4D-QSAR Analysis of a Series of Antifungal P450 Inhibitors and 3D-Pharmacophore Comparisons as a Function of Alignment. - Jianzhong Liu; Dahua Pan; Yufeng J. Tseng; Anton J. Hopfinger (J. Chem. Inf. Comput. Sci., 2003)

Quantitative Structure-Based Design: Formalism and Application of Receptor-Dependent RD-4D-QSAR Analysis to a Set of Glucose Analogue Inhibitors of Glycogen Phosphorylase. - Dahua Pan; Yufeng J. Tseng; Anton J. Hopfinger (J. Chem. Inf. Comput. Sci., 2003)

4D-Fingerprints, Universal QSAR and QSPR Descriptors. - Craig L. Senese; José S. Duca; Dahua Pan; Anton J. Hopfinger; Yufeng J. Tseng (J. Chem. Inf. Model., 2004)

QSAR Analyses of Skin Penetration Enhancers. - Manisha Iyer; Tao Zheng; Anton J. Hopfinger; Yufeng J. Tseng (J. Chem. Inf. Model., 2007)

Categorical QSAR models for skin sensitization based on local lymph node assay measures and both ground and excited state 4D-fingerprint descriptors. - Jianzhong Liu; Petra Kern; G. Frank Gerberick; Osvaldo Andrade Santos-Filho; Emilio Xavier Esposito; Anton J. Hopfinger; Yufeng J. Tseng (J. Comput. Aided Mol. Des., 2008)

Membrane-Interaction Quantitative Structure-Activity Relationship (MI-QSAR) Analyses of Skin Penetration Enhancers. - Tao Zheng; Anton J. Hopfinger; Emilio Xavier Esposito; Jianzhong Liu; Yufeng J. Tseng (J. Chem. Inf. Model., 2008)

Chromaligner: a web server for chromatogram alignment. - San-Yuan Wang; Tsung-Jung Ho; Ching-Hua Kuo; Yufeng J. Tseng (Bioinform., 2010)

In Silico Binary Classification QSAR Models Based on 4D-Fingerprints and MOE Descriptors for Prediction of hERG Blockage. - Bo-Han Su; Meng-yu Shen; Emilio Xavier Esposito; Anton J. Hopfinger; Yufeng J. Tseng (J. Chem. Inf. Model., 2010)

Structure-Based Fragment Hopping for Lead Optimization Using Predocked Fragment Database. - Fang-Yu Lin; Yufeng J. Tseng (J. Chem. Inf. Model., 2011)

The great descriptor melting pot: mixing descriptors for the common good of QSAR models. - Yufeng J. Tseng; Anton J. Hopfinger; Emilio Xavier Esposito (J. Comput. Aided Mol. Des., 2012)

Predictive Toxicology Modeling: Protocols for Exploring hERG Classification and Tetrahymena pyriformis End Point Predictions. - Bo-Han Su; Yi-shu Tu; Emilio Xavier Esposito; Yufeng J. Tseng (J. Chem. Inf. Model., 2012)

3Omics: a web-based systems biology tool for analysis, integration and visualization of human transcriptomic, proteomic and metabolomic data. - Tien-Chueh Kuo; Tze-Feng Tian; Yufeng Jane Tseng (BMC Syst. Biol., 2013)

Cheminformatics aspects of high throughput screening: from robots to models: symposium summary. - Yufeng Jane Tseng; Eric J. Martin; Cristian Bologa; Anang A. Shelat (J. Comput. Aided Mol. Des., 2013)

Oversampling to Overcome Overfitting: Exploring the Relationship between Data Set Composition, Molecular Descriptors, and Predictive Modeling Methods. - Chia-Yun Chang; Ming-Tsung Hsu; Emilio Xavier Esposito; Yufeng J. Tseng (J. Chem. Inf. Model., 2013)

Dependence of QSAR Models on the Selection of Trial Descriptor Sets: A Demonstration Using Nanotoxicity Endpoints of Decorated Nanotubes. - Chi-Yu Shao; Sing-Zuo Chen; Bo-Han Su; Yufeng J. Tseng; Emilio Xavier Esposito; Anton J. Hopfinger (J. Chem. Inf. Model., 2013)

21.5 A portable micro gas chromatography system for volatile compounds detection with 15ppb of sensitivity. - Te-Hsuen Tzeng; Chun-Yen Kuo; San-Yuan Wang; Po-Kai Huang; Po-Hung Kuo; Yen-Ming Huang; Wei-Che Hsieh; Shih-An Yu; Yufeng Jane Tseng; Wei-Cheng Tian; Si-Chen Lee; Shey-Shi Lu (ISSCC, 2015)

CypRules: a rule-based P450 inhibition prediction server. - Chi-Yu Shao; Bo-Han Su; Yi-shu Tu; Chieh Lin; Olivia A. Lin; Yufeng J. Tseng (Bioinform., 2015)

Rule-Based Classification Models of Molecular Autofluorescence. - Bo-Han Su; Yi-shu Tu; Olivia A. Lin; Yeu-Chern Harn; Meng-yu Shen; Yufeng J. Tseng (J. Chem. Inf. Model., 2015)

Rule-Based Prediction Models of Cytochrome P450 Inhibition. - Bo-Han Su; Yi-shu Tu; Chieh Lin; Chi-Yu Shao; Olivia A. Lin; Yufeng J. Tseng (J. Chem. Inf. Model., 2015)

A Portable Micro Gas Chromatography System for Lung Cancer Associated Volatile Organic Compound Detection. - Te-Hsuen Tzeng; Chun-Yen Kuo; San-Yuan Wang; Po-Kai Huang; Yen-Ming Huang; Wei-Che Hsieh; Yu-Jie Huang; Po-Hung Kuo; Shih-An Yu; Si-Chen Lee; Yufeng Jane Tseng; Wei-Cheng Tian; et al. (IEEE J. Solid State Circuits, 2016)

G.A.M.E.: GPU-accelerated mixture elucidator. - Alioune Schurz; Bo-Han Su; Yi-shu Tu; Tony Tsung-Yu Lu; Olivia A. Lin; Yufeng J. Tseng (J. Cheminformatics, 2017)

An efficient computer-aided structural elucidation strategy for mixtures using an iterative dynamic programming algorithm. - Bo-Han Su; Meng-yu Shen; Yeu-Chern Harn; San-Yuan Wang; Alioune Schurz; Chieh Lin; Olivia A. Lin; Yufeng J. Tseng (J. Cheminformatics, 2017)

NP-StructurePredictor: Prediction of Unknown Natural Products in Plant Mixtures. - Yeu-Chern Harn; Bo-Han Su; Yuan-Ling Ku; Olivia A. Lin; Cheng-Fu Chou; Yufeng J. Tseng (J. Chem. Inf. Model., 2017)

LipidPedia: a comprehensive lipid knowledgebase. - Tien-Chueh Kuo; Yufeng Jane Tseng (Bioinform., 2018)

PgpRules: a decision tree based prediction server for P-glycoprotein substrates and inhibitors. - Pei-Hua Wang; Yi-shu Tu; Yufeng J. Tseng (Bioinform., 2019)

IntelliPatent: a web-based intelligent system for fast chemical patent claim drafting. - Pei-Hua Wang; Yufeng Jane Tseng (J. Cheminformatics, 2019)

Human Breathomics Database. - Tien-Chueh Kuo; Cheng-En Tan; San-Yuan Wang; Olivia A. Lin; Bo-Han Su; Ming-Tsung Hsu; Jessica Lin; Yu-Yen Cheng; Ciao-Sin Chen; Yu-Chieh Yang; Kuo-Hsing Chen; Shu-Wen Lin; et al. (Database J. Biol. Databases Curation, 2020)

Different molecular enumeration influences in deep learning: an example using aqueous solubility. - Jen-Hao Chen; Yufeng Jane Tseng (Briefings Bioinform., 2021)

Current development of integrated web servers for preclinical safety and pharmacokinetics assessments in drug development. - Yi Hsiao; Bo-Han Su; Yufeng J. Tseng (Briefings Bioinform., 2021)

PanGPCR: predictions for multiple targets, repurposing and side effects. - Lu-Chi Liu; Ming-Yang Ho; Bo-Han Su; San-Yuan Wang; Ming-Tsung Hsu; Yufeng J. Tseng (Bioinform., 2021)

A general optimization protocol for molecular property prediction using a deep learning network. - Jen-Hao Chen; Yufeng Jane Tseng (Briefings Bioinform., 2022)

Comparative studies of AlphaFold, RoseTTAFold and Modeller: a case study involving the use of G-protein-coupled receptors. - Chien Lee; Bo-Han Su; Yufeng Jane Tseng (Briefings Bioinform., 2022)

Ensemble modeling with machine learning and deep learning to provide interpretable generalized rules for classifying CNS drugs with high prediction power. - Tzu-Hui Yu; Bo-Han Su; Leo Chander Battalora; Sin Liu; Yufeng Jane Tseng (Briefings Bioinform., 2022)

Every Pixel Has Its Moments: Ultra-High-Resolution Unpaired Image-to-Image Translation via Dense Normalization. - Ming-Yang Ho; Che-Ming Wu; Min-Sheng Wu; Yufeng Jane Tseng (ECCV (45), 2024)

Digital annealing optimization for natural product structure elucidation. - Chien Lee; Pei-Hua Wang; Yufeng Jane Tseng (Briefings Bioinform., 2024)

FastEval Parkinsonism: an instant deep learning-assisted video-based online system for Parkinsonian motor symptom evaluation. - Yu-Yuan Yang; Ming-Yang Ho; Chung-Hwei Tai; Ruey-Meei Wu; Ming-Che Kuo; Yufeng Jane Tseng (npj Digit. Medicine, 2024)

Pathological Gait Analysis With an Open-Source Cloud-Enabled Platform Empowered by Semi-Supervised Learning-PathoOpenGait. - Ming-Yang Ho; Ming-Che Kuo; Ciao-Sin Chen; Ruey-Meei Wu; Ching-Chi Chuang; Chi-Sheng Shih 001; Yufeng Jane Tseng (IEEE J. Biomed. Health Informatics, 2024)

A robust and interpretable graph neural network-based protocol for predicting p-glycoprotein substrates. - Kuang-Cheng Hsu; Pei-Hua Wang; Bo-Han Su; Yufeng Jane Tseng (Briefings Bioinform., 2025)

Advantages of two quantum programming platforms in quantum computing and quantum chemistry. - Pei-Hua Wang; Wei-Yeh Wu; Che-Yu Lee; Jia-Cheng Hong; Yufeng Jane Tseng (J. Cheminformatics, 2025)