Sijia Liu - RankMe

61 papers B 1Misc 15Journal 26Unranked 19

Year	Rank	Type	Title / Venue / Authors
2023	J	`jnl`	An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C). J. Am. Medical Informatics Assoc. Sijia Liu, Andrew Wen, Liwei Wang, Huan He, Sunyang Fu, Robert T. Miller, Andrew E. Williams, Daniel R. Harris, Ramakanth Kavuluru, Mei Liu, Noor Abu-El-Rub, Dalton Schutte, Rui Zhang, Masoud Rouhizadeh, John D. Osborne, Yongqun He, Umit Topaloglu, Stephanie S. Hong, Joel H. Saltz, Thomas Schaffter, Emily R. Pfaff, Christopher G. Chute, Tim Duong, Melissa A. Haendel, Rafael Fuentes, Peter Szolovits, Hua Xu, Hongfang Liu
2023	J	`jnl`	The IMPACT framework and implementation for accessible in silico clinical phenotyping in the digital era. npj Digit. Medicine Andrew Wen, Huan He, Sunyang Fu, Sijia Liu, Kurt Miller, Liwei Wang, Kirk E. Roberts, Steven Bedrick, William R. Hersh, Hongfang Liu
2022	J	`jnl`	Developing an ETL tool for converting the PCORnet CDM into the OMOP CDM to facilitate the COVID-19 data integration. J. Biomed. Informatics Yue Yu, Nansu Zong, Andrew Wen, Sijia Liu, Daniel J. Stone, David Knaack, Alanna M. Chamberlain, Emily R. Pfaff, Davera Gabriel, Christopher G. Chute, Nilay Shah, Guoqian Jiang
2022	—	`conf`	Evaluation of mCODE Coverage in EHR: a Scoping Review of Cancer Natural Language Processing. ICHI Liwei Wang, Sunyang Fu, Andrew Wen, Xiaoyang Ruan, Huan He, Sijia Liu, Sungrim Moon, Michelle Mai, Irbaz Bin Riaz, Nan Wang, Ping Yang, Hua Xu, Jeremy L. Warner, Hongfang Liu
2022	—	`conf`	MedTator: A Serverless Web-based Tool for Corpus Annotation. ICHI Huan He, Sunyang Fu, Liwei Wang, Andrew Wen, Sijia Liu, Hongfang Liu
2022	J	`jnl`	MedTator: a serverless annotation tool for corpus development. Bioinform. Huan He, Sunyang Fu, Liwei Wang, Sijia Liu, Andrew Wen, Hongfang Liu
2022	J	`jnl`	The NLP Sandbox: an efficient model-to-data system to enable federated and unbiased evaluation of clinical NLP models. CoRR Yao Yan, Thomas Yu, Kathleen Muenzen, Sijia Liu, Connor Boyle, George Koslowski, Jiaxin Zheng, Nicholas J. Dobbins, Clement Essien, Hongfang Liu, Larsson Omberg, Meliha Yestigen, Bradley Taylor, James A. Eddy, Justin Guinney, Sean D. Mooney, Thomas Schaffter
2022	Misc	`conf`	Towards User-centered Corpus Development: Lessons Learnt from Designing and Developing MedTator. AMIA Huan He, Sunyang Fu, Liwei Wang, Andrew Wen, Sijia Liu, Sungrim Moon, Kurt Miller, Hongfang Liu
2021	J	`jnl`	An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C). CoRR Sijia Liu, Andrew Wen, Liwei Wang, Huan He, Sunyang Fu, Robert T. Miller, Andrew E. Williams, Daniel R. Harris, Ramakanth Kavuluru, Mei Liu, Noor Abu-El-Rub, Rui Zhang, John D. Osborne, Masoud Rouhizadeh, Yongqun He, Emily R. Pfaff, Christopher G. Chute, Tim Duong, Melissa A. Haendel, Rafael Fuentes, Peter Szolovits, Hua Xu, Hongfang Liu
2021	J	`jnl`	An aberration detection-based approach for sentinel syndromic surveillance of COVID-19 and other novel influenza-like illnesses. J. Biomed. Informatics Andrew Wen, Liwei Wang, Huan He, Sijia Liu, Sunyang Fu, Sunghwan Sohn, Jacob A. Kugel, Vinod C. Kaggal, Ming Huang, Yanshan Wang, Feichen Shen, Jungwei Fan, Hongfang Liu
2021	Misc	`conf`	Disparity analysis of patient portal messaging use for COVID-19 in urban versus rural locality. AMIA Ming Huang, Andrew Wen, Huan He, Liwei Wang, Sijia Liu, Yanshan Wang, Nansu Zong, Yue Yu, Julie E. Prigge, Brian Costello, Nilay D. Shah, Henry Ting, Chyke Doubeni, Jungwei Fan, Hongfang Liu, Christi A. Patten
2021	Misc	`conf`	FHIRTime: Standardizing Temporal Patterns Identified from Clinical Narratives Using HL7 FHIR. AMIA Daniel J. Stone, Sijia Liu, Yuan Luo, Andrew Wen, Nansu Zong, Luke V. Rasmussen, Prakash Adekkanattu, Pascal S. Brandt, Jennifer A. Pacheco, Fei Wang, Cui Tao, Jyotishman Pathak, Hongfang Liu, Guoqian Jiang
2021	J	`jnl`	Modeling cancer clinical trials using HL7 FHIR to support downstream applications: A case study with colorectal cancer data. Int. J. Medical Informatics Nansu Zong, Daniel J. Stone, Deepak K. Sharma, Andrew Wen, Chen Wang, Yue Yu, Ming Huang, Sijia Liu, Hongfang Liu, Qian Shi, Guoqian Jiang
2021	Misc	`conf`	On Constraints and Considerations for Extending Support for Natural Language Processing-Based FHIR Resource Generation. AMIA Andrew Wen, Luke V. Rasmussen, Daniel J. Stone, Sijia Liu, Prakash Adekkanattu, Pascal S. Brandt, Jennifer A. Pacheco, Yuan Luo, Fei Wang, Jyotishman Pathak, Hongfang Liu, Guoqian Jiang
2021	Misc	`conf`	Patient Asynchronous Response to Coronavirus Disease 2019 (COVID-19): A Retrospective Analysis of Patient Portal Messages. AMIA Ming Huang, Aditya Khurana, George M. Mastorakos, Andrew Wen, Huan He, Liwei Wang, Sijia Liu, Yanshan Wang, Julie E. Prigge, Brian Costello, Nilay D. Shah, Henry Ting, Christi A. Patten, Jungwei Fan, Hongfang Liu
2020	—	`conf`	A Query Taxonomy Describes Performance of Patient-Level Retrieval from Electronic Health Record Data. HSDM@WSDM Steve Chamberlin, Steven Bedrick, Aaron M. Cohen, Yanshan Wang, Andrew Wen, Sijia Liu, Hongfang Liu, William R. Hersh
2020	J	`jnl`	Clinical concept extraction: A methodology review. J. Biomed. Informatics Sunyang Fu, David Chen, Huan He, Sijia Liu, Sungrim Moon, Kevin J. Peterson, Feichen Shen, Liwei Wang, Yanshan Wang, Andrew Wen, Yiqing Zhao, Sunghwan Sohn, Hongfang Liu
2020	Misc	`conf`	Predicting Section Location of Clinical Sentences using BERT Encoder - A Pilot Study. AMIA Sijia Liu, Sunyang Fu, Sungrim Moon, Andrew Wen, Hongfang Liu
2020	J	`jnl`	Time event ontology (TEO): to support semantic representation and reasoning of complex temporal relations of clinical events. J. Am. Medical Informatics Assoc. Fang Li, Jingcheng Du, Yongqun He, Hsing-yi Song, Mohcine Madkour, Guozheng Rao, Yang Xiang, Yi Luo, Henry W. Chen, Sijia Liu, Liwei Wang, Hongfang Liu, Hua Xu, Cui Tao
2019	J	`jnl`	A clinical text classification paradigm using weak supervision and deep representation. BMC Medical Informatics Decis. Mak. Yanshan Wang, Sunghwan Sohn, Sijia Liu, Feichen Shen, Liwei Wang, Elizabeth J. Atkinson, Shreyasee Amin, Hongfang Liu
2019	J	`jnl`	Automated extraction of sudden cardiac death risk factors in hypertrophic cardiomyopathy patients by natural language processing. Int. J. Medical Informatics Sungrim Moon, Sijia Liu, Christopher Scott, Sujith Samudrala, Mohamed M. Abidian, Jeffrey B. Geske, Peter A. Noseworthy, Jane L. Shellum, Rajeev Chaudhry, Steve Ommen, Rick Nishimura, Hongfang Liu, Adelaide M. Arruda-Olson
2019	J	`jnl`	CREATE: Cohort Retrieval Enhanced by Analysis of Text from Electronic Health Records using OMOP Common Data Model. CoRR Sijia Liu, Yanshan Wang, Andrew Wen, Liwei Wang, Na Hong, Feichen Shen, Steven Bedrick, William R. Hersh, Hongfang Liu
2019	Misc	`conf`	Clinical Use of an Information Retrieval Framework for Cohort Discovery from Electronic Health Records. AMIA Yanshan Wang, Andrew Wen, Sijia Liu, Jennifer L. St. Sauver, Adil E. Bharucha, Chunhua Weng, Hongfang Liu
2019	J	`jnl`	Deep learning and alternative learning strategies for retrospective real-world clinical data. npj Digit. Medicine David Chen, Sijia Liu, Paul R. Kingsbury, Sunghwan Sohn, Curtis B. Storlie, Elizabeth B. Habermann, James M. Naessens, David W. Larson, Hongfang Liu
2019	J	`jnl`	Desiderata for delivering NLP to accelerate healthcare AI advancement and a Mayo Clinic NLP-as-a-service implementation. npj Digit. Medicine Andrew Wen, Sunyang Fu, Sungrim Moon, Mohamed El Wazir, Andrew Rosenbaum, Vinod C. Kaggal, Sijia Liu, Sunghwan Sohn, Hongfang Liu, Jungwei Fan
2019	J	`jnl`	Development of Clinical Concept Extraction Applications: A Methodology Review. CoRR Sunyang Fu, David Chen, Sijia Liu, Sungrim Moon, Kevin J. Peterson, Feichen Shen, Yanshan Wang, Liwei Wang, Andrew Wen, Yiqing Zhao, Sunghwan Sohn, Hongfang Liu
2019	—	`conf`	Enhancing Clinical Information Retrieval through Context-Aware Queries and Indices. IEEE BigData Andrew Wen, Yanshan Wang, Vinod C. Kaggal, Sijia Liu, Hongfang Liu, Jungwei Fan
2019	J	`jnl`	HPO2Vec+: Leveraging heterogeneous knowledge resources to enrich node embeddings for the Human Phenotype Ontology. J. Biomed. Informatics Feichen Shen, Suyuan Peng, Yadan Fan, Andrew Wen, Sijia Liu, Yanshan Wang, Liwei Wang, Hongfang Liu
2019	J	`jnl`	Rare disease knowledge enrichment through a data-driven approach. BMC Medical Informatics Decis. Mak. Feichen Shen, Yiqing Zhao, Liwei Wang, Majid Rastegar-Mojarad, Yanshan Wang, Sijia Liu, Hongfang Liu
2019	J	`jnl`	Salience of Medical Concepts of Inside Clinical Texts and Outside Medical Records for Referred Cardiovascular Patients. J. Heal. Informatics Res. Sungrim Moon, Sijia Liu, David Chen, Yanshan Wang, Douglas L. Wood, Rajeev Chaudhry, Hongfang Liu, Paul R. Kingsbury
2018	J	`jnl`	A Comparison of Word Embeddings for the Biomedical Natural Language Processing. CoRR Yanshan Wang, Sijia Liu, Naveed Afzal, Majid Rastegar-Mojarad, Liwei Wang, Feichen Shen, Paul R. Kingsbury, Hongfang Liu
2018	J	`jnl`	A Deep Representation Empowered Distant Supervision Paradigm for Clinical Information Extraction. CoRR Yanshan Wang, Sunghwan Sohn, Sijia Liu, Feichen Shen, Liwei Wang, Elizabeth J. Atkinson, Shreyasee Amin, Hongfang Liu
2018	J	`jnl`	A comparison of word embeddings for the biomedical natural language processing. J. Biomed. Informatics Yanshan Wang, Sijia Liu, Naveed Afzal, Majid Rastegar-Mojarad, Liwei Wang, Feichen Shen, Paul R. Kingsbury, Hongfang Liu
2018	Misc	`conf`	ARETA: A Corpus for Asthma Related Event Temporal Association. AMIA Sijia Liu, Liwei Wang, Sunghwan Sohn, Liping Xia, Hongfang Liu
2018	—	`conf`	BioCreative/OHNLP Challenge 2018. BCB Majid Rastegar-Mojarad, Sijia Liu, Yanshan Wang, Naveed Afzal, Liwei Wang, Feichen Shen, Sunyang Fu, Hongfang Liu
2018	J	`jnl`	Clinical information extraction applications: A literature review. J. Biomed. Informatics Yanshan Wang, Liwei Wang, Majid Rastegar-Mojarad, Sungrim Moon, Feichen Shen, Naveed Afzal, Sijia Liu, Yuqun Zeng, Saeed Mehrabi, Sunghwan Sohn, Hongfang Liu
2018	—	`conf`	Constructing Node Embeddings for Human Phenotype Ontology to Assist Phenotypic Similarity Measurement. ICHI Workshops Feichen Shen, Sijia Liu, Yanshan Wang, Liwei Wang, Andrew Wen, Andrew H. Limper, Hongfang Liu
2018	Misc	`conf`	EMIRS: An Electronic Medical Information Retrieval System by Leveraging both Structured and Unstructured Electronic Health Records. AMIA Yanshan Wang, Andrew Wen, Sijia Liu, Hongfang Liu
2018	J	`jnl`	Extracting chemical-protein relations using attention-based neural networks. Database J. Biol. Databases Curation Sijia Liu, Feichen Shen, Ravikumar Komandur Elayavilli, Yanshan Wang, Majid Rastegar-Mojarad, Vipin Chaudhary, Hongfang Liu
2018	Misc	`conf`	Leveraging Electronic Health Records for Identification of Features Associated with Sudden Death for Hypertrophic Cardiomyopathy Patients. AMIA Sungrim Moon, Sijia Liu, Sujith Samudrala, Jane L. Shellum, Jeffrey B. Geske, Peter A. Noseworthy, Steve Ommen, Rajeev Chaudhry, Rick Nishimura, Hongfang Liu, Adelaide M. Arruda-Olson
2018	—	`conf`	MayoNLPTeam at the TREC 2018 Precision Medicine Track: Simple Information Retrieval Approach Is the Best. TREC Yanshan Wang, Andrew Wen, Sijia Liu, Hongfang Liu
2018	J	`jnl`	Modeling asynchronous event sequences with RNNs. J. Biomed. Informatics Stephen T. Wu, Sijia Liu, Sunghwan Sohn, Sungrim Moon, Chung-Il Wi, Young J. Juhn, Hongfang Liu
2017	Misc	`conf`	Accelerating Rare Disease Diagnosis with Collaborative Filtering. AMIA Feichen Shen, Sijia Liu, Yanshan Wang, Liwei Wang, Naveed Afzal, Hongfang Liu
2017	—	`conf`	Aligned-Layer Text Search in Clinical Notes. MedInfo Stephen T. Wu, Andrew Wen, Yanshan Wang, Sijia Liu, Hongfang Liu
2017	—	`conf`	Content Analysis of Free-Text Family History. CRI Yanshan Wang, Liwei Wang, Majid Rastegar-Mojarad, Sijia Liu, Feichen Shen, Hongfang Liu
2017	—	`conf`	Correlating Lab Test Results in Clinical Notes with Structured Lab Data: A Case Study in HbA1c and Glucose. CRI Sijia Liu, Liwei Wang, Donna M. Ihrke, Vipin Chaudhary, Cui Tao, Chunhua Weng, Hongfang Liu
2017	—	`conf`	Dependency and AMR Embeddings for Drug-Drug Interaction Extraction from Biomedical Literature. BCB Yanshan Wang, Sijia Liu, Majid Rastegar-Mojarad, Liwei Wang, Feichen Shen, Fei Liu, Hongfang Liu
2017	J	`jnl`	Intrainstitutional EHR collections for patient-level information retrieval. J. Assoc. Inf. Sci. Technol. Stephen T. Wu, Sijia Liu, Yanshan Wang, Tamara Timmons, Harsha Uppili, Steven Bedrick, William R. Hersh, Hongfang Liu
2017	Misc	`conf`	Leveraging Collaborative Filtering to Accelerate Rare Disease Diagnosis. AMIA Feichen Shen, Sijia Liu, Yanshan Wang, Liwei Wang, Naveed Afzal, Hongfang Liu
2017	—	`conf`	MayoNLP at SemEval 2017 Task 10: Word Embedding Distance Pattern for Keyphrase Classification in Scientific Publications. SemEval@ACL Sijia Liu, Feichen Shen, Vipin Chaudhary, Hongfang Liu
2017	—	`conf`	Medical concept intersection between outside medical records and consultant notes: A case study in transferred cardiovascular patients. BIBM Sungrim Moon, Sijia Liu, Paul R. Kingsbury, David Chen, Yanshan Wang, Feichen Shen, Rajeev Chaudhry, Hongfang Liu
2017	—	`conf`	On Mapping Textual Queries to a Common Data Model. ICHI Sijia Liu, Yanshan Wang, Na Hong, Feichen Shen, Stephen T. Wu, William R. Hersh, Hongfang Liu
2017	—	`conf`	Populating Physician Biographical Pages Based on EMR Data. CRI Feichen Shen, Sunghwan Sohn, Majid Rastegar-Mojarad, Sijia Liu, Joshua J. Pankratz, Michael Hatton, Nancy Sowada, Om Shrestha, Shawna Shurson, Hongfang Liu
2017	Misc	`conf`	Recommending education materials for diabetic questions using information retrieval approaches. AMIA Yuqun Zeng, Yanshan Wang, Feichen Shen, Sijia Liu, Liwei Wang, Majid Rastegar-Mojarad, Xusheng Liu, Hongfang Liu
2016	Misc	`conf`	A Topic-modeling Based Framework for Drug-drug Interaction Classification from Biomedical Text. AMIA Dingcheng Li, Sijia Liu, Majid Rastegar-Mojarad, Yanshan Wang, Xiaodi Li, Vipin Chaudhary, Terry M. Therneau, Hongfang Liu
2016	—	`conf`	An Ensemble Model of Clinical Information Extraction and Information Retrieval for Clinical Decision Support. TREC Yanshan Wang, Majid Rastegar-Mojarad, Ravikumar Komandur Elayavilli, Sijia Liu, Hongfang Liu
2016	—	`conf`	An Infinite Mixture Model for Coreference Resolution in Clinical Notes. CRI Sijia Liu, Hongfang Liu, Vipin Chaudhary, Dingcheng Li
2016	Misc	`conf`	Drug-drug Interaction Detection with A Topic-modeling Based Framework Augmented with Distant-supervision. AMIA Dingcheng Li, Sijia Liu, Majid Rastegar-Mojarad, Yanshan Wang, Xiaodi Li, Vipin Chaudhary, Terry M. Therneau, Hongfang Liu
2016	—	`conf`	LabLinker: Finding Links of Laboratory Test Results between Structured Records and Clinical Notes. ICHI Sijia Liu, Vipin Chaudhary, Liwei Wang, Hongfang Liu
2016	—	`conf`	MayoBMI at ImageCLEF 2016 Handwritten Document Retrieval Task. CLEF (Working Notes) Sijia Liu, Yanshan Wang, Saeed Mehrabi, Dingcheng Li, Hongfang Liu
2015	B	`conf`	Spot counting on fluorescence in situ hybridization in suspension images using Gaussian mixture model. Image Processing Sijia Liu, Ruhan Sa, Orla Maguire, Hans Minderman, Vipin Chaudhary