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2020 – today
- 2025
[j39]Xubing Hao, Xiaojin Li, Yan Huang, Jay Shi, Rashmie Abeysinghe, Cui Tao, Kirk Roberts, Guo-Qiang Zhang, Licong Cui
:
Quantitatively assessing the impact of the quality of SNOMED CT subtype hierarchy on cohort queries. J. Am. Medical Informatics Assoc. 32(1): 89-96 (2025)- 2024
- [j38]Rashmie Abeysinghe, Fengbo Zheng, Jay Shi, Samden D. Lhatoo, Licong Cui:
Leveraging logical definitions and lexical features to detect missing IS-A relations in biomedical terminologies. J. Biomed. Semant. 15(1): 6 (2024) - [j37]Xubing Hao, Rashmie Abeysinghe, Fengbo Zheng, Paul E. Schulz, Licong Cui:
Mapping of Alzheimer's disease related data elements and the NIH Common Data Elements. BMC Medical Informatics Decis. Mak. 24(3): 103 (2024) - [c48]Xubing Hao, Rashmie Abeysinghe, Jay Shi, Licong Cui:
Exploring Pre-trained Language Models for Vocabulary Alignment in the UMLS. AIME (1) 2024: 273-278 - [c47]Xubing Hao, Licong Cui, Cui Tao, Kirk Roberts, Muhammad Amith:
Analyzing Llama 3-based Approach for Axiom Translation from Ontologies. KBC-LM/LM-KBC@ISWC 2024 - [i4]Yiming Li, Fang Li, Kirk Roberts, Licong Cui, Cui Tao, Hua Xu:
A Comparative Study of Recent Large Language Models on Generating Hospital Discharge Summaries for Lung Cancer Patients. CoRR abs/2411.03805 (2024) - [i3]Yan Wang, Jimin Huang, Huan He, Vincent J. Zhang, Yujia Zhou, Xubing Hao, Pritham Ram, Lingfei Qian, Qianqian Xie, Ruey-Ling Weng, Fongci Lin, Yan Hu, Licong Cui, Xiaoqian Jiang, Hua Xu, Na Hong:
CDEMapper: Enhancing NIH Common Data Element Normalization using Large Language Models. CoRR abs/2412.00491 (2024) - 2023
- [j36]Rashmie Abeysinghe, Fengbo Zheng, Elmer V. Bernstam, Jay Shi, Olivier Bodenreider, Licong Cui:
A deep learning approach to identify missing is-a relations in SNOMED CT. J. Am. Medical Informatics Assoc. 30(3): 475-484 (2023) - [j35]Xubing Hao, Rashmie Abeysinghe, Kirk Roberts, Licong Cui:
Logical definition-based identification of potential missing concepts in SNOMED CT. BMC Medical Informatics Decis. Mak. 23(1): 87 (2023) - [j34]Xubing Hao, Xiaojin Li, Guo-Qiang Zhang, Cui Tao, Paul E. Schulz, Licong Cui:
An ontology-based approach for harmonization and cross-cohort query of Alzheimer's disease data resources. BMC Medical Informatics Decis. Mak. 23(1): 151 (2023) - [j33]Licong Cui, Ankur Agrawal:
Special supplement issue on quality assurance and enrichment of biological and biomedical ontologies and terminologies. BMC Medical Informatics Decis. Mak. 23-S(1): 302 (2023) - [c46]Muhammad Amith, Licong Cui, Kirk Roberts, Cui Tao:
Application of an ontology for model cards to generate computable artifacts for linking machine learning information from biomedical research. WWW (Companion Volume) 2023: 820-825 - [i2]Muhammad Amith, Licong Cui, Kirk Roberts, Cui Tao:
Application of an ontology for model cards to generate computable artifacts for linking machine learning information from biomedical research. CoRR abs/2303.11991 (2023) - 2022
- [j32]Rashmie Abeysinghe, Yuntao Yang, Mason Bartels, W. Jim Zheng, Licong Cui:
An evidence-based lexical pattern approach for quality assurance of Gene Ontology relations. Briefings Bioinform. 23(3) (2022) - [j31]Warren Manuel, Rashmie Abeysinghe, Yongqun He, Cui Tao, Licong Cui:
Identification of missing hierarchical relations in the vaccine ontology using acquired term pairs. J. Biomed. Semant. 13(1): 22 (2022) - [j30]Muhammad Tuan Amith, Licong Cui, Degui Zhi, Kirk Roberts, Xiaoqian Jiang, Fang Li, Evan Yu, Cui Tao:
Toward a standard formal semantic representation of the model card report. BMC Bioinform. 23(1): 281 (2022) - [j29]Xiaojin Li, Shiqiang Tao, Samden D. Lhatoo, Licong Cui, Yan Huang, Johnson P. Hampson, Guo-Qiang Zhang:
A multimodal clinical data resource for personalized risk assessment of sudden unexpected death in epilepsy. Frontiers Big Data 5 (2022) - [j28]Xiaojin Li, Yan Huang, Samden D. Lhatoo, Shiqiang Tao, Laura Vilella Bertran, Guo-Qiang Zhang, Licong Cui:
A hybrid unsupervised and supervised learning approach for postictal generalized EEG suppression detection. Frontiers Neuroinformatics 16 (2022) - [j27]Rashmie Abeysinghe, Adam Black, Denys Kaduk, Yupeng Li, Christian Reich, Alexander Davydov, Lixia Yao, Licong Cui:
Towards quality improvement of vaccine concept mappings in the OMOP vocabulary with a semi-automated method. J. Biomed. Informatics 134: 104162 (2022) - [c45]Guo-Qiang Zhang, Xiaojin Li, Yan Huang, Licong Cui:
Temporal Cohort Logic. AMIA 2022 - [c44]Maryamsadat Mohtashamian, Ran Hu, Rashmie Abeysinghe, Xubing Hao, Hua Xu, Licong Cui:
Automated Identification of Missing IS-A Relations in the Human Phenotype Ontology. AMIA 2022 - [c43]Xubing Hao, Rashmie Abeysinghe, Jay Shi, Licong Cui:
A substring replacement approach for identifying missing IS-A relations in SNOMED CT. BIBM 2022: 2611-2618 - [c42]Maryamsadat Mohtashamian, Rashmie Abeysinghe, Xubing Hao, Licong Cui:
Identifying Missing IS-A Relations in Orphanet Rare Disease Ontology. BIBM 2022: 3274-3279 - 2021
- [j26]Fengbo Zheng, Rashmie Abeysinghe, Licong Cui:
Identification of missing concepts in biomedical terminologies using sequence-based formal concept analysis. BMC Medical Informatics Decis. Mak. 21-S(7): 234 (2021) - [c41]Rashmie Abeysinghe, Fengbo Zheng, Licong Cui:
A Comparison of Exhaustive and Non-lattice-based Methods for Auditing Hierarchical Relations in Gene Ontology. AMIA 2021 - [c40]Xiaojin Li, Licong Cui, Fei Wang, Paul E. Schulz, Guo-Qiang Zhang:
Identifying Sleep-Related Factors Associated with Cognitive Function in a Hispanics/Latinos Cohort: A Dual Random Forest Approach. AMIA 2021 - [c39]Xubing Hao, Rashmie Abeysinghe, Fengbo Zheng, Licong Cui:
Leveraging non-lattice subgraphs for suggestion of new concepts for SNOMED CT. BIBM 2021: 1805-1812 - 2020
- [j25]Rashmie Abeysinghe, Eugene W. Hinderer, Hunter N. B. Moseley, Licong Cui:
SSIF: Subsumption-based Sub-term Inference Framework to audit Gene Ontology. Bioinform. 36(10): 3207-3214 (2020) - [j24]Fengbo Zheng, Jay Shi, Yuntao Yang, W. Jim Zheng, Licong Cui:
A transformation-based method for auditing the IS-A hierarchy of biomedical terminologies in the Unified Medical Language System. J. Am. Medical Informatics Assoc. 27(10): 1568-1575 (2020) - [j23]Muhammad Amith, Rebecca Lin, Licong Cui, Dennis Wang, Anna Zhu, Grace Xiong, Hua Xu, Kirk Roberts, Cui Tao:
Conversational ontology operator: patient-centric vaccine dialogue management engine for spoken conversational agents. BMC Medical Informatics Decis. Mak. 20-S(4): 259 (2020) - [j22]Shiqiang Tao, Ningzhou Zeng, Isaac Hands, Joseph Hurt-Mueller, Eric B. Durbin, Licong Cui, Guo-Qiang Zhang:
Web-based interactive mapping from data dictionaries to ontologies, with an application to cancer registry. BMC Medical Informatics Decis. Mak. 20-S(10): 271 (2020) - [j21]Fengbo Zheng, Rashmie Abeysinghe, Nicholas Sioutos, Lori Whiteman, Lyubov Remennik, Licong Cui:
Detecting missing IS-A relations in the NCI Thesaurus using an enhanced hybrid approach. BMC Medical Informatics Decis. Mak. 20-S(10): 273 (2020) - [j20]Ankur Agrawal, Licong Cui:
Quality assurance and enrichment of biological and biomedical ontologies and terminologies. BMC Medical Informatics Decis. Mak. 20-S(10): 301 (2020) - [j19]Yejin Kim, Xiaoqian Jiang, Samden D. Lhatoo, Guoqiang Zhang, Shiqiang Tao, Licong Cui, Xiaojin Li, Robert D. Jolly, Luyao Chen, Michael Phan, Cung Ha, Marijane Detranaltes, Jiajie Zhang:
A community effort for automatic detection of postictal generalized EEG suppression in epilepsy. BMC Medical Informatics Decis. Mak. 20-S(12): 328 (2020) - [j18]Carroll Vance, Yejin Kim, Guo-Qiang Zhang, Samden D. Lhatoo, Shiqiang Tao, Licong Cui, Xiaojin Li, Xiaoqian Jiang:
Learning to detect the onset of slow activity after a generalized tonic-clonic seizure. BMC Medical Informatics Decis. Mak. 20-S(12): 330 (2020) - [j17]Guoqiang Zhang, Shiqiang Tao, Ningzhou Zeng, Licong Cui:
Ontologies as nested facet systems for human-data interaction. Semantic Web 11(1): 79-86 (2020) - [c38]Fengbo Zheng, Jay Shi, Licong Cui:
A lexical-based approach for exhaustive detection of missing hierarchical IS-A relations in SNOMED CT. AMIA 2020 - [c37]Fengbo Zheng, Licong Cui:
A Lexical-based Formal Concept Analysis Method to Identify Missing Concepts in the NCI Thesaurus. BIBM 2020: 1757-1760 - [c36]Xufeng Qu, Yuanyuan Wu, Jinze Liu, Licong Cui:
HRV-Spark: Computing Heart Rate Variability Measures Using Apache Spark. BIBM 2020: 2235-2241
2010 – 2019
- 2019
- [c35]Rashmie Abeysinghe, Michael A. Brooks, Licong Cui:
Leveraging Non-lattice Subgraphs to Audit Hierarchical Relations in NCI Thesaurus. AMIA 2019 - [c34]Yejin Kim, Xiaoqian Jiang, Luyao Chen, Xiaojin Li, Licong Cui:
Discriminative Sleep Patterns of Alzheimer's Disease via Tensor Factorization. AMIA 2019 - [c33]Xiaojin Li, Yan Huang, Shiqiang Tao, Licong Cui, Samden D. Lhatoo, Guo-Qiang Zhang:
SeizureBank: A Repository of Analysis-ready Seizure Signal Data. AMIA 2019 - [c32]Muhammad Amith, Licong Cui, Kirk Roberts, Hua Xu, Cui Tao:
Ontology of Consumer Health Vocabulary: providing a formal and interoperable semantic resource for linking lay language and medical terminology. BIBM 2019: 1177-1178 - [c31]Fengbo Zheng, Rashmie Abeysinghe, Licong Cui:
A Hybrid Method to Detect Missing Hierarchical Relations in NCI Thesaurus. BIBM 2019: 1948-1953 - [c30]Yuanyuan Wu, Xiaojin Li, Jinze Liu, Licong Cui:
Hadoop-EDF: Large-scale Distributed Processing of Electrophysiological Signal Data in Hadoop MapReduce. BIBM 2019: 2265-2271 - [c29]Jing Liu, Rashmie Abeysinghe, Fengbo Zheng, Licong Cui:
Pattern-based Extraction of Disease Drug Combination Knowledge from Biomedical Literature. ICHI 2019: 1-7 - [c28]Qi Sun, Guo-Qiang Zhang, Wei Zhu, Licong Cui:
Validating Auto-Suggested Changes for SNOMED CT in Non-Lattice Subgraphs Using Relational Machine Learning. MedInfo 2019: 378-382 - [c27]Muhammad Amith, Rebecca Lin, Licong Cui, Dennis Wang, Anna Zhu, Grace Xiong, Hua Xu, Kirk Roberts, Cui Tao:
An Ontology-Powered Dialogue Engine For Patient Communication of Vaccines. SEPDA@ISWC 2019: 24-30 - [i1]Yejin Kim, Xiaoqian Jiang, Luyao Chen, Xiaojin Li, Licong Cui:
Discriminative Sleep Patterns of Alzheimer's Disease via Tensor Factorization. CoRR abs/1905.05827 (2019) - 2018
- [j16]Guo-Qiang Zhang, Licong Cui, Remo Mueller, Shiqiang Tao, Matthew Kim, Michael Rueschman, Sara Mariani, Daniel R. Mobley, Susan Redline:
The National Sleep Research Resource: towards a sleep data commons. J. Am. Medical Informatics Assoc. 25(10): 1351-1358 (2018) - [j15]Licong Cui, Olivier Bodenreider, Jay Shi, Guo-Qiang Zhang:
Auditing SNOMED CT hierarchical relations based on lexical features of concepts in non-lattice subgraphs. J. Biomed. Informatics 78: 177-184 (2018) - [j14]Guo-Qiang Zhang, Guangming Xing, Licong Cui:
An efficient, large-scale, non-lattice-detection algorithm for exhaustive structural auditing of biomedical ontologies. J. Biomed. Informatics 80: 106-119 (2018) - [j13]James Geller, Yehoshua Perl, Licong Cui, Guo-Qiang Zhang:
Quality assurance of biomedical terminologies and ontologies. J. Biomed. Informatics 86: 106-108 (2018) - [j12]Licong Cui, Ningzhou Zeng, Matthew Kim, Remo Mueller, Emily R. Hankosky, Susan Redline, Guo-Qiang Zhang:
X-search: an open access interface for cross-cohort exploration of the National Sleep Research Resource. BMC Medical Informatics Decis. Mak. 18(1): 99:1-99:10 (2018) - [j11]Rashmie Abeysinghe, Licong Cui:
Query-constraint-based mining of association rules for exploratory analysis of clinical datasets in the National Sleep Research Resource. BMC Medical Informatics Decis. Mak. 18(S-2): 89-100 (2018) - [j10]Xiaojin Li, Licong Cui, Shiqiang Tao, Jing Chen, Xiang Zhang, Guo-Qiang Zhang:
HyCLASSS: A Hybrid Classifier for Automatic Sleep Stage Scoring. IEEE J. Biomed. Health Informatics 22(2): 375-385 (2018) - [c26]Rashmie Abeysinghe, Xufeng Qu, Licong Cui:
Identifying Similar Non-Lattice Subgraphs in Gene Ontology based on Structural Isomorphism and Semantic Similarity of Concept Labels. AMIA 2018 - [c25]Licong Cui, Guo-Qiang Zhang:
A Cross-Cohort Query System for the National Sleep Research Resource (NSRR). AMIA 2018 - [c24]Guo-Qiang Zhang, Licong Cui, Remo Mueller, Shiqiang Tao, Matthew Kim, Michael Rueschman, Sara Mariani, Daniel R. Mobley, Susan Redline:
The National Sleep Research Resource: Towards a Sleep Data Commons. BCB 2018: 572 - [c23]Fengbo Zheng, Licong Cui:
Exploring Deep Learning-based Approaches for Predicting Concept Names in SNOMED CT. BIBM 2018: 808-813 - [c22]Rashmie Abeysinghe, Fengbo Zheng, Eugene W. Hinderer, Hunter N. B. Moseley, Licong Cui:
A Lexical Approach to Identifying Subtype Inconsistencies in Biomedical Terminologies. BIBM 2018: 1982-1989 - 2017
- [j9]Licong Cui, Wei Zhu, Shiqiang Tao, James T. Case, Olivier Bodenreider, Guo-Qiang Zhang:
Mining non-lattice subgraphs for detecting missing hierarchical relations and concepts in SNOMED CT. J. Am. Medical Informatics Assoc. 24(4): 788-798 (2017) - [c21]Guo-Qiang Zhang, Yan Huang, Licong Cui:
Can SNOMED CT Changes Be Used as a Surrogate Standard for Evaluating the Performance of Its Auditing Methods? AMIA 2017 - [c20]Rashmie Abeysinghe, Michael A. Brooks, Jeffery C. Talbert, Licong Cui:
Quality Assurance of NCI Thesaurus by Mining Structural-Lexical Patterns. AMIA 2017 - [c19]Xiaojin Li, Licong Cui, Shiqiang Tao, Ningzhou Zeng, Guo-Qiang Zhang:
SpindleSphere: A Web-based Platform for Large-scale Sleep Spindle Analysis and Visualization. AMIA 2017 - [c18]Shiqiang Tao, Licong Cui, Xi Wu, Guo-Qiang Zhang:
Facilitating Cohort Discovery by Enhancing Ontology Exploration, Query Management and Query Sharing for Large Clinical Data Repositories. AMIA 2017 - [c17]Wei Zhu, Guo-Qiang Zhang, Licong Cui:
Spark-MCA: Large-scale, Exhaustive Formal Concept Analysis for Evaluating the Semantic Completeness of SNOMED CT. AMIA 2017 - [c16]Ningzhou Zeng, Guo-Qiang Zhang, Xiaojin Li, Licong Cui:
Evaluation of relational and NoSQL approaches for patient cohort identification from heterogeneous data sources. BIBM 2017: 1135-1140 - [c15]Rashmie Abeysinghe, Licong Cui:
Query-constraint-based association rule mining from diverse clinical datasets in the national sleep research resource. BIBM 2017: 1238-1241 - [c14]Rashmie Abeysinghe, Eugene W. Hinderer, Hunter N. B. Moseley, Licong Cui:
Auditing subtype inconsistencies among gene ontology concepts. BIBM 2017: 1242-1245 - [c13]Shiqiang Tao, Ningzhou Zeng, Xi Wu, Wei Zhu, Xiaojin Li, Licong Cui, Guo-Qiang Zhang:
A Data Capture Framework for Large-scale Interventional Studies with Survey Workflow Management. CRI 2017 - 2016
- [j8]Guangming Xing, Guo-Qiang Zhang, Licong Cui:
FEDRR: fast, exhaustive detection of redundant hierarchical relations for quality improvement of large biomedical ontologies. BioData Min. 9: 31 (2016) - [j7]Licong Cui, Shiqiang Tao, Guo-Qiang Zhang:
Biomedical Ontology Quality Assurance Using a Big Data Approach. ACM Trans. Knowl. Discov. Data 10(4): 41:1-41:28 (2016) - [c12]Licong Cui, Yan Huang, Shiqiang Tao, Samden D. Lhatoo, Guo-Qiang Zhang:
ODaCCI: Ontology-guided Data Curation for Multisite Clinical Research Data Integration in the NINDS Center for SUDEP Research. AMIA 2016 - [c11]Wei Zhu, Lingyun Luo, Tarun Jain, Rebecca S. Boxer, Licong Cui, Guo-Qiang Zhang:
DCDS: A Real-time Data Capture and Personalized Decision Support System for Heart Failure Patients in Skilled Nursing Facilities. AMIA 2016 - 2015
- [c10]Licong Cui:
COHeRE: Cross-Ontology Hierarchical Relation Examination for Ontology Quality Assurance. AMIA 2015 - [c9]Mengmeng Sun, Wei Zhu, Shiqiang Tao, Licong Cui, Guo-Qiang Zhang:
COBE: A Conjunctive Ontology Browser and Explorer for Visualizing SNOMED CT Fragments. AMIA 2015 - [c8]Guangming Xing, Licong Cui, Guo-Qiang Zhang:
FEDRR: Fast, Exhaustive Detection of Redundant Hierarchical Relations in Large Biomedical Ontologies. BDM2I@ISWC 2015 - 2014
- [j6]Satya Sanket Sahoo, Samden D. Lhatoo, Deepak K. Gupta, Licong Cui, Meng Zhao, Catherine P. Jayapandian, Alireza Bozorgi, Guo-Qiang Zhang:
Epilepsy and seizure ontology: towards an epilepsy informatics infrastructure for clinical research and patient care. J. Am. Medical Informatics Assoc. 21(1): 82-89 (2014) - [j5]Licong Cui, Satya Sanket Sahoo, Samden D. Lhatoo, Gaurav Garg, Prashant Rai, Alireza Bozorgi, Guo-Qiang Zhang:
Complex epilepsy phenotype extraction from narrative clinical discharge summaries. J. Biomed. Informatics 51: 272-279 (2014) - [j4]Licong Cui, Rong Xu, Zhihui Luo, Susan Wentz, Kyle Scarberry, Guo-Qiang Zhang:
Multi-topic assignment for exploratory navigation of consumer health information in NetWellness using formal concept analysis. BMC Medical Informatics Decis. Mak. 14: 63 (2014) - [c7]Licong Cui, Shiqiang Tao, Guo-Qiang Zhang:
A Semantic-based Approach for Exploring Consumer Health Questions Using UMLS. AMIA 2014 - [c6]Guo-Qiang Zhang, Licong Cui, Samden D. Lhatoo, Satya S. Sahoo:
MEDCIS: Multi-Modality Epilepsy Data Capture and Integration System. AMIA 2014 - [c5]Guo-Qiang Zhang, Wei Zhu, Mengmeng Sun, Shiqiang Tao, Olivier Bodenreider, Licong Cui:
MaPLE: A MapReduce Pipeline for Lattice-based Evaluation and its application to SNOMED CT. IEEE BigData 2014: 754-759 - 2013
- [c4]Licong Cui, Remo Mueller, Satya Sanket Sahoo, Guo-Qiang Zhang:
Querying Complex Federated Clinical Data Using Ontological Mapping and Subsumption Reasoning. ICHI 2013: 351-360 - 2012
- [c3]Licong Cui, Samden D. Lhatoo, Guo-Qiang Zhang, Satya Sanket Sahoo, Alireza Bozorgi:
EpiDEA: Extracting Structured Epilepsy and Seizure Information from Patient Discharge Summaries for Cohort Identification. AMIA 2012 - [c2]Licong Cui, Guo-Qiang Zhang:
A generalized non-pumping Lemma for Regular Languages. QLSC 2012 - [c1]Guo-Qiang Zhang, Xiangnan Zhou, Robert Fraser, Licong Cui:
Concatenation and Kleene Star on Deterministic finite Automata. QLSC 2012 - 2010
- [j3]Guo-Qiang Zhang, Licong Cui:
A set coverage problem. Inf. Process. Lett. 110(4): 158-159 (2010)
2000 – 2009
- 2009
- [j2]Licong Cui, Yongming Li, Xiaohong Zhang:
Intuitionistic Fuzzy Linguistic Quantifiers Based on Intuitionistic Fuzzy-Valued Fuzzy Measures and integrals. Int. J. Uncertain. Fuzziness Knowl. Based Syst. 17(3): 427-448 (2009) - 2008
- [j1]Licong Cui, Yongming Li:
Linguistic quantifiers based on Choquet integrals. Int. J. Approx. Reason. 48(2): 559-582 (2008)
Coauthor Index
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