Hong-Jie Dai

Position title:Associate Professor
TEL:(07)3814526 ext. 15510
Fax:
07-3921073
E-mail:hjdai@nkust.edu.tw
Personal
wedsite:
https://bigodatamining.github.io/
Laboratory location:Jiangong Campus-department of electrical engineering 707

自然語言處理

生醫文獻探勘

巨量資料分析與創新應用

機器學習與資料探勘

醫學資訊

軟體工程技術

Web 應用服務

PhD of Computer Science, National Tsing Hua University

Associate Professor, Department of Electrical Engineering, College of Electrical Engineering and Computer Science, National Kaohsiung University of Science and Technology
Jointly Appointed Associate Professor, Department of Post-Baccalaureate Medicine, College of Medicine, Kaohsiung Medical University
Associate Professor, Department of Information Engineering, College of Science and Engineering, National Taitung University
Director, Application Development Section, National Taitung University Library and Information Centre
Assistant Professor, Department of Computer Science and Information Engineering, College of Science and Engineering, National Taitung University
Assistant Professor, Graduate Institute of Biomedical Informatics, College of Medical Science and Technology, Taipei Medical University
Software Engineer, Institute of Information Science, Academia Sinica
Lecturer, Yuan ze University
The integrated cancer research multicenter collaboration platform and its application
Text mining electronic health records to assess the diagnosis, treatment, and outcome of psychiatric disorders (The second and third year)
Adverse Drug Reaction Event Extraction from English and Chinese Social Media
Text mining electronic health records to assess the diagnosis, treatment, and outcome of psychiatric disorders
The Development of Integrated Global Metastasis Text-Mined Knowledge Base and Visualization System
Biomarker Extraction from Literature for Top-ten Most Common Cancers in Taiwan
Research and Development of the Next Generation Biomedical Entity-oriented Search Engine-II
Research and Development of the Next Generation Biomedical Entity-oriented Search Engine
Comorbidity Analysis from Big Unstrcutred Data
<期刊發表>
Hong-Jie Dai, Chu-Hsien Su, Chi-Shin Wu (2019) Adverse drug event and medication extraction in electronic health records via a cascading architecture with different sequence labeling models and word embeddings, Journal of the American Medical Informatics Association (SCI), MOST106-2221-E-143-007-MY3.
Hong-Jie Dai, Chen-Kai Wang (2019) Classifying Adverse Drug Reactions from Imbalanced Twitter Data, International Journal of Medical Informatics (SCI), MOST106-2221-E-143-007-MY3.
Hong-Jie Dai, Chen-Kai Wang, Nai-Wen Chang, Ming-Siang Huang, Jitendra Jonnagaddala, Feng-Duo Wang,Wen-Lian Hsu (2019) Statistical principle-based approach for recognizing and normalizing microRNAs described in scientific literature, Database (SCI), MOST106-2221-E-143-007-MY3.
Rezarta Islamaj Doan, Sun Kim, Andrew Chatr-aryamontri, Chih-Hsuan Wei, Donald C Comeau, Rui Antunes, Sergio Matos, Qingyu Chen, Aparna Elangovan, Nagesh C Panyam, Karin Verspoor, Hongfang Liu, Yanshan Wang, Zhuang Liu, Berna Altnel, Zehra Melce, Husunbeyi Arzucan, O zgur, Aris Fergadis, Chen-Kai Wang, Hong-Jie Dai, Tung Tran, Ramakanth Kavuluru, Ling Luo, Albert Steppi, Jinfeng Zhang, Jinchan Qu, Zhiyong Lu (2019, Jan). Overview of the BioCreative VI Precision Medicine Track: mining protein interactions and mutations for precision medicine. Database (SCI)
Hong-Jie Dai, Jitendra Jonnagaddala (2018, Oct). Assessing the Severity of Positive Valence Symptomsin Initial Psychiatric Evaluation Records:Should We Use Convolutional Neural Networks. PLOS One. MOST106-2221-E-143-007-MY3.
Hong-Jie Dai, Onkar Singh (2018, Apr). SPRENO: a BioC module for identifying organism terms in figure captions. Database. (SCI). MOST 106-2221-E-4307-MY3.
Nai-Wen Chang, Hong-Jie Dai, Chi-Yang Wu, Mira Anne C. dela Rosa, Rofeamor Obena, Yu-Ju Chen, Wen-Lian Hsu (2017, Dec). Biomarker identification of hepatocellular carcinoma using a methodical literature mining strategy. Database. (SCI).
Hong-Jie Dai, Emily Chia-Yu Su, Mohy Uddin, Jitendra Jonnagaddala, Chi-Shin Wu, Shabbir Syed-Abdul (2017, Aug). Exploring associations of clinical and social aspects with violent behavior among psychiatric patients. Journal of Biomedical Informatics. (SCI). MOST 105-2221-E-143-003.
Sun Kim, Rezarta Islamaj Doan, Andrew Chatr-Aryamontri, Christie S.Chang, Rose Oughtred, Jennifer Rust, Riza Batista-Navarro, Jacob Carter, Sophia Ananiadou, Sergio Matos, Andre Santos, David Campos, Jose Luis Oliveira, Onkar Singh, Jitendra Jonnagaddala, Hong-Jie Dai, Emily Chia-Yu Su, Yung-Chun Chang, Yu-Chen Su, Chun-Han Chu, Chien Chin Chen, Wen-Lian Hsu, Yifan Peng, Cecilia Arighi, Cathy H. Wu, K. Vijay-Shanker, Ferhat Aydn, Zehra Melce Husunbeyi, zucan O zgur, Soo-Yong Shin, Dongseop Kwon, Kara Dolinski, Mike Tyers, W. John Wilbur, Donald C. Comeau (2016, Sep). BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID. Database. (SCI).
Hong-Jie Dai, Onkar Singh, Jitendra Jonnagaddala, Emily Chia-Yu Su (2016, Jul). NTTMUNSW BioC modules for recognizing and normalizing species and gene/protein mentions. Database. (SCI). MOST104-2221-E-143-005.
Jitendra Jonnagaddala, Toni Rose Jue, Nai-Wen Chang, Hong-Jie Dai (2016, Jul). Improving the dictionary lookup approach for disease normalization using enhanced dictionary and query expansion. Database. (SCI)
Hong-Jie Dai, Chu-Hsien Su, Po-Ting Lai, Ming-Siang Huang, Jitendra Jonnagaddala, Toni Rose Jue, Shruti Rao, Hui-Jou Chou, Marija Milacic, Onkar Singh, Shabbir Syed-Abdul, Wen-Lian Hsu (2016, May). MET network in PubMed: a text-mined network visualization and curation system. Database. (SCI). MOST 104-2221-E-143-005.
Hong-Jie Dai, Musa Touray, Jitendra Jonnagaddala, Shabbir Syed-Abdul (2016, May). Feature Engineering for Recognizing Adverse Drug Reactions from Twitter Posts. Information, 7(2), 27. (EI). MOST 104-2221-E-143-005.
Nai-Wen Chang, Hong-Jie Dai, Jitendra Jonnagaddala, Chih-Wei Chen, Richard Tzong-Han Tsai, Wen-Lian Hsu (2015, Sep). A Context-Aware Approach for Progression Tracking of Medical Concepts in Electronic Medical Records. Journal of Biomedical Informatics, 58, S150-S157. (SCI). MOST 103-2221-E-038-019.
Jitendra Jonnagaddala, Siaw-Teng Liaw, Pradeep Ray, Manish Kumar, Nai-Wen Chang, Hong-Jie Dai (2015, Aug). Coronary artery disease risk assessment from unstructured electronic health records using text mining. Journal of Biomedical Informatics, 58, S203-S210. (SCI).
Hong-Jie Dai, Chih-Hsuan Wei, Hung-Yu Kao, Rey-Long Liu, Richard Tzong-Han Tsai, Zhiyong Lu (2015, Jul). Text Mining for Translational Bioinformatics. BioMed Research International, 2015. (SCI).
Jitendra Jonnagaddala, Siaw-Teng Liaw, Pradeep Ray, Manish Kumar, Hong-Jie Dai, Chien-Yeh Hsu (2015, Jul). Identification and Progression of Heart Disease Risk Factors in Diabetic Patients from Longitudinal Electronic Health Records. BioMed Research International, 2015. (SCI).
Hong-Jie Dai, Shabbir Syed-Abdul, Chih-Wei Chen, Chieh-Chen Wu (2015, May). Recognition and Evaluation of Clinical Section Headings in Clinical Documents Using Token-Based Formulation with Conditional Random Fields. BioMed Research International, 2015. (SCI). MOST-103-2221-E-038-019.
H.-J.Dai, P.-T.Lai, Y.-C.Chang, R.T.-H.Tsai (2015, Jan). Enhancing of Chemical Compound and Drug Name Recognition Using Representative Tag Scheme and Fine-grained Tokenization. Journal of Cheminformatics, 7(Suppl 1):S14. (SCI). MOST 103-2221-E-038-019.
M. Krallinger, O. Rabal, F. Leitner, M. Vazquez, D. Salgado, Z. Lu, R. Leaman, Y. Lu, D. Ji, D. Lowe, R. Sayle, R. Batista-Navarro, R. Rak, T. Huber,
T. Rocktaschel, S. Matos, D. Campos, B. Tang, H. Xu, T. Munkhdalai, K. Ryu, S. Ramanan, S. Nathan, S. Zitnik, M. Bajec, L. Weber, M. Irmer, S. Akhondi, J. Kors, S. Xu, X. An, U. Sikdar, A. Ekbal, M. Yoshioka, T. Dieb, M. Choi, K. Verspoor, M. Khabsa, C. Giles, H. Liu, K. Ravikumar, A. Lamurias, F. Couto, H.-J. Dai, et al. (2015, Jan). The CHEMDNER corpus of chemicals and drugs and its annotation principles. Journal of Cheminformatics, 7(Suppl 1):S2. (SCI).
E.Rachmani,H.-J.Dai,C.-Y.Hsu (2014, Nov). Internet Use Behavior of Leprosy Control Program Staff at Indonesia's Public Health Center, How Are Their EHealth Literacy. Indian Journal of Medical Informatics.
H.-J. Dai, J.C.-Y. Wu, W.-S. Lin, A.J.Reyes, M.A. Dela Rosa, S.Syed-Abdul, R.T.-H. Tsai, W.-L. Hsu (2014, Aug). LiverCancerMarkerRIF: a liver cancer biomarker interactive curation system combining text mining and expert annotations. Database (Oxford). (SCI). MOST 103-2221-E-038-019.
Y. Mao, K. Van Auken, D. Li, C. N. Arighi, P. McQuilton, G. T. Hayman, S. Tweedie, M. L. Schaeffer, S. J. Laulederkind, S.-J. Wang, J. Gobeill, P. Ruch, A. T. Luu, J. J. Kim, J.-H. Chiang, Y.-D. Chen, C.-J. Yang, H. Liu, D. Zhu, Y. Li, H. Yu, E. Emadzadeh, G. Gonzalez, J.-M. Chen, H.-J. Dai, Z. Lu (2014, Aug). Overview of the gene ontology task at BioCreative IV. Database (Oxford). (SCI).
D.C. Comeau, R.T. Batista-Navarro, H.-J. Dai, R.I. Dogan, A.J. Yepes, R. Khare, Z. Lu, H. Marques, C.-J. Mattingly, M. Neves, Y. Peng, R. Rak, F. Rinaldi, R.T.-H. Tsai, K. Verspoor, T.C. Wiegers, C. H. Wu, W.J. Wilbur (2014, Jun). BioC interoperability track overview. Database (Oxford). (SCI).
H.-J.Dai, R.T.-H. Tsai, W.-L. Hsu (2014, Mar). Joint Learning of Entity Linking Constraints Using a Markov-Logic Network. Computational Linguistics and Chinese Language Processing, 19(1), 11-32. MOST-102-2218-E-038-001.
<會議發表>
Chen-Kai Wang, Hong-Jie Dai, Bo-Hung Wang (2019, Aug). BIGODM System in the Social Media Mining for Health Applications Shared Task 2019. Social Media Mining for Health Applications Workshop & Shared Task 2019. MOST-106-2221-E-992-408-MY3.
You-Chen Zhang, Wei-Che Chung, Kuei-Han Li, Cheng-Chieh Huang, Hong-Jie Dai, Chi-Shin Wu, Chian-Jue Kuo, Chu-Hsien Su, Horng-Chang Yang, Chung-Hong Lee, Tyng-Yeu Liang (2019, Jul). Depressive Symptoms and Functional Impairment Extraction from Electronic Health Records. International Conference on Machine Learning and Cybernetics. MOST 106-2221-E-992-408-MY3.
Chen-Kai Wang, Hong-Jie Dai, Feng-Duo Wang, Emily Chia-Yu Su (2018, Nov). Adverse Drug Reaction Post Classfication with Imbalanced Classification Techniques. Proceedings of the 2018 Conference on Technologies and Applications of Artificial Intelligence (TAAI), Taichung, Taiwan. MOST 106-2221-E-143-007-MY3.
Neha Warikoo, Yung-Chun Chang, Hong-Jie Dai, Wen-Lian Hsu (2018, Nov). An Ensemble Neural Network Model for Benefiting Pregnancy Health Stats from Mining Social Media. Proceedings of the 14th Asia Information Retrieval Societies Conference, Taipei, Taiwan
Feng-Duo Wang, Chen-Kai Wang, Hong-Jie Dai (2018, Aug). Family History Information Extraction with Neural Sequence Labeling Model. Proceedings of BioCreative/OHNLP Challenge , Washington DC, USA. MOST 106-2221-E-143-007-MY3.
Chen-Kai Wang, Emily Chia-Yu Su, Hong-Jie Dai (2018, Jan). Identification of Adverse Drug Reactions and Medication Intakes on Twitter Using Various Combinations of Language Features. Proceedings of the Sixteenth Asia Pacific Bioinformatics Conference, Yokohama, Japan. MOST-106-2221-E-143-007-MY3
Chen-Kai Wang, Nai-Wun Chang, Emily Chia-Yu Su, Hong-Jie Dai (2017, Nov). NTTMU System in the 2nd Social Media Mining for Health Applications Shared Task. Proceedings of the 2nd Social Media Mining for Health Applications Shared Task at AMIA2017, Washington DC, USA. MOST 106-2221-E-143-007-MY3.
Chen-Kai Wang, Onkar Singh, Zhao-Li Tang, Hong-Jie Dai (2017, Nov). Using a Recurrent Neural Network Model for Classification of Tweets Conveyed Influenza-related Information. Proceedings of the International Workshop on Digital Disease Detection using Social Media 2017 (DDDSM-2, Taipei, Taiwan. MOST 106-2221-E-143-007-MY3.
Josan Wei-San Lin, Hong-Jie Dai, Joni Yu-Hsuan Shao (2017, Nov). Principle base Approach for Classifying Tweets with Flu-related Information in NTCIR-13 MedWeb Task. Proceedings of the 13th NTCIR Conference on Evaluation of Information Access Technologies, Tokyo Japan. MOST-106-2221-E-143-007-MY3.
Yi-Jie Huang, Chu Hsien Su, Yi-Chun Chang, Tseng-Hsin Ting, Tzu-Yuan Fu, Rou-Min Wang, Hong-Jie Dai, Yung-Chun Chang, Jitendra Jonnagaddala, Wen-Lian Hsu (2017, Nov). Pregnant Women Recognition from Social Media for Health-related Information Exploration. Proceedings of the International Workshop on Digital Disease Detection using Social Media 2017 (DDDSM), Taipei, Taiwan.
Nai-Wen Chang, Hong-Jie Dai, Yu-Lun Hsieh, Wen-Lian Hsu (2016, Dec). Statistical Principle-based Approach for Detecting miRNA-target Gene Interaction Articles. Proceedings of the IEEE 16th International Conference on BioInformatics and BioEngineering, Taichung, Taiwan.
Chen-Kai Wang, Hong-Jie Dai, Chih-Wei Chen, Jitendra Jonnagaddala, Nai-Wen Chang (2016, Jun). Combining Multiple Classifiers Using Global
Ranking for ReachOut.com Post Triage. Proceedings of the 3rd Workshop on Computational Linguistics and Clinical Psychology: From Linguistic Signal to Clinical Reality, San Diego, California. MOST 104-2221-E-143-005.
Chen-Kai Wang, Onkar Singh, Hong-Jie Dai, Jitendra Jonnagaddala, Toni Rose Jue, Usman Iqbal, Emily Chia-Yu Su. Shabbir Syed Abdul, Yu-Chuan (Jack) Li (2016, Jan). NTTMUNSW System for Adverse Drug Reactions Extraction in Twetter Data. Proceedings of the PSB 2016 Workshop on Social Media Mining Shared Task, The Big Island of Hawaii, USA. MOST 104-2221-E-143-005.
Jitendra Jonnagaddala, Toni Rose Jue, Hong-Jie Dai (2016, Jan). Binary Classification of Twitter Posts for Adverse Drug Reactions. Proceedings of the PSB 2016 Workshop on Social Media Mining Shared Task, The Big Island of Hawaii, USA.
Wei-San Lin, Hong-Jie Dai, Jitendra Jonnagaddala, Nai-Wun Chang, Toni Rose Jue, Usman Iqbal, Joni Yu-Hsuan Shao, I-Jen Chiang, Yu-Chuan (Jack) Li (2015, Nov). Utilizing Different Word Representation Methods for Twitter Data in Adverse Drug Reactions Extraction. Proceedings of the 2015 Conference on Technologies and Applications of Artificial Intelligence (TAAI) of Artificial Intelligence (TAAI 2015) , Tainan, Taiwan. MOST-104-2221-E-143-005.
Jitendra Jonnagaddala, Hong-Jie Dai, Pradeep Ray (2015, Jul). A preliminary study on automatic identification of patient smoking status in unstructured electronic health records. Proceedings of the 2015 Workshop on Biomedical Natural Language Processing (BioNLP 2015), Beijing, China.
Jitendra Jonnagaddala, Siaw-Teng Liaw, Pradeep Ray, Manish Kumar, Hong-Jie Dai (2015, Jun). TMUNSW: Identification of disorders and normalization to SNOMED-CT terminology in unstructured clinical notes. Proceedings of the 9th International Workshop on Semantic Evaluation (SemEval 2015), Denver, USA.
C.-W.Chen,N.-W.Chang,Y.-C.Chang,H.-J.Dai (2014, Nov). Section Heading Recognition in Electronic Health Records Using Conditional Random Fields. Proceedings of 2014 Workshop on Text Mining for Translational Informatics, Taipei, Taiwan. MOST 103-2221-E-038-019. (EI)
E. Rachmani, H.-J. Dai, C.-Y. Hsu (2014, Nov). Internet Use Behavior of Leprosy Control Program Staff At Indonesia's Public Health Center, How Are Their E-Health Literacy. Proceeding of the 8th conference of Asia Pacific association for medical informatics (APAMI 2014), New Delhi, India.
J.Jonnagaddala,S.-T.Liaw,P.Ray,M.Kumar,H.-J.Dai (2014, Nov). HTNSystem: Hypertension Information Extraction System for Unstructured Clinical Notes. Proceedings of 2014 Workshop on Text Mining for Translational Informatics, Taipei, Taiwan. MOST 103-2221-E-038-019. (EI).
J. Jonnagaddala, M. Kumar, H.-J. Dai, E. Rachmani, C.-Y. Hsu (2014, Aug). TMUNSW: Disorder Concept Recognition and Normalization in Clinical Notes for SemEval-2014 Task 7. Proceedings of the 8th International Workshop on Semantic Evaluation (SemEval 2014), Dublin, Ireland.
王振愷, 王鳳鐸,戴鴻傑,蘇家玉(2018 年 10 月)。應用資料不平衡處理方法於藥物不良藥物反應之推文分類。台灣國際醫學資訊聯合研討會2018 論文集,花蓮, 臺灣。科技部:106-2221-E-143-007-MY3。
唐肇澧,王振愷,張乃文,賴柏廷,戴鴻傑,邵于宣(2017 年 05 月)。以 WEKA 為基礎之健康論壇網站文件分類器。2017 資訊管理暨電子商務經營管理研討會,Taitung, Taiwan。科技部:105-2221-E-143-003。
<專書、技術報告及其他論文等>
1. Onkar Singh, Nai-Wen Chang, Hong-Jie Dai, Jitendra Jonnagaddala. Encyclopedia of Bioinformatics and Computational Biology: Translational Bioinformatics Databases (1) (ISBN: 9780128114148). USA: Elsevier. Aug, 2018.
2. Hong-Jie Dai . Collective Entity Identification in Biomedical Literature (1) (ISBN: 3639829271). Germany: Golden Light Academic Publishing. Dec, 2016.
3. Jitendra Jonnagaddala, Hong-Jie Dai, Pradeep Ray, Siaw-Teng Liaw. Improving Health Management through Clinical Decision Support Systems
<專利>