Liu, Hongfang

Clinical information extraction applications: A literature review

Wang, Y., Wang, L., Rastegar-Mojarad, M., Moon, S., Shen, F., Afzal, N., Liu, S., Zeng, Y., Mehrabi, S., Sohn, S., et al. (2018) · Journal of Biomedical Informatics

Biomedical Text Mining and OntologiesMachine Learning in Healthcare

Cited by 910

CellMiner: A Web-Based Suite of Genomic and Pharmacologic Tools to Explore Transcript and Drug Patterns in the NCI-60 Cell Line Set

Reinhold, W. C., Sunshine, M., Liu, H., Varma, S., Kohn, K. W., Morris, J., Doroshow, J., & Pommier, Y. (2012) · Cancer Research

Gene expression and cancer classificationComputational Drug Discovery Methods

Cited by 887

A comparison of word embeddings for the biomedical natural language processing

Wang, Y., Liu, S., Afzal, N., Rastegar-Mojarad, M., Wang, L., Shen, F., Kingsbury, P., & Liu, H. (2018) · Journal of Biomedical Informatics

Biomedical Text Mining and OntologiesTopic Modeling

Cited by 370

A generalist vision-language foundation model for diverse biomedical tasks

Zhang, K., Zhou, R., Adhikarla, E., Yan, Z., Liu, Y., Yu, J., Liu, Z., Chen, X., Davison, B. D., Ren, H., et al. (2024) · Nature Medicine

Multimodal Machine Learning ApplicationsArtificial Intelligence in Healthcare and Education

Cited by 333

Characterizing long COVID: deep phenotype of a complex condition

Deer, R. R., Rock, M. A., Vasilevsky, N., Carmody, L., Rando, H., Anzalone, A. J., Basson, M. D., Bennett, T. D., Bergquist, T., Boudreau, E. A., et al. (2021) · EBioMedicine

Long-Term Effects of COVID-19Biomedical Text Mining and Ontologies

Cited by 200

Desiderata for delivering NLP to accelerate healthcare AI advancement and a Mayo Clinic NLP-as-a-service implementation

Wen, A., Fu, S., Moon, S., El Wazir, M., Rosenbaum, A., Kaggal, V. C., Liu, S., Sohn, S., Liu, H., & Fan, J. (2019) · npj Digital Medicine

Biomedical Text Mining and OntologiesArtificial Intelligence in Healthcare and Education

Cited by 142

MedSTS: a resource for clinical semantic textual similarity

Wang, Y., Afzal, N., Fu, S., Wang, L., Shen, F., Rastegar-Mojarad, M., & Liu, H. (2020) · Language Resources and Evaluation

Topic ModelingBiomedical Text Mining and Ontologies

Cited by 124

CancerBERT: A cancer domain-specific language model for extracting breast cancer phenotypes from electronic health records

Zhou, S., Wang, N., Wang, L., Liu, H., & Zhang, R. (2022) · Journal of the American Medical Informatics Association

Machine Learning in HealthcareBiomedical Text Mining and Ontologies

Cited by 119

Mining peripheral arterial disease cases from narrative clinical notes using natural language processing

Afzal, N., Sohn, S., Abram, S., Scott, C. G., Chaudhry, R., Liu, H., Kullo, I. J., & Arruda-Olson, A. M. (2017) · Journal of Vascular Surgery

Peripheral Artery Disease ManagementBiomedical Text Mining and Ontologies

Cited by 103

Artificial intelligence-assisted clinical decision support for childhood asthma management: A randomized clinical trial

Seol, H. Y., Shrestha, P., Muth, J. F., Wi, C.-I., Sohn, S., Ryu, E., Park, M., Ihrke, K., Moon, S., King, K., et al. (2021) · PLOS ONE

Asthma and respiratory diseasesElectronic Health Records Systems

Cited by 82

Correlations Between COVID-19 Cases and Google Trends Data in the United States: A State-by-State Analysis

Kurian, S. J., Bhatti, A. U. R., Alvi, M. A., Ting, H. H., Storlie, C., Wilson, P. M., Shah, N. D., Liu, H., & Bydon, M. (2020) · Mayo Clinic Proceedings

Data-Driven Disease SurveillanceCOVID-19 epidemiological studies

Cited by 69

Natural language processing for asthma ascertainment in different practice settings

Wi, C.-I., Sohn, S., Ali, M., Krusemark, E., Ryu, E., Liu, H., & Juhn, Y. J. (2018) · The Journal of Allergy and Clinical Immunology In Practice

Asthma and respiratory diseasesMedical Coding and Health Information

Cited by 62

Comprehensive temporal information detection from clinical text: medical events, time, and TLINK identification

Sohn, S., Wagholikar, K. B., Li, D., Jonnalagadda, S. R., Tao, C., Komandur Elayavilli, R., & Liu, H. (2013) · Journal of the American Medical Informatics Association

Biomedical Text Mining and OntologiesMachine Learning in Healthcare

Cited by 62

Are synthetic clinical notes useful for real natural language processing tasks: A case study on clinical entity recognition

Li, J., Zhou, Y., Jiang, X., Natarajan, K., Pakhomov, S. V., Liu, H., & Xu, H. (2021) · Journal of the American Medical Informatics Association

Biomedical Text Mining and OntologiesTopic Modeling

Cited by 53

Modeling asynchronous event sequences with RNNs

Wu, S., Liu, S., Sohn, S., Moon, S., Wi, C.-I., Juhn, Y., & Liu, H. (2018) · Journal of Biomedical Informatics

Machine Learning in HealthcareTime Series Analysis and Forecasting

Cited by 45

Social determinants of health extraction from clinical notes across institutions using large language models

Keloth, V. K., Selek, S., Chen, Q., Gilman, C., Fu, S., Dang, Y., Chen, X., Hu, X., Zhou, Y., He, H., et al. (2025) · npj Digital Medicine

Machine Learning in HealthcareBiomedical Text Mining and Ontologies

Cited by 24

Family History Extraction From Synthetic Clinical Narratives Using Natural Language Processing: Overview and Evaluation of a Challenge Data Set and Solutions for the 2019 National NLP Clinical Challenges (n2c2)/Open Health Natural Language Processing (OHNLP) Competition

Shen, F., Liu, S., Fu, S., Wang, Y., Henry, S., Uzuner, O., & Liu, H. (2021) · JMIR Medical Informatics

Biomedical Text Mining and OntologiesMachine Learning in Healthcare

Cited by 21

FedFSA: Hybrid and federated framework for functional status ascertainment across institutions

Fu, S., Jia, H., Vassilaki, M., Keloth, V. K., Dang, Y., Zhou, Y., Garg, M., Petersen, R. C., St Sauver, J., Moon, S., et al. (2024) · Journal of Biomedical Informatics

Machine Learning in HealthcareBiomedical Text Mining and Ontologies

Cited by 17

Representing and utilizing clinical textual data for real world studies: An OHDSI approach

Keloth, V. K., Banda, J. M., Gurley, M., Heider, P. M., Kennedy, G., Liu, H., Liu, F., Miller, T., Natarajan, K., V Patterson, O., et al. (2023) · Journal of Biomedical Informatics

Biomedical Text Mining and OntologiesMachine Learning in Healthcare

Cited by 16

Assessment of Data Quality Variability across Two EHR Systems through a Case Study of Post-Surgical Complications

Fu, S., Wen, A., Schaeferle, G. M., Wilson, P., Demuth, G. O., Ruan, X., Liu, S., Storlie, C. B., & Liu, H. (2022) · Unpublished

Electronic Health Records SystemsMachine Learning in Healthcare

Cited by 16

Quality assessment of functional status documentation in EHRs across different healthcare institutions

Fu, S., Vassilaki, M., Ibrahim, O. A., Petersen, R. C., Pagali, S., St Sauver, J., Moon, S., Wang, L., Fan, J. W., Liu, H., et al. (2022) · Frontiers in Digital Health

Electronic Health Records SystemsNursing Diagnosis and Documentation

Cited by 15

Characterizing Chronic Pain Episodes in Clinical Text at Two Health Care Systems: Comprehensive Annotation and Corpus Analysis

Carlson, L. A., Jeffery, M. M., Fu, S., He, H., McCoy, R. G., Wang, Y., Hooten, W. M., St Sauver, J., Liu, H., & Fan, J. (2020) · JMIR Medical Informatics

Biomedical Text Mining and OntologiesMedical Coding and Health Information

Cited by 11

Selected articles from the BioCreative/OHNLP challenge 2018

Liu, S., Wang, Y., & Liu, H. (2019) · BMC Medical Informatics and Decision Making

Biomedical Text Mining and OntologiesMachine Learning in Healthcare

Cited by 10

Impact of Diverse Data Sources on Computational Phenotyping

Wang, L., Olson, J. E., Bielinski, S. J., St. Sauver, J. L., Fu, S., He, H., Cicek, M. S., Hathcock, M. A., Cerhan, J. R., & Liu, H. (2020) · Frontiers in Genetics

Machine Learning in HealthcareMedical Coding and Health Information

Cited by 10