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ORCIDSijia Liu 0002
Person information
- affiliation: Mayo Clinic, Rochester, MN, USA
- affiliation (former): State University at New York at Buffalo, NY, USA
Other persons with the same name
- Sijia Liu — disambiguation page
- Sijia Liu 0001
![[0000-0003-2817-6991]](https://dblp.uni-trier.de./img/orcid-mark.12x12.png "0000-0003-2817-6991")
— Michigan State University, Department of Computer Science and Engineering, East Lansing, USA (and 3 more) - Sijia Liu 0003 — Beijing Jiaotong University, School of Electrical Engineering, China
- Sijia Liu 0004 — Zhengzhou Information Science and Technology Institute, Zhengzhou, China
- Sijia Liu 0005 — BYD Lithium Battery Company, Ltd., Shenzhen, China (and 1 more)
- Sijia Liu 0006 — City University of Hong Kong, Hong Kong, SAR, China
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2020 – today
- 2023
[j20]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:
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. 30(12): 2036-2040 (2023)- [j19]Andrew Wen, Huan He, Sunyang Fu, Sijia Liu, Kurt Miller, Liwei Wang, Kirk E. Roberts, Steven Bedrick, William R. Hersh, Hongfang Liu:
The IMPACT framework and implementation for accessible in silico clinical phenotyping in the digital era. npj Digit. Medicine 6 (2023) - 2022
- [j18]Huan He, Sunyang Fu, Liwei Wang, Sijia Liu, Andrew Wen, Hongfang Liu:
MedTator: a serverless annotation tool for corpus development. Bioinform. 38(6): 1776-1778 (2022) - [j17]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:
Developing an ETL tool for converting the PCORnet CDM into the OMOP CDM to facilitate the COVID-19 data integration. J. Biomed. Informatics 127: 104002 (2022) - [c35]Huan He, Sunyang Fu, Liwei Wang, Andrew Wen, Sijia Liu, Sungrim Moon, Kurt Miller, Hongfang Liu:
Towards User-centered Corpus Development: Lessons Learnt from Designing and Developing MedTator. AMIA 2022 - [c34]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:
Evaluation of mCODE Coverage in EHR: a Scoping Review of Cancer Natural Language Processing. ICHI 2022: 517-518 - [c33]Huan He, Sunyang Fu, Liwei Wang, Andrew Wen, Sijia Liu, Hongfang Liu:
MedTator: A Serverless Web-based Tool for Corpus Annotation. ICHI 2022: 530-531 - [i6]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:
The NLP Sandbox: an efficient model-to-data system to enable federated and unbiased evaluation of clinical NLP models. CoRR abs/2206.14181 (2022) - 2021
- [j16]Nansu Zong, Daniel J. Stone, Deepak K. Sharma, Andrew Wen, Chen Wang, Yue Yu, Ming Huang, Sijia Liu, Hongfang Liu, Qian Shi, Guoqian Jiang:
Modeling cancer clinical trials using HL7 FHIR to support downstream applications: A case study with colorectal cancer data. Int. J. Medical Informatics 145: 104308 (2021) - [j15]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:
An aberration detection-based approach for sentinel syndromic surveillance of COVID-19 and other novel influenza-like illnesses. J. Biomed. Informatics 113: 103660 (2021) - [c32]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:
Patient Asynchronous Response to Coronavirus Disease 2019 (COVID-19): A Retrospective Analysis of Patient Portal Messages. AMIA 2021 - [c31]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:
Disparity analysis of patient portal messaging use for COVID-19 in urban versus rural locality. AMIA 2021 - [c30]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:
FHIRTime: Standardizing Temporal Patterns Identified from Clinical Narratives Using HL7 FHIR. AMIA 2021 - [c29]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:
On Constraints and Considerations for Extending Support for Natural Language Processing-Based FHIR Resource Generation. AMIA 2021 - [i5]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:
An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C). CoRR abs/2110.10780 (2021) - 2020
- [j14]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:
Time event ontology (TEO): to support semantic representation and reasoning of complex temporal relations of clinical events. J. Am. Medical Informatics Assoc. 27(7): 1046-1056 (2020) - [j13]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:
Clinical concept extraction: A methodology review. J. Biomed. Informatics 109: 103526 (2020) - [c28]Sijia Liu, Sunyang Fu, Sungrim Moon, Andrew Wen, Hongfang Liu:
Predicting Section Location of Clinical Sentences using BERT Encoder - A Pilot Study. AMIA 2020 - [c27]Steve Chamberlin, Steven Bedrick, Aaron M. Cohen, Yanshan Wang, Andrew Wen, Sijia Liu, Hongfang Liu, William R. Hersh:
A Query Taxonomy Describes Performance of Patient-Level Retrieval from Electronic Health Record Data. HSDM@WSDM 2020: 27-33
2010 – 2019
- 2019
- [j12]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:
Automated extraction of sudden cardiac death risk factors in hypertrophic cardiomyopathy patients by natural language processing. Int. J. Medical Informatics 128: 32-38 (2019) - [j11]Feichen Shen, Suyuan Peng, Yadan Fan, Andrew Wen, Sijia Liu, Yanshan Wang, Liwei Wang, Hongfang Liu:
HPO2Vec+: Leveraging heterogeneous knowledge resources to enrich node embeddings for the Human Phenotype Ontology. J. Biomed. Informatics 96 (2019) - [j10]Sungrim Moon, Sijia Liu, David Chen, Yanshan Wang, Douglas L. Wood, Rajeev Chaudhry, Hongfang Liu, Paul R. Kingsbury:
Salience of Medical Concepts of Inside Clinical Texts and Outside Medical Records for Referred Cardiovascular Patients. J. Heal. Informatics Res. 3(2): 200-219 (2019) - [j9]Yanshan Wang, Sunghwan Sohn, Sijia Liu, Feichen Shen, Liwei Wang, Elizabeth J. Atkinson, Shreyasee Amin, Hongfang Liu:
A clinical text classification paradigm using weak supervision and deep representation. BMC Medical Informatics Decis. Mak. 19(1): 1:1-1:13 (2019) - [j8]Feichen Shen, Yiqing Zhao, Liwei Wang, Majid Rastegar-Mojarad, Yanshan Wang, Sijia Liu, Hongfang Liu:
Rare disease knowledge enrichment through a data-driven approach. BMC Medical Informatics Decis. Mak. 19(1): 32:1-32:11 (2019) - [j7]David Chen, Sijia Liu, Paul R. Kingsbury, Sunghwan Sohn, Curtis B. Storlie, Elizabeth B. Habermann, James M. Naessens, David W. Larson, Hongfang Liu:
Deep learning and alternative learning strategies for retrospective real-world clinical data. npj Digit. Medicine 2 (2019) - [j6]Andrew Wen, Sunyang Fu, Sungrim Moon, Mohamed El Wazir, Andrew Rosenbaum, Vinod C. Kaggal, Sijia Liu, Sunghwan Sohn, Hongfang Liu, Jungwei Fan:
Desiderata for delivering NLP to accelerate healthcare AI advancement and a Mayo Clinic NLP-as-a-service implementation. npj Digit. Medicine 2 (2019) - [c26]Yanshan Wang, Andrew Wen, Sijia Liu, Jennifer L. St. Sauver, Adil E. Bharucha, Chunhua Weng, Hongfang Liu:
Clinical Use of an Information Retrieval Framework for Cohort Discovery from Electronic Health Records. AMIA 2019 - [c25]Andrew Wen, Yanshan Wang, Vinod C. Kaggal, Sijia Liu, Hongfang Liu, Jungwei Fan:
Enhancing Clinical Information Retrieval through Context-Aware Queries and Indices. IEEE BigData 2019: 2800-2807 - [i4]Sijia Liu, Yanshan Wang, Andrew Wen, Liwei Wang, Na Hong, Feichen Shen, Steven Bedrick, William R. Hersh, Hongfang Liu:
CREATE: Cohort Retrieval Enhanced by Analysis of Text from Electronic Health Records using OMOP Common Data Model. CoRR abs/1901.07601 (2019) - [i3]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:
Development of Clinical Concept Extraction Applications: A Methodology Review. CoRR abs/1910.11377 (2019) - 2018
- [j5]Sijia Liu, Feichen Shen, Ravikumar Komandur Elayavilli, Yanshan Wang, Majid Rastegar-Mojarad, Vipin Chaudhary, Hongfang Liu:
Extracting chemical-protein relations using attention-based neural networks. Database J. Biol. Databases Curation 2018: bay102 (2018) - [j4]Yanshan Wang, Liwei Wang, Majid Rastegar-Mojarad, Sungrim Moon, Feichen Shen, Naveed Afzal, Sijia Liu, Yuqun Zeng, Saeed Mehrabi, Sunghwan Sohn, Hongfang Liu:
Clinical information extraction applications: A literature review. J. Biomed. Informatics 77: 34-49 (2018) - [j3]Stephen T. Wu, Sijia Liu, Sunghwan Sohn, Sungrim Moon, Chung-Il Wi, Young J. Juhn, Hongfang Liu:
Modeling asynchronous event sequences with RNNs. J. Biomed. Informatics 83: 167-177 (2018) - [j2]Yanshan Wang, Sijia Liu, Naveed Afzal, Majid Rastegar-Mojarad, Liwei Wang, Feichen Shen, Paul R. Kingsbury, Hongfang Liu:
A comparison of word embeddings for the biomedical natural language processing. J. Biomed. Informatics 87: 12-20 (2018) - [c24]Sijia Liu, Liwei Wang, Sunghwan Sohn, Liping Xia, Hongfang Liu:
ARETA: A Corpus for Asthma Related Event Temporal Association. AMIA 2018 - [c23]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:
Leveraging Electronic Health Records for Identification of Features Associated with Sudden Death for Hypertrophic Cardiomyopathy Patients. AMIA 2018 - [c22]Yanshan Wang, Andrew Wen, Sijia Liu, Hongfang Liu:
EMIRS: An Electronic Medical Information Retrieval System by Leveraging both Structured and Unstructured Electronic Health Records. AMIA 2018 - [c21]Majid Rastegar-Mojarad, Sijia Liu, Yanshan Wang, Naveed Afzal, Liwei Wang, Feichen Shen, Sunyang Fu, Hongfang Liu:
BioCreative/OHNLP Challenge 2018. BCB 2018: 575 - [c20]Feichen Shen, Sijia Liu, Yanshan Wang, Liwei Wang, Andrew Wen, Andrew H. Limper, Hongfang Liu:
Constructing Node Embeddings for Human Phenotype Ontology to Assist Phenotypic Similarity Measurement. ICHI Workshops 2018: 29-33 - [c19]Yanshan Wang, Andrew Wen, Sijia Liu, Hongfang Liu:
MayoNLPTeam at the TREC 2018 Precision Medicine Track: Simple Information Retrieval Approach Is the Best. TREC 2018 - [i2]Yanshan Wang, Sijia Liu, Naveed Afzal, Majid Rastegar-Mojarad, Liwei Wang, Feichen Shen, Paul R. Kingsbury, Hongfang Liu:
A Comparison of Word Embeddings for the Biomedical Natural Language Processing. CoRR abs/1802.00400 (2018) - [i1]Yanshan Wang, Sunghwan Sohn, Sijia Liu, Feichen Shen, Liwei Wang, Elizabeth J. Atkinson, Shreyasee Amin, Hongfang Liu:
A Deep Representation Empowered Distant Supervision Paradigm for Clinical Information Extraction. CoRR abs/1804.07814 (2018) - 2017
- [j1]Stephen T. Wu, Sijia Liu, Yanshan Wang, Tamara Timmons, Harsha Uppili, Steven Bedrick, William R. Hersh, Hongfang Liu:
Intrainstitutional EHR collections for patient-level information retrieval. J. Assoc. Inf. Sci. Technol. 68(11): 2636-2648 (2017) - [c18]Feichen Shen, Sijia Liu, Yanshan Wang, Liwei Wang, Naveed Afzal, Hongfang Liu:
Leveraging Collaborative Filtering to Accelerate Rare Disease Diagnosis. AMIA 2017 - [c17]Feichen Shen, Sijia Liu, Yanshan Wang, Liwei Wang, Naveed Afzal, Hongfang Liu:
Accelerating Rare Disease Diagnosis with Collaborative Filtering. AMIA 2017 - [c16]Yuqun Zeng, Yanshan Wang, Feichen Shen, Sijia Liu, Liwei Wang, Majid Rastegar-Mojarad, Xusheng Liu, Hongfang Liu:
Recommending education materials for diabetic questions using information retrieval approaches. AMIA 2017 - [c15]Yanshan Wang, Sijia Liu, Majid Rastegar-Mojarad, Liwei Wang, Feichen Shen, Fei Liu, Hongfang Liu:
Dependency and AMR Embeddings for Drug-Drug Interaction Extraction from Biomedical Literature. BCB 2017: 36-43 - [c14]Sungrim Moon, Sijia Liu, Paul R. Kingsbury, David Chen, Yanshan Wang, Feichen Shen, Rajeev Chaudhry, Hongfang Liu:
Medical concept intersection between outside medical records and consultant notes: A case study in transferred cardiovascular patients. BIBM 2017: 1495-1500 - [c13]Sijia Liu, Liwei Wang, Donna M. Ihrke, Vipin Chaudhary, Cui Tao, Chunhua Weng, Hongfang Liu:
Correlating Lab Test Results in Clinical Notes with Structured Lab Data: A Case Study in HbA1c and Glucose. CRI 2017 - [c12]Feichen Shen, Sunghwan Sohn, Majid Rastegar-Mojarad, Sijia Liu, Joshua J. Pankratz, Michael Hatton, Nancy Sowada, Om Shrestha, Shawna Shurson, Hongfang Liu:
Populating Physician Biographical Pages Based on EMR Data. CRI 2017 - [c11]Yanshan Wang, Liwei Wang, Majid Rastegar-Mojarad, Sijia Liu, Feichen Shen, Hongfang Liu:
Content Analysis of Free-Text Family History. CRI 2017 - [c10]Sijia Liu, Yanshan Wang, Na Hong, Feichen Shen, Stephen T. Wu, William R. Hersh, Hongfang Liu:
On Mapping Textual Queries to a Common Data Model. ICHI 2017: 21-25 - [c9]Stephen T. Wu, Andrew Wen, Yanshan Wang, Sijia Liu, Hongfang Liu:
Aligned-Layer Text Search in Clinical Notes. MedInfo 2017: 629-633 - [c8]Sijia Liu, Feichen Shen, Vipin Chaudhary, Hongfang Liu:
MayoNLP at SemEval 2017 Task 10: Word Embedding Distance Pattern for Keyphrase Classification in Scientific Publications. SemEval@ACL 2017: 956-960 - 2016
- [c7]Dingcheng Li, Sijia Liu, Majid Rastegar-Mojarad, Yanshan Wang, Xiaodi Li, Vipin Chaudhary, Terry M. Therneau, Hongfang Liu:
A Topic-modeling Based Framework for Drug-drug Interaction Classification from Biomedical Text. AMIA 2016 - [c6]Dingcheng Li, Sijia Liu, Majid Rastegar-Mojarad, Yanshan Wang, Xiaodi Li, Vipin Chaudhary, Terry M. Therneau, Hongfang Liu:
Drug-drug Interaction Detection with A Topic-modeling Based Framework Augmented with Distant-supervision. AMIA 2016 - [c5]Sijia Liu, Yanshan Wang, Saeed Mehrabi, Dingcheng Li, Hongfang Liu:
MayoBMI at ImageCLEF 2016 Handwritten Document Retrieval Task. CLEF (Working Notes) 2016: 347-355 - [c4]Sijia Liu, Hongfang Liu, Vipin Chaudhary, Dingcheng Li:
An Infinite Mixture Model for Coreference Resolution in Clinical Notes. CRI 2016 - [c3]Sijia Liu, Vipin Chaudhary, Liwei Wang, Hongfang Liu:
LabLinker: Finding Links of Laboratory Test Results between Structured Records and Clinical Notes. ICHI 2016: 302 - [c2]Yanshan Wang, Majid Rastegar-Mojarad, Ravikumar Komandur Elayavilli, Sijia Liu, Hongfang Liu:
An Ensemble Model of Clinical Information Extraction and Information Retrieval for Clinical Decision Support. TREC 2016 - 2015
- [c1]Sijia Liu, Ruhan Sa, Orla Maguire, Hans Minderman, Vipin Chaudhary:
Spot counting on fluorescence in situ hybridization in suspension images using Gaussian mixture model. Image Processing 2015: 94132H
Coauthor Index
[j20] [j19] [j18] [c35] [c34] [c33] [i6] [j16] [j15] [c32] [c31] [c30] [c29] [i5] [j14] [j13] [c28] [c27] [j12] [j11] [j10] [j9] [j8] [j7] [j6] [c26] [c25] [i4] [i3] [j5] [j4] [j3] [j2] [c24] [c23] [c22] [c21] [c20] [c19] [i2] [i1] [j1] [c18] [c17] [c16] [c15] [c14] [c13] [c12] [c11] [c10] [c9] [c8] [c7] [c6] [c5] [c4] [c3] [c2]
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