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Feifan Liu PhD

TitleAssistant Professor
InstitutionUMass Chan Medical School
DepartmentPopulation and Quantitative Health Sciences
AddressUMass Chan Medical School
368 Plantation Street AS9-1075
Worcester MA 01605
Phone774-455-4586
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    Other Positions
    InstitutionT.H. Chan School of Medicine
    DepartmentPopulation and Quantitative Health Sciences

    InstitutionT.H. Chan School of Medicine
    DepartmentRadiology

    InstitutionMorningside Graduate School of Biomedical Sciences
    DepartmentClinical Population Health Research

    InstitutionMorningside Graduate School of Biomedical Sciences
    DepartmentMasters in Clinical Investigation


    Collapse Biography 
    Collapse education and training
    Shandong University, Jinan, , ChinaBSElectrical Engineering
    Shandong University, Jinan, , ChinaMSScience
    Chinese Academy of Sciences, Beijing, , ChinaPHDComputer Science
    University of Texas at Dallas, Dallas, USAPostdoc Fellow08/2009Machine Learning in Language Understanding

    Collapse Overview 
    Collapse overview

    Dr. Liu completed doctoral training in pattern recognition and artificial intelligence, with strong expertise on natural language processing, machine learning (deep learning), and biomedical informatics. His research focuses on exploiting advanced computational models to analyze heterogeneous and complex healthcare data for knowledge extraction, predictive modeling and preventative data analytics, in the areas of suicide prevention, HIV prevention, cancer informatics and stroke management.   

    Over more than 10 years in this field, Dr. Liu has published more than 60 peer reviewed manuscripts (29 first-author) on premium journals and top computer science conferences. He have served co-investigator (lead data scientist) on 5 NIH-funded R01 projects, and participated NSF study sections in the area of machine learning and natural language processing. Through developing advanced machine learning methods, Dr. Liu has won the first place in two international challenge tasks: Medical Visual Question Answering (2018) and Gene Mutation/Disease Relation Extraction (2019).



    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Dabbagh Z, McKee MD, Pirraglia PA, Clements KM, Liu F, Amante DJ, Shukla P, Gerber BS. The Expanding Use of Continuous Glucose Monitoring in Type 2 Diabetes. Diabetes Technol Ther. 2022 07; 24(7):510-515. PMID: 35231190.
      Citations:    Fields:    Translation:Humans
    2. Nagawa CS, Ito Fukunaga M, Faro JM, Liu F, Anderson E, Kamberi A, Orvek EA, Davis M, Pbert L, Cutrona SL, Houston TK, Sadasivam RS. Characterizing pandemic-related changes in smoking over time in a cohort of current and former smokers. Nicotine Tob Res. 2022 Feb 05. PMID: 35137213.
      Citations:    Fields:    
    3. Deer RR, Rock MA, Vasilevsky N, Carmody L, Rando H, Anzalone AJ, Basson MD, Bennett TD, Bergquist T, Boudreau EA, Bramante CT, Byrd JB, Callahan TJ, Chan LE, Chu H, Chute CG, Coleman BD, Davis HE, Gagnier J, Greene CS, Hillegass WB, Kavuluru R, Kimble WD, Koraishy FM, Köhler S, Liang C, Liu F, Liu H, Madhira V, Madlock-Brown CR, Matentzoglu N, Mazzotti DR, McMurry JA, McNair DS, Moffitt RA, Monteith TS, Parker AM, Perry MA, Pfaff E, Reese JT, Saltz J, Schuff RA, Solomonides AE, Solway J, Spratt H, Stein GS, Sule AA, Topaloglu U, Vavougios GD, Wang L, Haendel MA, Robinson PN. Characterizing Long COVID: Deep Phenotype of a Complex Condition. EBioMedicine. 2021 Dec; 74:103722. PMID: 34839263.
      Citations: 22     Fields:    Translation:HumansCells
    4. Sharafeldin N, Bates B, Song Q, Madhira V, Shao YR, Liu F, Bergquist T, Su J, Topaloglu U. Reply to K. Takada et al. J Clin Oncol. 2021 12 10; 39(35):3997-3998. PMID: 34623872.
      Citations:    Fields:    
    5. Liu F, Zhou P, Baccei SJ, Masciocchi MJ, Amornsiripanitch N, Kiefe CI, Rosen MP. Qualifying Certainty in Radiology Reports through Deep Learning-Based Natural Language Processing. AJNR Am J Neuroradiol. 2021 10; 42(10):1755-1761. PMID: 34413062.
      Citations:    Fields:    Translation:Humans
    6. Boudreaux ED, Rundensteiner E, Liu F, Wang B, Larkin C, Agu E, Ghosh S, Semeter J, Simon G, Davis-Martin RE. Applying Machine Learning Approaches to Suicide Prediction Using Healthcare Data: Overview and Future Directions. Front Psychiatry. 2021; 12:707916. PMID: 34413800.
      Citations:    
    7. Sharafeldin N, Bates B, Song Q, Madhira V, Yan Y, Dong S, Lee E, Kuhrt N, Shao YR, Liu F, Bergquist T, Guinney J, Su J, Topaloglu U. Outcomes of COVID-19 in Patients With Cancer: Report From the National COVID Cohort Collaborative (N3C). J Clin Oncol. 2021 07 10; 39(20):2232-2246. PMID: 34085538.
      Citations: 24     Fields:    Translation:Humans
    8. Wang B, Liu F, Deveaux L, Ash A, Gosh S, Li X, Rundensteiner E, Cottrell L, Adderley R, Stanton B. Adolescent HIV-related behavioural prediction using machine learning: a foundation for precision HIV prevention. AIDS. 2021 05 01; 35(Suppl 1):S75-S84. PMID: 33867490.
      Citations:    Fields:    Translation:Humans
    9. Rando HM, Bennett TD, Byrd JB, Bramante C, Callahan TJ, Chute CG, Davis HE, Deer R, Gagnier J, Koraishy FM, Liu F, McMurry JA, Moffitt RA, Pfaff ER, Reese JT, Relevo R, Robinson PN, Saltz JH, Solomonides A, Sule A, Topaloglu U, Haendel MA. Challenges in defining Long COVID: Striking differences across literature, Electronic Health Records, and patient-reported information. medRxiv. 2021 Mar 26. PMID: 33791733.
      Citations:    
    10. Liu F, Zheng X, Yu H, Tjia J. Neural Multi-Task Learning for Adverse Drug Reaction Extraction. AMIA Annu Symp Proc. 2020; 2020:756-762. PMID: 33936450.
      Citations:    Fields:    Translation:Humans
    11. Rawat BPS, Jagannatha A, Liu F, Yu H. Inferring ADR causality by predicting the Naranjo Score from Clinical Notes. AMIA Annu Symp Proc. 2020; 2020:1041-1049. PMID: 33936480.
      Citations: 1     Fields:    Translation:Humans
    12. Liu F, Wang B, Larkin C, Kiefe C, Boudreaux E. Identify suicidal encounters in emergency department (ED) setting using machine learning and natural language processing. APHA Annual Meeting and Expo. 2020.
    13. Peng C, He M, Cutrona SL, Kiefe CI, Liu F, Wang Z. Theme Trends and Knowledge Structure on Mobile Health Apps: Bibliometric Analysis. JMIR Mhealth Uhealth. 2020 07 27; 8(7):e18212. PMID: 32716312.
      Citations: 12     Fields:    Translation:Humans
    14. Liu F., Zheng X., Wang B., Kiefe C. DeepGeneMD: A Joint Deep Learning Model for Extracting Gene Mutation-Disease Knowledge from PubMed Literature. BioNLP-OST at Empirical Methods in Natural Language Processing (EMNLP). 2019.
    15. Liu F, Pradhan R, Druhl E, Freund E, Liu W, Sauer BC, Cunningham F, Gordon AJ, Peters CB, Yu H. Learning to detect and understand drug discontinuation events from clinical narratives. J Am Med Inform Assoc. 2019 10 01; 26(10):943-951. PMID: 31034028.
      Citations: 4     Fields:    Translation:Humans
    16. Liu F., Peng Y., Rosen M.P. An Effective Deep Transfer Learning and Information Fusion Framework for Medical Visual Question Answering. Experimental IR Meets Multilinguality, Multimodality, and Interaction. 2019; 11696.
    17. Li R, Hu B, Liu F, Liu W, Cunningham F, McManus DD, Yu H. Detection of Bleeding Events in Electronic Health Record Notes Using Convolutional Neural Network Models Enhanced With Recurrent Neural Network Autoencoders: Deep Learning Approach. JMIR Med Inform. 2019 Feb 08; 7(1):e10788. PMID: 30735140.
      Citations:    
    18. Jagannatha A, Liu F, Liu W, Yu H. Overview of the First Natural Language Processing Challenge for Extracting Medication, Indication, and Adverse Drug Events from Electronic Health Record Notes (MADE 1.0). Drug Saf. 2019 01; 42(1):99-111. PMID: 30649735.
      Citations: 28     Fields:    Translation:Humans
    19. Liu F, Jagannatha A, Yu H. Towards Drug Safety Surveillance and Pharmacovigilance: Current Progress in Detecting Medication and Adverse Drug Events from Electronic Health Records. Drug Saf. 2019 01; 42(1):95-97. PMID: 30649734.
      Citations: 14     Fields:    Translation:Humans
    20. Munkhdalai T, Liu F, Yu H. Clinical Relation Extraction Toward Drug Safety Surveillance Using Electronic Health Record Narratives: Classical Learning Versus Deep Learning. JMIR Public Health Surveill. 2018 Apr 25; 4(2):e29. PMID: 29695376.
      Citations:    
    21. Liu F, Chen J, Jagannatha A, Yu H. Learning for Biomedical Information Extraction: Methodological Review of Recent Advances. arXiv:1606.07993. 2016. View Publication.
    22. Liu F, Yu H. Learning to rank figures within a biomedical article. PLoS One. 2014; 9(3):e61567. PMID: 24625719.
      Citations: 2     Fields:    Translation:Humans
    23. Liu F, Moosavinasab S, Agarwal S, Bennett A, Yu H. Automatically Identifying Health- and Clinical-Related Content in Wikipedia. Proceedings of the 14th World Conference on Medical and Health Informatics (MEDINFO). 2013. View Publication.
    24. Liu F, Moosavinasab S, Houston TK, Yu H. MedTxting: learning based and knowledge rich SMS-style medical text contraction. AMIA Annu Symp Proc. 2012; 2012:558-67. PMID: 23304328.
      Citations:    Fields:    Translation:Humans
    25. Agarwal S, Liu F, Yu H. Simple and efficient machine learning frameworks for identifying protein-protein interaction relevant articles and experimental methods used to study the interactions. BMC Bioinformatics. 2011 Oct 03; 12 Suppl 8:S10. PMID: 22151701.
      Citations: 4     Fields:    Translation:Humans
    26. Liu F, Antieau LD, Yu H. Toward automated consumer question answering: automatically separating consumer questions from professional questions in the healthcare domain. J Biomed Inform. 2011 Dec; 44(6):1032-8. PMID: 21856442.
      Citations: 10     Fields:    Translation:Humans
    27. Liu F, Tur G, Hakkani-Tür D, Yu H. Towards spoken clinical-question answering: evaluating and adapting automatic speech-recognition systems for spoken clinical questions. J Am Med Inform Assoc. 2011 Sep-Oct; 18(5):625-30. PMID: 21705457.
      Citations: 6     Fields:    Translation:Humans
    28. Liu F, Liu F, Liu Y. A Supervised Framework for Keyword Extraction from Meeting Transcripts. IEEE Transactions on Audio, Speech and Language Processing. 2011; 19(3):538-548. View Publication.
    29. Cao Y, Liu F, Simpson P, Antieau L, Bennett A, Cimino JJ, Ely J, Yu H. AskHERMES: An online question answering system for complex clinical questions. J Biomed Inform. 2011 Apr; 44(2):277-88. PMID: 21256977.
      Citations: 42     Fields:    
    30. Liu F, Liu F, Liu Y. Learning from Chinese-English Parallel Data for Chinese Tense Prediction. Proceedings of International Joint Conference on Natural Language Processing (IJCNLP 2011). 2011. View Publication.
    31. Yu H, Liu F, Ramesh BP. Automatic figure ranking and user interfacing for intelligent figure search. PLoS One. 2010 Oct 07; 5(10):e12983. PMID: 20949102.
      Citations: 9     Fields:    
    32. Li Z, Liu F, Antieau L, Cao Y, Yu H. Lancet: a high precision medication event extraction system for clinical text. J Am Med Inform Assoc. 2010 Sep-Oct; 17(5):563-7. PMID: 20819865.
      Citations: 21     Fields:    Translation:Humans
    33. Cao Y, Li Z, Liu F, Agarwal S, Zhang Q, Yu H. An IR-aided machine learning framework for the BioCreative II.5 Challenge. IEEE/ACM Trans Comput Biol Bioinform. 2010 Jul-Sep; 7(3):454-61. PMID: 20671317.
      Citations: 3     Fields:    
    34. Liu F, Liu Y. Identification of Soundbite and Its Speaker Name Using Transcripts of Broadcast News Speech. ACM Transactions on Asian Language Information Processing. 2010; 9(1). View Publication.
    35. Liu F, Liu Y. Exploring Correlation between ROUGE and Human Evaluation on Meeting Summaries. IEEE Transactions on Audio, Speech and Language Processing. 2010; 18(1):187-196. View Publication.
    36. Liu F, Wang D, Li B, Liu Y. . Improving Blog Polarity Classification via Topic Analysis and Adaptive Methods. Proceedings of NAACL-HLT. 2010. View Publication.
    37. Liu F, Pennell D, Liu F, Liu Y. . Unsupervised Approaches to Automatic Keyword Extraction Using Meeting Transcripts. Proceedings of NAACL-HLT. 2009. View Publication.
    38. Liu F, Liu Y. . Correlation between ROUGE and Human Evaluation of Extractive Meeting Summaries. Proceedings of ACL. 2008. View Publication.
    39. Liu F, Liu Y. . Look Who is Talking: Soundbite Speaker Name Recognition in Broadcast News Speech. Proceedings of NAACL/HLT. 2007. View Publication.
    40. Liu F, Liu Y. Unsupervised Language Model Adaptation Incorporating Name Entity Information. Proceedings of ACL. 2007. View Publication.
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