of phytochemicals from Taiwan indigenous plants. - Chun-Wei Tung; Ying-Chi Lin 002; Hsun-Shuo Chang; Chia-Chi Wang; Ih-Sheng Chen; Jhao-Liang Jheng; Jih-Heng Li (Database J. Biol. Databases Curation, 2014)

Interpretable prediction of non-genotoxic hepatocarcinogenic chemicals. - Chun-Wei Tung; Jhao-Liang Jheng (Neurocomputing, 2014)

ChemDIS: a chemical-disease inference system based on chemical-protein interactions. - Chun-Wei Tung (J. Cheminformatics, 2015)

Prediction of Proinflammatory Potentials of Engine Exhausts by Integrating Chemical and Biological Features. - Chia-Chi Wang; Ying-Chi Lin 002; Yuan-Chung Lin; Syu-Ruei Jhang; Chun-Wei Tung (IWBBIO, 2016)

SkinSensDB: a curated database for skin sensitization assays. - Chia-Chi Wang; Ying-Chi Lin 002; Shan-Shan Wang; Chieh Shih; Yi-Hui Lin; Chun-Wei Tung (J. Cheminformatics, 2017)

An Integrated Web-based System for MEDLINE Analysis: A Case Study of Chronic Kidney Disease. - Yi-Ling Lin; Wei-En Huang; Peir-In Liang; Chun-Wei Tung (PACIS, 2018)

ChemDIS 2: an update of chemical-disease inference system. - Chun-Wei Tung; Shan-Shan Wang (Database J. Biol. Databases Curation, 2018)

Curation of cancer hallmark-based genes and pathways for in silico characterization of chemical carcinogenesis. - Peir-In Liang; Chia-Chi Wang; Hsien-Jen Cheng; Shan-Shan Wang; Ying-Chi Lin 002; Pinpin Lin; Chun-Wei Tung (Database J. Biol. Databases Curation, 2020)

Ensemble learning for predicting ex vivo human placental barrier permeability. - Che-Yu Chou; Pinpin Lin; Jongwoon Kim; Shan-Shan Wang; Chia-Chi Wang; Chun-Wei Tung (BMC Bioinform., 2021)

TMUNLP at the NTCIR-16 FinNum-3 Task: Multi-task Learning on BERT for Claim Detection and Numeral Category Classification. - Tzu-Ying Chen; Yu-Wen Chiu; Hui-Lun Lin; Chia-Tzu Lin; Yung-Chung Chang; Chun-Wei Tung (NTCIR, 2022)

Decrypting orphan GPCR drug discovery via multitask learning. - Wei-Cheng Huang; Wei-Ting Lin; Ming-Shiu Hung; Jinq-Chyi Lee; Chun-Wei Tung (J. Cheminformatics, 2024)

A novel multitask learning algorithm for tasks with distinct chemical space: zebrafish toxicity prediction as an example. - Run-Hsin Lin; Pinpin Lin; Chia-Chi Wang; Chun-Wei Tung (J. Cheminformatics, 2024)

Exploring the Efficacy of Large Language Models in Predicting Chemical Toxicity. - Yueh-Hsi Chung; Chun-Wei Tung; Yung-Chun Chang (IEA/AIE (1), 2025)