| Issue Date | Title | Author(s) | Relation | scopus | WOS | Fulltext/Archive link |
| 2017 | Automated identification of intact N-linked glycoproteins with multiple protein search engines | Cheng-Wei Cheng; Wen-Lian Hsu; Ting-Yi Sung | | | | |
| 2007 | BIOSMILE: A semantic role labeling system for biomedical verbs using a maximum-entropy model with automatically generated template features | Richard Tzong-Han Tsai; Wen-Chi Chou; Yu-Chun Lin; Ying-Shan Su; Cheng-Lung Sung; Hong-Jie Dai; Irene Tzu-Hsuan Yeh; Wei Ku; Ting-Yi Sung; Wen-Lian Hsu | BMC Bioinformatics 8:325 | | | |
| 2014 | Chromosome-centric Human Proteome Project (C-HPP): Chromosome 12 | Sakdithep Chaiyarit; Nilubon Singhto; Yi-Ju Chen; Chia-Ying Cheng; Wararat Chiangjong; Rattiyaporn Kanlaya; Henry H. N. Lam; Paleerath Peerapen; Ting-Yi Sung; Phornpimon Tipthara; Akhilesh Pandey; Terence C. W. Poon; Yu-Ju Chen; Ravi Sirdeshmukh; Maxey C. M. Chung; Visith Thongboonkerd | Journal of Proteome Research 13(7), 3160-3165 | | | |
| 2012 | Computational comparative study of tuberculosis proteomes using a model learned from signal peptide structures | Jhih-Siang Lai; Cheng-Wei Cheng; Ting-Yi Sung; Wen-Lian Hsu | PLoS ONE 7(4), e35018 | | | |
| 2013 | Efficient and interpretable prediction of protein functional classes by correspondence analysis and compact set relations | Jia-Ming Chang; Jean-Francois Taly; Ionas Erb; Ting-Yi Sung; Wen-Lian Hsu; Chuan Yi Tang; Cedric Notredame; Emily Chia-Yu Su | PLoS ONE 8(10), e75542 | | | |
| 2018 | Evaluating the possibility of misinterpreting MS/MS spectra caused by isobaric substitutions: a case study on human missing proteins | Jen-Hung Wang; Tung-Shing Mamie Lih; Wai-Kok Choong; Wen-Lian Hsu; Ting-Yi Sung | | | | |
| 2009 | GAPM–A Robust Algorithm for the Physical Mapping Problem | Hsin-Nan Lin; Yen-Yi Lin; Shinn-Ying Ho; Ting-Yi Sung; Wen-Lian Hsu | TR-IIS-09-011 | | | |
| 2009 | IDEAL-Q: An automated tool for label-free quantitation analysis using an efficient peptide alignment approach and spectral data validation | Chih-Chiang Tsou; Chia-Feng Tasi; Ying-Hao Tsui; Putty-Reddy Sudhir; Yi-Ting Wang; Yu-Ju Chen; Jeou-Yuan Chen; Ting-Yi Sung; Wen-Lian Hsu | IM-IIS-09-001 | | | |
| 2011 | Improving the alignment quality of consistency based aligners with an evaluation function using synonymous protein words | Hsin-Nan Lin; Cedric Notredame; Jia-Ming Chang; Ting-Yi Sung; Wen-Lian Hsu | PLoS ONE 6(12), e27872 | | | |
| 2016 | iTop-Q: an intelligent top-down proteomics quantification tool using the DYAMOND algorithm for charge state deconvolution | Hui-Yin Chang; Ching-Tai Chen; Chiun-Gung Juo; Wen-Lian Hsu; Ting-Yi Sung | | | | |
| 2012 | Label-free quantitative proteomics and N-glycoproteomics analysis of KRAS-activated human bronchial epithelial cells | Putty-Reddy Sudhir; Chein-Hung Chen; Madireddy Pavana Kumari; Mei-Jung Wang; Chih-Chiang Tsou; Ting-Yi Sung; Jeou-Yuan Chen; Chung-Hsuan Chen | Molecular and Cellular Proteomics 11(10), 901-915 | | | |
| 2013 | Lipid exposure prediction enhances the inference of rotational angles of transmembrane helices | Jhih-Siang Lai; Cheng-Wei Cheng; Allan Lo; Ting-Yi Sung; Wen-Lian Hsu | BMC Bioinformatics 14, 304 | | | |
| 2008 | MaXIC-Q: A Fully Automated Generic Tool Using Statistical and Computational Methods for Protein Quantitation Based on Stable Isotope Labeling and LC-MS | Ethan Yin-Hao Tsui; Yi-Hwa Yian; Chih-Chiang Tsou; Paul Chuan-Yih Yu; Yi-Ju Chen; Ke-Shiuan Lynn; Wen-Chi Chou; Yu-Ju Chen; Ting-Yi Sung; Wen-Lian Hsu | TR-IIS-08-004 | | | |
| 2019 | MinProtMaxVP: Generating a minimized number of protein variant sequences containing all possible variant peptides by solving a set covering problem | Wai-Kok Choong; Jen-Hung Wang; Ting-Yi Sung | TM-IIS-19-001 | | | |
| 2017 | Multi-Q 2: automated and robust isobaric labeling quantitation analysis with enhanced graphical visualization of protein ratio clustering | Ching-Tai Chen; Cheng-Wei Cheng; Wei-Jhe Hsu; Hui-Yin Chang; Chu-Ling Ko; T. Mamie Lih; Yi-Ju Chen; Yu-Ju Chen; Wen-Lian Hsu; Ting-Yi Sung | | | | |
| 2006 | NERBio: Using Selected Word Conjunction, Term Normalization, and Global Patterns to Improve Biomedical Named Entity Recognition | Richard Tzong-Han Tsai; Cheng-Lung Sung; Hong-Jie Dai; Hsieh-Chuan Hung; Ting-Yi Sung; Wen-Lian Hsu | BMC Bioinformatics 7(Suppl 5), S11 | | | |
| 2007 | On the Accuracy of Transmembrane Helix Prediction Methods Using an Updated Benchmark | Allan Lo; Hua-Sheng Chiu; Ting-Yi Sung; Wen-Lian Hsu | TR-IIS-07-010 | | | |
| 2012 | Phosphoproteomic analysis of human mesenchymal stromal cells during osteogenic differentiation | Ting Lo; Chia-Feng Tsai; Yu-Ru V. Shih; Yi-Ting Wang; Sheng-Chieh Lu; Ting-Yi Sung; Wen-Lian Hsu; Yu-Ju Chen; Oscar K. Lee | Journal of Proteome Research 11(2), 586-598 | | | |
| 2017 | Phosphoproteomics reveals HMGA1, a CK2 substrate, as a drug-resistant target in non-small cell lung cancer | Yi-Ting Wang; Szu-Hua Pan; Chia-Feng Tsai; Ting-Chun Kuo; Yuan-Ling Hsu; Hsin-Yung Yen; Wai-Kok Choong; Hsin-Yi Wu; Yen-Chen Liao; Tse-Ming Hong; Ting-Yi Sung; Pan-Chyr Yang; Yu-Ju Chen | Scientific Reports 7, 44021 | | | |
| 2009 | Predicting helix-helix interactions from residue contacts in membrane proteins | Allan Lo; Yi-Yuan Chiu; Einar Andreas Rødland; Ping-Chiang Lyu; Ting-Yi Sung; Wen-Lian Hsu | Bioinformatics 25(8), 996-1003 | | | |
