Liwei Wang

Charat Thongprayoon

Wisit Cheungpasitporn

Artif. Intell. Medicine, December, 2023

An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C).

[BibT_eX]

[DOI]

J. Am. Medical Informatics Assoc., November, 2023

The IMPACT framework and implementation for accessible in silico clinical phenotyping in the digital era.

[BibT_eX]

[DOI]

npj Digit. Medicine, 2023

A Cross-institutional Evaluation on Breast Cancer Phenotyping NLP Algorithms on Electronic Health Records.

[BibT_eX]

[DOI]

CoRR, 2023

2022

Computational drug repurposing based on electronic health records: a scoping review.

[BibT_eX]

[DOI]

npj Digit. Medicine, 2022

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

[BibT_eX]

[DOI]

J. Am. Medical Informatics Assoc., 2022

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

[BibT_eX]

[DOI]

Frontiers Digit. Health, 2022

Discrimination, calibration, and point estimate accuracy of GRU-D-Weibull architecture for real-time individualized endpoint prediction.

[BibT_eX]

[DOI]

Wisit Cheungpasitporn

CoRR, 2022

A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology.

[BibT_eX]

[DOI]

J. Biomed. Semant., 2022

MedTator: a serverless annotation tool for corpus development.

[BibT_eX]

[DOI]

Bioinform., 2022

Evaluation of mCODE Coverage in EHR: a Scoping Review of Cancer Natural Language Processing.

[BibT_eX]

[DOI]

Proceedings of the 10th IEEE International Conference on Healthcare Informatics, 2022

MedTator: A Serverless Web-based Tool for Corpus Annotation.

[BibT_eX]

[DOI]

Proceedings of the 10th IEEE International Conference on Healthcare Informatics, 2022

Towards User-centered Corpus Development: Lessons Learnt from Designing and Developing MedTator.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2022, 2022

Quality Assessment of Functional Status Documentation in EHR Across Institutions.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2022, 2022

2021

An aberration detection-based approach for sentinel syndromic surveillance of COVID-19 and other novel influenza-like illnesses.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2021

An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C).

[BibT_eX]

[DOI]

CoRR, 2021

CancerBERT: a BERT model for Extracting Breast Cancer Phenotypes from Electronic Health Records.

[BibT_eX]

[DOI]

CoRR, 2021

Deep Learning Approaches for Breast Cancer Characteristics Extraction from Electronic Health Records.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021

Disparity analysis of patient portal messaging use for COVID-19 in urban versus rural locality.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021

COVID-19 Dashboard: Visual Exploration of the Regional Pandemic Trend.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021

Patient Asynchronous Response to Coronavirus Disease 2019 (COVID-19): A Retrospective Analysis of Patient Portal Messages.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021

2020

MedSTS: a resource for clinical semantic textual similarity.

[BibT_eX]

[DOI]

Lang. Resour. Evaluation, 2020

Clinical concept extraction: A methodology review.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2020

Time event ontology (TEO): to support semantic representation and reasoning of complex temporal relations of clinical events.

[BibT_eX]

[DOI]

J. Am. Medical Informatics Assoc., 2020

Investigating the impact of disease and health record duration on the eMERGE algorithm for rheumatoid arthritis.

[BibT_eX]

[DOI]

J. Am. Medical Informatics Assoc., 2020

2019

Discovering associations between problem list and practice setting.

[BibT_eX]

[DOI]

BMC Medical Informatics Decis. Mak., 2019

A clinical text classification paradigm using weak supervision and deep representation.

[BibT_eX]

[DOI]

Elizabeth J. Atkinson

Shreyasee Amin

BMC Medical Informatics Decis. Mak., 2019

Natural language processing for populating lung cancer clinical research data.

[BibT_eX]

[DOI]

BMC Medical Informatics Decis. Mak., 2019

Rare disease knowledge enrichment through a data-driven approach.

[BibT_eX]

[DOI]

Yiqing Zhao

Fabricio Sampaio Peres Kury

BMC Medical Informatics Decis. Mak., 2019

HPO2Vec+: Leveraging heterogeneous knowledge resources to enrich node embeddings for the Human Phenotype Ontology.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2019

Ensembles of natural language processing systems for portable phenotyping solutions.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2019

Development of Clinical Concept Extraction Applications: A Methodology Review.

[BibT_eX]

[DOI]

CoRR, 2019

Cross-lingual Data Transformation and Combination for Text Classification.

[BibT_eX]

[DOI]

CoRR, 2019

CREATE: Cohort Retrieval Enhanced by Analysis of Text from Electronic Health Records using OMOP Common Data Model.

[BibT_eX]

[DOI]

CoRR, 2019

Developing Customizable Cancer Information Extraction Modules for Pathology Reports Using CLAMP.

[BibT_eX]

[DOI]

Proceedings of the MEDINFO 2019: Health and Wellbeing e-Networks for All, 2019

Information Extraction for Populating Lung Cancer Clinical Research Data.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Healthcare Informatics, 2019

Achievability to Extract Specific Date Information for Cancer Research.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2019, 2019

Association between Cardiotoxic Chemotherapy and Myocardial Infarction.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2019, 2019

2018

Clinical information extraction applications: A literature review.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2018

A comparison of word embeddings for the biomedical natural language processing.

[BibT_eX]

[DOI]

Naveed Afzal

J. Biomed. Informatics, 2018

A Deep Representation Empowered Distant Supervision Paradigm for Clinical Information Extraction.

[BibT_eX]

[DOI]

Elizabeth J. Atkinson

Shreyasee Amin

CoRR, 2018

Predicting Practice Setting Using Topic Modeling.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018

Identification of Genetic Causality Statements in Medline Abstracts Leveraging Distant Supervision.

[BibT_eX]

[DOI]

Ravikumar Komandur Elayavilli

Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018

Constructing Node Embeddings for Human Phenotype Ontology to Assist Phenotypic Similarity Measurement.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018

Leveraging Association Rule Mining to Detect Pathophysiological Mechanisms of Chronic Kidney Disease Complicated by Metabolic Syndrome.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

BioCreative/OHNLP Challenge 2018.

[BibT_eX]

[DOI]

Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018

Information Extraction for Data Population in Lung Cancer Clinical Research.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2018, 2018

ARETA: A Corpus for Asthma Related Event Temporal Association.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2018, 2018

2017

Need of informatics in designing interoperable clinical registries.

[BibT_eX]

[DOI]

Int. J. Medical Informatics, 2017

Using Human Phenotype Ontology for Phenotypic Analysis of Clinical Notes.

[BibT_eX]

[DOI]

Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017

Phenotypic Analysis of Clinical Narratives Using Human Phenotype Ontology.

[BibT_eX]

[DOI]

Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017

Content Analysis of Free-Text Family History.

[BibT_eX]

[DOI]

Proceedings of the Summit on Clinical Research Informatics, 2017

Correlating Lab Test Results in Clinical Notes with Structured Lab Data: A Case Study in HbA1c and Glucose.

[BibT_eX]

[DOI]

Proceedings of the Summit on Clinical Research Informatics, 2017

Dependency and AMR Embeddings for Drug-Drug Interaction Extraction from Biomedical Literature.

[BibT_eX]

[DOI]

Proceedings of the 8th ACM International Conference on Bioinformatics, 2017

Recommending education materials for diabetic questions using information retrieval approaches.

[BibT_eX]

[DOI]

Xusheng Liu

Proceedings of the AMIA 2017, 2017

Semantic Representations of Medical Terms: A Comparison Study of Word Embeddings Trained on Clinical Notes and PubMed Articles.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2017, 2017

Accelerating Rare Disease Diagnosis with Collaborative Filtering.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2017, 2017

Leveraging Collaborative Filtering to Accelerate Rare Disease Diagnosis.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2017, 2017

A Resource for Clinical Semantic Textual Similarity.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2017, 2017

2016

LabLinker: Finding Links of Laboratory Test Results between Structured Records and Clinical Notes.

[BibT_eX]

[DOI]

Proceedings of the 2016 IEEE International Conference on Healthcare Informatics, 2016

Answering diabetic patients' questions using expert-vetted online resources: A case study.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Prioritizing Adverse Drug Reaction and Drug Repositioning Candidates Generated by Literature-Based Discovery.

[BibT_eX]

[DOI]

Ravikumar Komandur Elayavilli

Rashmi Prasad

Proceedings of the 7th ACM International Conference on Bioinformatics, 2016

Answering patients' questions using expert-vetted online resources: A case study of diabetes.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2016, 2016

Discovering Associations between Problem List and Practice Setting.

[BibT_eX]

[DOI]

Dingcheng Li

Proceedings of the AMIA 2016, 2016

Ontology-Based Analysis of Adverse Drug Reactions Associated with Anti-infection Drugs in China.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2016, 2016

2015

Cancer based pharmacogenomics network supported with scientific evidences: from the view of drug repurposing.

[BibT_eX]

[DOI]

BioData Min., 2015

2014

Standardizing adverse drug event reporting data.

[BibT_eX]

[DOI]

J. Biomed. Semant., 2014

Cancer Based Pharmacogenomics Network for Drug Repurposing.

[BibT_eX]

[DOI]

Proceedings of the Trends and Applications in Knowledge Discovery and Data Mining, 2014

2013

Standardizing Drug Adverse Event Reporting Data.

[BibT_eX]

[DOI]

Proceedings of the MEDINFO 2013, 2013

Building a Knowledge Base of Severe Adverse Drug Events Based on AERS Reporting Data Using Semantic Web Technologies.

[BibT_eX]

[DOI]

Proceedings of the MEDINFO 2013, 2013

Standardized Drug and Pharmacological Class Network Construction.

[BibT_eX]

[DOI]

Proceedings of the ICBO2013 Workshops: International Workshop on Vaccine and Drug Ontology Studies (VDOS 2013), International Workshop on Definitions in Ontologies (DO 2013), part of the Semantic Trilogy 2013 , Montreal, Quebec, Canada, July 6th, 2013

Profiling adverse drug events of cancer drug ingredients using normalized AERS data.

[BibT_eX]

[DOI]

Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

Coreference Resolution from Medical Corpus with Topic Modeling.

[BibT_eX]

[DOI]

Dingcheng Li