47. L Yao, J Guan, P Xie, CR Chung, J Deng, Y Huang, YC Chiang, TY Lee (2024). AMPActiPred: A three‐stage framework for predicting antibacterial peptides and activity levels with deep forest. Protein Science. 33(6): e5006.
46. J Guan, L Yao, P Xie, CR Chung, Y Huang, YC Chiang, TY Lee (2024). A two-stage computational framework for identifying antiviral peptides and their functional types based on contrastive learning and multi-feature fusion strategy. Briefings in Bioinformatics. 25(3): bbae208.
45. R Wang, CR Chung, TY Lee (2024). Interpretable multi-scale deep learning for RNA methylation analysis across multiple species. International Journal of Molecular Sciences. 25(5): 2869.
44. Y Zhang, L Yao, CR Chung, Y Huang, S Li, W Zhang, Y Pang, TY Lee (2024). KinPred-RNA-kinase activity inference and cancer type classification using machine learning on RNA-seq data. iScience. 27(4):109333.
43. L Yao, J Guan, W Li, CR Chung, J Deng, YC Chiang, TY Lee (2024). Identifying antitubercular peptides via deep forest architecture with effective feature representation. Analytical Chemistry. 96(4): 1538-1546.
42. J Guan, L Yao, CR Chung, P Xie, Y Zhang, J Deng, YC Chiang, TY Lee (2023). Predicting anti-inflammatory peptides by ensemble machine learning and deep learning. Journal of Chemical Information and Modeling. 63(24): 7886-7898.
41. CR Chung, JT Liou, LC Wu, JT Horng, TY Lee (2023). Multi-label classification and features investigation of antimicrobial peptides with various functional classes. iScience.
40. Y Lin, WY Lin, TW Lin, YJ Tseng, YC Wang, JR Yu, CR Chung, HY Wang (2023). Trend of HPV molecular epidemiology in the post-vaccine era: a 10-year study. Viruses. 15(10): 2015.
39. L Yao, Y Zhang, W Li, CR Chung, J Guan, W Zhang, YC Chiang, TY Lee (2023). DeepAFP: An effective computational framework for identifying antifungal peptides based on deep learning. Protein Science. 32(10): e4758.
38. Z Wang†, Y Pang†, CR Chung†, HY Wang, H Cui, YC Chiang, JT Horng, JJ Lu, TY Lee (2023). A risk assessment framework for multidrug-resistant Staphylococcus aureus using machine learning and mass spectrometry technology. Briefings in Bioinformatics. 24(6): 1-13.
37. J Guan, L Yao, CR Chung, YC Chiang, TY Lee (2023). StackTHPred: Identifying tumor-homing peptides through GBDT-based feature selection with stacking ensemble architecture. International Journal of Molecular Sciences. 24(12): 10348.
36. L Yao, Y Pang, J Wan, CR Chung, J Yu, J Guan, C Leung, YC Chiang, TY Lee (2023). ABPCaps: A novel capsule network-based method for the prediction of antibacterial peptides. Applied Sciences. 13(12): 6965.
35. CR Chung, SC Yeh, EHK Wu, SY Lin (2023). Qigong Master: A Qigong-based attention training game using action recognition and balance analysis. IEEE Transactions on Games.
34. CR Chung, HY Wang, CH Yao, LC Wu, JJ Lu, JT Horng, TY Lee (2023). Data-driven two-stage framework for identification and characterization of different antibiotic-resistant Escherichia coli isolates based on mass spectrometry data. Microbiology Spectrum. e03479-22.
33. CR Chung, HY Wang, PH Chou, LC Wu, JJ Lu, JT Horng, TY Lee (2023). Towards accurate identification of antibiotic-resistant pathogens through the ensemble of multiple preprocessing methods based on MALDI-TOF spectra. International Journal of Molecular Sciences. 24(2): 998.
32. R Wang, CR Chung, HD Huang, TY Lee (2023). Identification of species-specific RNA N6-methyladinosine modification sites from RNA sequences. Briefings in Bioinformatics. bbac573.
31. CH Chen, CR Chung, HY Yang, SC Yeh, EHK Wu, HJ Ting (2023). Virtual reality-based supermarket for intellectual disability classification, diagnostics and assessment. IEEE Transactions on Learning Technologies.
30. L Yao, W Li, Y Zhang, J Deng, Y Pang, Y Huang, CR Chung, J Yu, YC Chiang, TY Lee (2023). Accelerating the discovery of anticancer peptides through deep forest architecture with deep graphical representation. International Journal of Molecular Sciences. 24(5): 4328.
29. JH Lee, EHK Wu, YY Ou, YC Lee, CH Lee, CR Chung (2023). Anti-drugs chatbot: Chinese BERT-based cognitive intent analysis. IEEE Transactions on Computational Social Systems.
28. CC Chen, EHK Wu, YQ Chen, HJ Tsai, CR Chung, SC Yeh (2023). Neuronal correlates of task irrelevant distractions enhance the detection of attention deficit/hyperactivity disorder. IEEE Transactions on Neural Systems and Rehabilitation Engineering.
27. CR Chung, MC Su, SH Lee, EHK Wu, LH Tang, SC Yeh (2022). An intelligent motor assessment method utilizing a bi-lateral virtual-reality task for stroke rehabilitation on upper extremity. IEEE Journal of Translational Engineering in Health and Medicine. 10: 1-11.
26. CC Chen, CR Chung, MC Tsai, EHK Wu, PR Chiu, PY Tsai, SC Yeh (2022). Impaired brain-heart relation in patients with methamphetamine use disorder during VR induction of drug cue reactivity. IEEE Journal of Translational Engineering in Health and Medicine.
25. HY Wang, CH Kuo, CR Chung, WY Lin, YC Wang, TW Lin, JR Yu, JJ Lu, TS Wu (2022). Rapid and accurate discrimination of Mycobacterium abscessus subspecies based on matrix-assisted laser desorption ionization-time of flight spectrum and machine learning algorithms. Biomedicines. 11(1): 45.
24. R Vaitheeshwari, SC Yeh, EHK Wu, JY Chen, CR Chung (2022). Stress Recognition Based on Multiphysiological Data in High-Pressure Driving VR Scene. IEEE Sensors Journal. 22(20): 19897-19907.
23. CC Chen, MC Tsai, EHK Wu, CR Chung, Y Lee, PR Chiu, PY Tsai, SR Sheng, SC Yeh (2022). Neuronal abnormalities induced by an intelligent virtual reality system for methamphetamine use disorder. IEEE Journal of Biomedical and Health Informatics.
22. HY Wang, YH Liu, YJ Tseng, CR Chung, TW Lin, JR Yu, YC Huang, JJ Lu (2022). Investigating unfavorable factors that impede MALDI-TOF-based AI in predicting antibiotic resistance. Diagnostics, 12(2), 413.
21. JR Yu, CH Chen, TW Huang, JJ Lu, CR Chung, TW Lin, MH Wu, YJ Tseng, HY Wang (2022). Energy efficiency of inference algorithms for clinical laboratory data sets: green artificial intelligence study. Journal of Medical Internet Research, 24(1): e28036.
20. JH Jhong, L Yao, Y Pang, Z Li, CR Chung, R Wang, S Li, W Li, M Luo, R Ma, Y Huang, X Zhu, J Zhang, H Feng, Q Cheng, C Wang, K Xi, LC Wu, TH Chang, JT Horng, L Zhu, YC Chiang, Z Wang, TY Lee (2022). dbAMP 2.0: updated resource for antimicrobial peptides with an enhanced scanning method for genomic and proteomic data. Nucleic Acids Research, 50(D1): D460-D470.
19. HY Wang, TT Hsieh, CR Chung, HC Chang, JT Horng, JJ Lu, JH Huang (2022). Efficiently predicting vancomycin resistance of Enterococcus faecium from MALDI-TOF MS spectra using a deep learning-based approach. Frontiers in Microbiology, 1791.
18. J Zhang, Z Wang, HY Wang, CR Chung, JT Horng, JJ Lu, TY Lee (2022). Rapid antibiotic resistance serial prediction in Staphylococcus aureus based on large-scale MALDI-TOF data by applying XGBoost in multi-label learning. Frontiers in Microbiology, 1097.
17. C Wang, Z Wang, HY Wang, CR Chung, JT Horng, JJ Lu, TY Lee (2022). Large-scale samples based rapid detection of ciprofloxacin resistance in Klebsiella pneumoniae using machine learning methods. Frontiers in Microbiology, 186.
16. CR Chung, Z Wang, JM Weng, HY Wang, LC Wu, YJ Tseng, CH Chen, JJ Lu, JT Horng, TY Lee (2021). MDRSA: a web based-tool for rapid identification of multidrug resistant Staphylococcus aureus based on matrix-assisted laser desorption ionization-time of flight mass spectrometry. Frontiers in Microbiology, 3548.
15. HY Wang†, CR Chung†, Wang Z, Li S, Chu BY, Horng JT, Lu JJ, Lee TY (2021). A large-scale investigation and identification of methicillin-resistant Staphylococcus aureus based on peaks binning of matrix-assisted laser desorption ionization-time of flight MS spectra. Briefings in Bioinformatics, 22(3): bbaa138.
14. HY Wang, CR Chung, CJ Chen, KP Lu, YJ Tseng, TH Chang, MH Wu, WT Huang, TW Lin, TP Liu, TY Lee, JT Horng, JJ Lu (2021). Clinically applicable system for rapidly predicting Enterococcus faecium susceptibility to vancomycin. Microbiology Spectrum, 9(3): e00913-21.
13. MC Tsai, CR Chung, CC Chen, JY Chen, SC Yeh, CH Lin, YJ Chen, MC Tsai, YL Wang, CJ Lin, EHK Wu (2021). An intelligent virtual-reality system with multi-model sensing for cue-elicited craving in patients with methamphetamine use disorder. IEEE Transactions on Biomedical Engineering, 68(7): 2270-2280.
12. CF Tsai, CC Chen, EHK Wu, CR Chung, CY Huang, PY Tsai, SC Yeh (2021). A machine-learning-based assessment method for early-stage neurocognitive impairment by an immersive virtual supermarket. IEEE Transactions on Neural Systems and Rehabilitation Engineering. 29: 2124-2132.
11. Z Wang, HY Wang, CR Chung, JT Horng, JJ Lu, TY Lee (2021). Large-scale mass spectrometry data combined with demographics analysis rapidly predicts methicillin resistance in Staphylococcus aureus. Briefings in Bioinformatics, 22(4): bbaa293.
10. SH Lee, SC Yeh, J Cui, CR Chung, CH Yeh, L Liu (2021). Motor Indicators for the Assessment of frozen shoulder rehabilitation via a virtual reality training system. Electronics, 10(6), 740.
9. CR Chung, TR Kuo, LC Wu, TY Lee, JT Horng (2020). Characterization and identification of antimicrobial peptides with different functional activities. Briefings in Bioinformatics, 21(3): 1098-1114.
8. CR Chung, JH Jhong, Z Wang, S Chen, Y Wan, JT Horng, TY Lee (2020). Characterization and identification of natural antimicrobial peptides on different organisms. International Journal of Molecular Sciences, 21(3): 986.
{SCIE; 2021 Impact Factor: 6.208; BIOCHEMISTRY & MOLECULAR BIOLOGY: 69/297}
7. CR Chung, YP Chang, YL Hsu, S Chen, LC Wu, JT Horng, TY Lee (2020). Incorporating hybrid models into lysine malonylation sites prediction on mammalian and plant proteins. Scientific Reports, 10:10541.
{SCIE; 2021 Impact Factor: 4.997; MULTIDISCIPLINARY SCIENCES: 19/74}
6. SC Yeh, SY Lin, EHK Wu, KF Zhang, X Xiu, A Rizzo, CR Chung (2020). A virtual-reality system integrated with neuro-behavior sensing for attention-deficit/hyperactivity disorder intelligent assessment. IEEE Transactions on Neural Systems and Rehabilitation Engineering, 28(9): 1899- 1907.
5. HY Wang, CH Chen, S Shi, CR Chung, YH Wen, MH Wu, MS Lebowitz, J Zhou, JJ Lu (2020). Improving multi-tumor biomarker health check-up tests with machine learning algorithms. Cancers, 12(6): 1442.
4. CR Chung†, HY Wang†, F Lien, YJ Tseng, CH Chen, TY Lee, TP Liu, JT Horng, JJ Lu (2019). Incorporating statistical test and machine intelligence into strain typing of Staphylococcus haemolyticus based on matrix-assisted laser desorption ionization-time of flight mass spectrometry. Frontiers in Microbiology, 2019.10: 2120.
3. HY Wang, WC Li, KY Huang, CR Chung, JT Horng, JF Hsu, JJ Lu, TY Lee (2019). Rapid classification of group B Streptococcus serotypes based on matrix-assisted laser desorption ionization-time of flight mass spectrometry and machine learning techniques. BMC Bioinformatics, 20:703.
2. PT Lai, WL Lu, TR Kuo, CR Chung, JC Han, RTH Tsai, JT Horng (2019). Using a large margin context-aware convolutional neural network to automatically extract disease-disease association from literature: comparative analytic study. JMIR medical informatics, 7(4), e14502.
1. MC Chiang, CR Chung, JT Horng, CL Chen (2019). A Bidirectional Study between Rheumatoid Arthritis and Sjogren’s Syndrome: A Population-based Cohort Study in Taiwan. Journal of Computers, 30: 232-241.
† Contributed equally
12. 陳鈞澤, 洪炯宗, 廖宇慶, 劉千義, 鍾佳儒, 葉大綱 (2021). 弱綜觀午後雷暴事件即時預報-機器學習方法. 110 年天氣分析與預報研討會.
11. 黃昇源, 陳品傑, 陳鈞澤, 洪炯宗, 葉大綱, 鍾佳儒, 劉千義, 廖宇慶 (2021). 桃園地區午後雷暴事件即時預報-特徵相關性與群聚分析. TANET2021 臺灣網際網路研討會.
10. 王均琦, 謝瑞峰, 林羽宣, 劉鎮霆, 鍾佳儒, 洪炯宗 (2021). 根據質譜數據建構辨識細菌對苯唑青黴素抗藥性模.型 TANET2021 臺灣網際網路研討會.
9. 張方華, 古立丞, 薛承恩, 王振綱, 林姿伶, 鍾佳儒, 洪炯宗 (2020). 利用質譜數據辨識抗萬古黴素屎腸球菌. TANET2020 臺灣網際網路研討會.
8. 張家妤, 陳玟秀, 吳宥蓁, 王振綱, 林姿伶, 鍾佳儒, 洪炯宗 (2020). 應用機器學習方法辨識鮑氏不動桿菌及其抗藥性. TANET2020 臺灣網際網路研討會.
7. 陳冠廷, 鄭雅嶸, 許嘉雯, 王振綱, 林姿伶, 鍾佳儒, 洪炯宗 (2020). 比較不同擷取質譜特徵峰值方法與機器學習演算法於辨識金黃色葡萄球菌及其抗藥性. TANET2020 臺灣網際網路研討會.
6. YL Hsu, CR Chung, JT Horng (2019). Machine learning for diagnosis of coronary artery disease. TANET2019臺灣網際網路研討會.
5. CY Chien, MY Peng, JT Liou, CR Chung, JT Horng (2019). Identification of imipenem-nonsusceptible acinetobacter nosocomialis isolates by matrix-assisted laser desorption ionization- time of flight mass spectrometry. TANET2019 臺灣網際網路研討會.
4. MC Chiang, JT Horng, CR Chung (2018). A bidirectional study between rheumatoid arthritis and sjogren's syndrome: a population-based cohort study in Taiwan. TANET2018 臺灣網際網路研討會.
3. CR Chung, YI Chen (2017). Design of phase I clinical trial based on Bayesian tests. 38th Annual Conference of the International Society for Clinical Biostatistics. (In Spain, Poster)
2. YI Chen, CR Chung (2017). Bayesian test-based design for phase I clinical trial with late-onset toxicity. 38th Annual Conference of the International Society for Clinical Biostatistics. (In Spain, Oral)
1. YI Chen, CR Chung (2016). Dose-finding designs for phase I clinical trial. 105 統計學術研討會暨政治大學統計學系 50 週年學術研討會.
1. 盧章智, 王信堯, 鍾佳儒, 洪炯宗, 李宗夷 (2020). 模塑化特徵質譜圖譜與鑑別模型建立之方法及分析、鑑別微生物表徵之方法. 中華民國. I700492.