Hongfang Liu
This page is a disambiguation page, it actually contains mutiple papers from persons of the same or a similar name.
Bibliography
2024
J. Interconnect. Networks, March, 2024
2023
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).
J. Am. Medical Informatics Assoc., November, 2023
Systematic design and data-driven evaluation of social determinants of health ontology (SDoHO).
J. Am. Medical Informatics Assoc., August, 2023
The IHI Rochester Report 2022 on Healthcare Informatics Research: Resuming After the CoViD-19.
J. Heal. Informatics Res., June, 2023
Representing and utilizing clinical textual data for real world studies: An OHDSI approach.
J. Biomed. Informatics, June, 2023
Frontiers Digit. Health, March, 2023
The IMPACT framework and implementation for accessible in silico clinical phenotyping in the digital era.
npj Digit. Medicine, 2023
BiomedGPT: A Unified and Generalist Biomedical Generative Pre-trained Transformer for Vision, Language, and Multimodal Tasks.
CoRR, 2023
A Cross-institutional Evaluation on Breast Cancer Phenotyping NLP Algorithms on Electronic Health Records.
CoRR, 2023
Proceedings of the 11th IEEE International Conference on Healthcare Informatics, 2023
Gender-Specific Machine Learning Models to Predict Unplanned Return to Operating Room Following Primary Total Shoulder Arthroplasty.
Proceedings of the 11th IEEE International Conference on Healthcare Informatics, 2023
Characterizing the Users of Patient Portal Messaging: A Single Institutional Cohort Study.
Proceedings of the 11th IEEE International Conference on Healthcare Informatics, 2023
Resuming HealthCare Informatics Research after CoViD-19: the HealthCare System Perspective.
Proceedings of the 11th IEEE International Conference on Healthcare Informatics, 2023
Proceedings of the 11th IEEE International Conference on Healthcare Informatics, 2023
MLGAN: a Meta-Learning based Generative Adversarial Network adapter for rare disease differentiation tasks.
Proceedings of the 14th ACM International Conference on Bioinformatics, 2023
2022
Leveraging a pharmacogenomics knowledgebase to formulate a drug response phenotype terminology for genomic medicine.
Bioinform., November, 2022
npj Digit. Medicine, 2022
Real-time risk prediction of colorectal surgery-related post-surgical complications using GRU-D model.
J. Biomed. Informatics, 2022
CancerBERT: a cancer domain-specific language model for extracting breast cancer phenotypes from electronic health records.
J. Am. Medical Informatics Assoc., 2022
Demonstrating an approach for evaluating synthetic geospatial and temporal epidemiologic data utility: results from analyzing >1.8 million SARS-CoV-2 tests in the United States National COVID Cohort Collaborative (N3C).
J. Am. Medical Informatics Assoc., 2022
Int. J. Medical Informatics, 2022
Quality assessment of functional status documentation in EHRs across different healthcare institutions.
Frontiers Digit. Health, 2022
Discrimination, calibration, and point estimate accuracy of GRU-D-Weibull architecture for real-time individualized endpoint prediction.
CoRR, 2022
CoRR, 2022
The NLP Sandbox: an efficient model-to-data system to enable federated and unbiased evaluation of clinical NLP models.
CoRR, 2022
RxWhyQA: a clinical question-answering dataset with the challenge of multi-answer questions.
CoRR, 2022
A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology.
J. Biomed. Semant., 2022
Briefings Bioinform., 2022
A Tale of Two Perspectives: Harvesting System Views and User Views to Understand Patient Portal Engagement.
Proceedings of the 10th IEEE International Conference on Healthcare Informatics, 2022
Evaluation of mCODE Coverage in EHR: a Scoping Review of Cancer Natural Language Processing.
Proceedings of the 10th IEEE International Conference on Healthcare Informatics, 2022
Evaluation of Document-Level Identification of Pulmonary Nodules in Radiology Reports Using FLAIR Natural Language Processing Framework.
Proceedings of the 10th IEEE International Conference on Healthcare Informatics, 2022
Aspect-based Sentiment Analysis of Radiology Patient Experience Surveys: A Cohort Study.
Proceedings of the 10th IEEE International Conference on Healthcare Informatics, 2022
Proceedings of the 10th IEEE International Conference on Healthcare Informatics, 2022
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022
Proceedings of the AMIA 2022, 2022
A Hybrid Approach to Semi-automate the Evaluation of the Certainty of Evidence for Living Systematic Reviews and Meta-analysis.
Proceedings of the AMIA 2022, 2022
Mapping Family History Information from Clinical Narratives to Ontologies or Terminological Resources.
Proceedings of the AMIA 2022, 2022
Bridging the Granularity Gap in Family History Information Extracted from Clinical Narratives.
Proceedings of the AMIA 2022, 2022
Proceedings of the AMIA 2022, 2022
Real-time Exploration of Pairwise Meta-analysis Results by Applying Serverless Architecture Design.
Proceedings of the AMIA 2022, 2022
Towards User-centered Corpus Development: Lessons Learnt from Designing and Developing MedTator.
Proceedings of the AMIA 2022, 2022
Proceedings of the AMIA 2022, 2022
2021
Generating real-world evidence from unstructured clinical notes to examine clinical utility of genetic tests: use case in BRCAness.
BMC Medical Informatics Decis. Mak., 2021
Establishing an expert consensus for the operational definitions of asthma-associated infectious and inflammatory multimorbidities for computational algorithms through a modified Delphi technique.
BMC Medical Informatics Decis. Mak., 2021
An aberration detection-based approach for sentinel syndromic surveillance of COVID-19 and other novel influenza-like illnesses.
J. Biomed. Informatics, 2021
Recommendations for the safe, effective use of adaptive CDS in the US healthcare system: an AMIA position paper.
J. Am. Medical Informatics Assoc., 2021
Are synthetic clinical notes useful for real natural language processing tasks: A case study on clinical entity recognition.
J. Am. Medical Informatics Assoc., 2021
Modeling cancer clinical trials using HL7 FHIR to support downstream applications: A case study with colorectal cancer data.
Int. J. Medical Informatics, 2021
An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C).
CoRR, 2021
CancerBERT: a BERT model for Extracting Breast Cancer Phenotypes from Electronic Health Records.
CoRR, 2021
An Empirical Study of UMLS Concept Extraction from Clinical Notes using Boolean Combination Ensembles.
CoRR, 2021
CoRR, 2021
Comparisons of Graph Neural Networks on Cancer Classification Leveraging a Joint of Phenotypic and Genetic Features.
CoRR, 2021
Proceedings of the MEDINFO 2021: One World, One Health - Global Partnership for Digital Innovation, 2021
The Implication of Latent Information Quality to the Reproducibility of Secondary Use of Electronic Health Records.
Proceedings of the MEDINFO 2021: One World, One Health - Global Partnership for Digital Innovation, 2021
Deep Learning Approaches for Breast Cancer Characteristics Extraction from Electronic Health Records.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Modeling Variant Annotation (VA) Therapeutic Association Statements using a SEPIO-Based Workflow.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
On Constraints and Considerations for Extending Support for Natural Language Processing-Based FHIR Resource Generation.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
FHIRTime: Standardizing Temporal Patterns Identified from Clinical Narratives Using HL7 FHIR.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
An Interactive Data Extraction System to Create the Living Systematic Reviews and Meta-Analysis.
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.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
A Hybrid Approach to Semi-Automate the Screening Process for Living Systematic Reviews and Meta-Analysis.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
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.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
2020
Assessment of the impact of EHR heterogeneity for clinical research through a case study of silent brain infarction.
BMC Medical Informatics Decis. Mak., 2020
Lang. Resour. Evaluation, 2020
Unsupervised machine learning for the discovery of latent disease clusters and patient subgroups using electronic health records.
J. Biomed. Informatics, 2020
A corpus-driven standardization framework for encoding clinical problems with HL7 FHIR.
J. Biomed. Informatics, 2020
Constructing co-occurrence network embeddings to assist association extraction for COVID-19 and other coronavirus infectious diseases.
J. Am. Medical Informatics Assoc., 2020
Time event ontology (TEO): to support semantic representation and reasoning of complex temporal relations of clinical events.
J. Am. Medical Informatics Assoc., 2020
Investigating the impact of disease and health record duration on the eMERGE algorithm for rheumatoid arthritis.
J. Am. Medical Informatics Assoc., 2020
J. Am. Medical Informatics Assoc., 2020
Int. J. Softw. Eng. Knowl. Eng., 2020
A Query Taxonomy Describes Performance of Patient-Level Retrieval from Electronic Health Record Data.
Proceedings of the ACM WSDM 2020 Health Search and Data Mining Workshop, 2020
DeepTKAClassifier: Brand Classification of Total Knee Arthroplasty Implants Using Explainable Deep Convolutional Neural Networks.
Proceedings of the Advances in Visual Computing - 15th International Symposium, 2020
Proceedings of the 33rd IEEE International Symposium on Computer-Based Medical Systems, 2020
Subgrouping Rare Disease Patients Leveraging the Human Phenotype Ontology Embeddings.
Proceedings of the 33rd IEEE International Symposium on Computer-Based Medical Systems, 2020
Enrich Rare Disease Phenotypic Characterizations via a Graph Convolutional Network Based Recommendation System.
Proceedings of the 33rd IEEE International Symposium on Computer-Based Medical Systems, 2020
Proceedings of the AMIA 2020, 2020
Accelerating Development of Learning Healthcare Systems via Distantly Supervised Knowledge Discovery.
Proceedings of the AMIA 2020, 2020
Assessing Clinician's Adherence to Asthma Guidelines for Asthma Control Status using Natural Language Processing in a Primary Care Setting.
Proceedings of the AMIA 2020, 2020
Proceedings of the AMIA 2020, 2020
Proceedings of the AMIA 2020, 2020
Proceedings of the AMIA 2020, 2020
Big Impact from Small Data: Unsupervised Machine Learning Approaches for Chronic Pain Patient Subgrouping.
Proceedings of the AMIA 2020, 2020
Annotating Chronic Pain Episodes in EHR Text: Guideline Development and Corpus Analysis.
Proceedings of the AMIA 2020, 2020
Predicting Section Location of Clinical Sentences using BERT Encoder - A Pilot Study.
Proceedings of the AMIA 2020, 2020
2019
BMC Medical Informatics Decis. Mak., December, 2019
Desiderata for delivering NLP to accelerate healthcare AI advancement and a Mayo Clinic NLP-as-a-service implementation.
npj Digit. Medicine, 2019
Deep learning and alternative learning strategies for retrospective real-world clinical data.
npj Digit. Medicine, 2019
Int. J. Mach. Learn. Cybern., 2019
BMC Medical Informatics Decis. Mak., 2019
A clinical text classification paradigm using weak supervision and deep representation.
BMC Medical Informatics Decis. Mak., 2019
Natural language processing of radiology reports for identification of skeletal site-specific fractures.
BMC Medical Informatics Decis. Mak., 2019
BMC Medical Informatics Decis. Mak., 2019
BMC Medical Informatics Decis. Mak., 2019
BMC Medical Informatics Decis. Mak., 2019
Detection of Surgical Site Infection Utilizing Automated Feature Generation in Clinical Notes.
J. Heal. Informatics Res., 2019
J. Heal. Informatics Res., 2019
Salience of Medical Concepts of Inside Clinical Texts and Outside Medical Records for Referred Cardiovascular Patients.
J. Heal. Informatics Res., 2019
HPO2Vec+: Leveraging heterogeneous knowledge resources to enrich node embeddings for the Human Phenotype Ontology.
J. Biomed. Informatics, 2019
J. Biomed. Informatics, 2019
Developing a FHIR-based EHR phenotyping framework: A case study for identification of patients with obesity and multiple comorbidities from discharge summaries.
J. Biomed. Informatics, 2019
Automatic extraction and assessment of lifestyle exposures for Alzheimer's disease using natural language processing.
Int. J. Medical Informatics, 2019
Automated extraction of sudden cardiac death risk factors in hypertrophic cardiomyopathy patients by natural language processing.
Int. J. Medical Informatics, 2019
CoRR, 2019
How Good is Artificial Intelligence at Automatically Answering Consumer Questions Related to Alzheimer's Disease?
CoRR, 2019
CoRR, 2019
Unsupervised Machine Learning for the Discovery of Latent Disease Clusters and Patient Subgroups Using Electronic Health Records.
CoRR, 2019
CREATE: Cohort Retrieval Enhanced by Analysis of Text from Electronic Health Records using OMOP Common Data Model.
CoRR, 2019
Overview of the BioCreative VI Precision Medicine Track: mining protein interactions and mutations for precision medicine.
Database J. Biol. Databases Curation, 2019
Proceedings of the Biocomputing 2019: Proceedings of the Pacific Symposium, 2019
Relationship Between Very Cold Outside Weather and Surgical Outcome: Integrating Shallow and Deep Artificial Neural Nets.
Proceedings of the MEDINFO 2019: Health and Wellbeing e-Networks for All, 2019
Developing Customizable Cancer Information Extraction Modules for Pathology Reports Using CLAMP.
Proceedings of the MEDINFO 2019: Health and Wellbeing e-Networks for All, 2019
Proceedings of the 2019 IEEE International Conference on Healthcare Informatics, 2019
Proceedings of the 2019 IEEE International Conference on Big Data (IEEE BigData), 2019
Artificial intelligence to organize patient portal messages: a journey from an ensemble deep learning text classification to rule-based named entity recognition.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019
Integrating word embedding neural networks with PubMed abstracts to extract keyword proximity of chronic diseases.
Proceedings of the 2019 IEEE EMBS International Conference on Biomedical & Health Informatics, 2019
Proceedings of the AMIA 2019, 2019
Clinical Use of an Information Retrieval Framework for Cohort Discovery from Electronic Health Records.
Proceedings of the AMIA 2019, 2019
Proceedings of the AMIA 2019, 2019
Proceedings of the AMIA 2019, 2019
Privacy-preserving and non-intrusive video recognition technique to count the number of patient room visits during patient deterioration: a simulation study.
Proceedings of the AMIA 2019, 2019
Proceedings of the AMIA 2019, 2019
A Data-Driven System for Defining Interoperable Semantic Models of Clinical Concepts using HL7 FHIR Profiles: A Proposed Framework.
Proceedings of the AMIA 2019, 2019
Adaptation of a Natural Language Processing Algorithm Following Implementation of a New Electronic Health Record.
Proceedings of the AMIA 2019, 2019
Usability Evaluation of a Clinical Decision Support Tool for Management of Peripheral Artery Disease Patients.
Proceedings of the AMIA 2019, 2019
2018
Using data-driven sublanguage pattern mining to induce knowledge models: application in medical image reports knowledge representation.
BMC Medical Informatics Decis. Mak., 2018
Preliminary exploration of survival analysis using the OHDSI common data model: a case study of intrahepatic cholangiocarcinoma.
BMC Medical Informatics Decis. Mak., 2018
J. Biomed. Informatics, 2018
J. Biomed. Informatics, 2018
CLAMP - a toolkit for efficiently building customized clinical natural language processing pipelines.
J. Am. Medical Informatics Assoc., 2018
Clinical documentation variations and NLP system portability: a case study in asthma birth cohorts across institutions.
J. Am. Medical Informatics Assoc., 2018
Natural language processing of clinical notes for identification of critical limb ischemia.
Int. J. Medical Informatics, 2018
A Deep Representation Empowered Distant Supervision Paradigm for Clinical Information Extraction.
CoRR, 2018
Database J. Biol. Databases Curation, 2018
Improving the Accuracy of a Clinical Decision Support System for Cervical Cancer Screening and Surveillance.
Appl. Clin. Inform., 2018
MayoNLPTeam at the TREC 2018 Precision Medicine Track: Simple Information Retrieval Approach Is the Best.
Proceedings of the Twenty-Seventh Text REtrieval Conference, 2018
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018
A Comparison of Lifestyle Interventions for Alzheimer's Disease Extracted from Clinical Notes and Literature.
Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018
Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018
Identification of Genetic Causality Statements in Medline Abstracts Leveraging Distant Supervision.
Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018
Automatic Extraction of Major Osteoporotic Fractures from Radiology Reports using Natural Language Processing.
Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018
Constructing Node Embeddings for Human Phenotype Ontology to Assist Phenotypic Similarity Measurement.
Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018
Annotating Cohort Data Elements with OHDSI Common Data Model to Promote Research Reproducibility.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018
Leveraging Association Rule Mining to Detect Pathophysiological Mechanisms of Chronic Kidney Disease Complicated by Metabolic Syndrome.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018
Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018
EMIRS: An Electronic Medical Information Retrieval System by Leveraging both Structured and Unstructured Electronic Health Records.
Proceedings of the AMIA 2018, 2018
Proceedings of the AMIA 2018, 2018
Combining Knowledge and Data Driven Insights to Facilitate the Differential Diagnosis of Rare Diseases.
Proceedings of the AMIA 2018, 2018
Incorporating Knowledge-Driven Insights into a Collaborative Filtering Model to Facilitate the Differential Diagnosis of Rare Diseases.
Proceedings of the AMIA 2018, 2018
Proceedings of the AMIA 2018, 2018
Leveraging Electronic Health Records for Identification of Features Associated with Sudden Death for Hypertrophic Cardiomyopathy Patients.
Proceedings of the AMIA 2018, 2018
Natural Language Processing at Scale - Perspectives from Five Healthcare Organizations.
Proceedings of the AMIA 2018, 2018
Standardizing Heterogeneous Annotation Corpora Using HL7 FHIR for Facilitating their Reuse and Integration in Clinical NLP.
Proceedings of the AMIA 2018, 2018
Natural Language Processing for the Identification of Silent Brain Infractions from Neuroimaging Reports.
Proceedings of the AMIA 2018, 2018
Leveraging the Electronic Health Record to Create an Automated Real-time Prognostic Tool for Peripheral Arterial Disease.
Proceedings of the AMIA 2018, 2018
Proceedings of the AMIA 2018, 2018
2017
J. Assoc. Inf. Sci. Technol., 2017
Int. J. Medical Informatics, 2017
Comput. Sci. Inf. Syst., 2017
Leveraging word embeddings and medical entity extraction for biomedical dataset retrieval using unstructured texts.
Database J. Biol. Databases Curation, 2017
BELMiner: adapting a rule-based relation extraction system to extract biological expression language statements from bio-medical literature evidence sentences.
Database J. Biol. Databases Curation, 2017
Leveraging both Structured and Unstructured Data for Precision Information Retrieval.
Proceedings of The Twenty-Sixth Text REtrieval Conference, 2017
MayoNLP at SemEval 2017 Task 10: Word Embedding Distance Pattern for Keyphrase Classification in Scientific Publications.
Proceedings of the 11th International Workshop on Semantic Evaluation, 2017
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Analysis of Clinical Variations in Asthma Care Documented in Electronic Health Records Between Staff and Resident Physicians.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Proceedings of the 2017 IEEE International Conference on Healthcare Informatics, 2017
Proceedings of the 2017 IEEE International Conference on Healthcare Informatics, 2017
Locally Generated Bayesian Network Prediction of Colorectal Surgical Site Infections.
Proceedings of the Summit on Clinical Research Informatics, 2017
Prediction of Organ Space Colorectal Surgical Site Infections Using Prognostic Bayesian Networks.
Proceedings of the Summit on Clinical Research Informatics, 2017
Proceedings of the Summit on Clinical Research Informatics, 2017
Proceedings of the Summit on Clinical Research Informatics, 2017
Using ensembles of NLP engines without a common type system to improve abbreviation disambiguation.
Proceedings of the Summit on Clinical Research Informatics, 2017
Proceedings of the Summit on Clinical Research Informatics, 2017
Surveillance of Peripheral Arterial Disease Cases Using Natural Language Processing of Clinical Notes.
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.
Proceedings of the Summit on Clinical Research Informatics, 2017
Medical concept intersection between outside medical records and consultant notes: A case study in transferred cardiovascular patients.
Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017
Dependency and AMR Embeddings for Drug-Drug Interaction Extraction from Biomedical Literature.
Proceedings of the 8th ACM International Conference on Bioinformatics, 2017
Recommending education materials for diabetic questions using information retrieval approaches.
Proceedings of the AMIA 2017, 2017
Semantic Representations of Medical Terms: A Comparison Study of Word Embeddings Trained on Clinical Notes and PubMed Articles.
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
Identification of Clinically Meaningful Plasma Transfusion Subgroups Using Unsupervised Random Forest Clustering.
Proceedings of the AMIA 2017, 2017
Distinction between medical and non-medical usages of short forms in clinical narratives.
Proceedings of the AMIA 2017, 2017
Guideline Based Recommended Therapies in PAD Patients Identified by NLP: A Quality Assessment Project.
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
2016
计算机科学, 2016
J. Biomed. Informatics, 2016
A computational framework for converting textual clinical diagnostic criteria into the quality data model.
J. Biomed. Informatics, 2016
J. Am. Medical Informatics Assoc., 2016
Erratum to: Text mining facilitates database curation - extraction of mutation-disease associations from Bio-medical literature.
BMC Bioinform., 2016
Database J. Biol. Databases Curation, 2016
Exploiting HPO to Predict a Ranked List of Phenotype Categories for LiverTox Case Reports.
Proceedings of the Data Management and Analytics for Medicine and Healthcare, 2016
An Ensemble Model of Clinical Information Extraction and Information Retrieval for Clinical Decision Support.
Proceedings of The Twenty-Fifth Text REtrieval Conference, 2016
MayoNLP at SemEval-2016 Task 1: Semantic Textual Similarity based on Lexical Semantic Net and Deep Learning Semantic Model.
Proceedings of the 10th International Workshop on Semantic Evaluation, 2016
Staggered NLP-assisted refinement for Clinical Annotations of Chronic Disease Events.
Proceedings of the Tenth International Conference on Language Resources and Evaluation LREC 2016, 2016
Proceedings of the Tenth International Conference on Language Resources and Evaluation LREC 2016, 2016
LabLinker: Finding Links of Laboratory Test Results between Structured Records and Clinical Notes.
Proceedings of the 2016 IEEE International Conference on Healthcare Informatics, 2016
MutD - A PubMed Scale Resource for Protein Mutation-Disease Relations through Bio-Medical Literature Mining.
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016
POS-MRF: A Part-Of-Speech Weighted Markov Random Field Model for Clinical Information Retrieval.
Proceedings of the Summit on Clinical Research Informatics, 2016
Proceedings of the Summit on Clinical Research Informatics, 2016
Exploring Gaps of Family History Documentation in EHR for Precision Medicine - A Case Study of Familial Hypercholesterolemia Ascertainment.
Proceedings of the Summit on Clinical Research Informatics, 2016
Proceedings of the Summit on Clinical Research Informatics, 2016
Proceedings of the Working Notes of CLEF 2016, 2016
Proceedings of the Working Notes of CLEF 2016, 2016
Answering diabetic patients' questions using expert-vetted online resources: A case study.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016
Proceedings of the 2016 IEEE-EMBS International Conference on Biomedical and Health Informatics, 2016
Identifying peripheral arterial disease cases using natural language processing of clinical notes.
Proceedings of the 2016 IEEE-EMBS International Conference on Biomedical and Health Informatics, 2016
Prioritizing Adverse Drug Reaction and Drug Repositioning Candidates Generated by Literature-Based Discovery.
Proceedings of the 7th ACM International Conference on Bioinformatics, 2016
Answering patients' questions using expert-vetted online resources: A case study of diabetes.
Proceedings of the AMIA 2016, 2016
Proceedings of the AMIA 2016, 2016
Proceedings of the AMIA 2016, 2016
Proceedings of the AMIA 2016, 2016
Proceedings of the AMIA 2016, 2016
Leveraging Terminology Services for Extract-Transform-Load Processes: A User-Centered Approach.
Proceedings of the AMIA 2016, 2016
Natural Language Processing Working Group Pre-Symposium: Graduate Student Consortium and 'Hackathon'.
Proceedings of the AMIA 2016, 2016
Drug-drug Interaction Detection with A Topic-modeling Based Framework Augmented with Distant-supervision.
Proceedings of the AMIA 2016, 2016
A Topic-modeling Based Framework for Drug-drug Interaction Classification from Biomedical Text.
Proceedings of the AMIA 2016, 2016
Ontology-Based Analysis of Adverse Drug Reactions Associated with Anti-infection Drugs in China.
Proceedings of the AMIA 2016, 2016
2015
BMC Medical Informatics Decis. Mak., December, 2015
J. Cheminformatics, 2015
Ease of adoption of clinical natural language processing software: An evaluation of five systems.
J. Biomed. Informatics, 2015
DEEPEN: A negation detection system for clinical text incorporating dependency relation into NegEx.
J. Biomed. Informatics, 2015
Validating drug repurposing signals using electronic health records: a case study of metformin associated with reduced cancer mortality.
J. Am. Medical Informatics Assoc., 2015
Text mining facilitates database curation - extraction of mutation-disease associations from Bio-medical literature.
BMC Bioinform., 2015
BioData Min., 2015
Cancer based pharmacogenomics network supported with scientific evidences: from the view of drug repurposing.
BioData Min., 2015
Mining severe drug-drug interaction adverse events using Semantic Web technologies: a case study.
BioData Min., 2015
Assessing the Need of Discourse-Level Analysis in Identifying Evidence of Drug-Disease Relations in Scientific Literature.
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
Identification of Patients with Family History of Pancreatic Cancer - Investigation of an NLP System Portability.
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
A Frequency-based Strategy of Obtaining Sentences from Clinical Data Repository for Crowdsourcing.
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
Proceedings of the 2015 International Conference on Healthcare Informatics, 2015
Proceedings of the 2015 International Conference on Healthcare Informatics, 2015
Representing Clinical Diagnostic Criteria in Quality Data Model Using Natural Language Processing.
Proceedings of the Workshop on Biomedical Natural Language Processing, BioNLP@IJCNLP 2015, 2015
Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015
A new method for prioritizing drug repositioning candidates extracted by literature-based discovery.
Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015
A frequency-filtering strategy of obtaining PHI-free sentences from clinical data repository.
Proceedings of the 6th ACM Conference on Bioinformatics, 2015
Proceedings of the AMIA 2015, 2015
Detection of Colorectal Surgical Site Infections Using Bayesian Network and Natural Language Processing.
Proceedings of the AMIA 2015, 2015
Automating risk score calculations and care recommendations by an EMR agnostic solution and potential time saving for providers.
Proceedings of the AMIA 2015, 2015
Natural Language Processing facilitates delivery of individualized recommendations at the point of care.
Proceedings of the AMIA 2015, 2015
Proceedings of the AMIA 2015, 2015
Exploring Gaps of Family History Documentation in EHR for Precision Medicine - A Case Study of Familial Hypercholesterolemia Ascertainment.
Proceedings of the AMIA 2015, 2015
Proceedings of the AMIA 2015, 2015
Proceedings of the AMIA 2015, 2015
2014
Using large clinical corpora for query expansion in text-based cohort identification.
J. Biomed. Informatics, 2014
Research and applications: Patient-level temporal aggregation for text-based asthma status ascertainment.
J. Am. Medical Informatics Assoc., 2014
Research and applications: MedXN: an open source medication extraction and normalization tool for clinical text.
J. Am. Medical Informatics Assoc., 2014
Network-based analysis reveals distinct association patterns in a semantic MEDLINE-based drug-disease-gene network.
J. Biomed. Semant., 2014
Detecting concept mentions in biomedical text using hidden Markov model: multiple concept types at once or one at a time?
J. Biomed. Semant., 2014
Integrating information retrieval with distant supervision for Gene Ontology annotation.
Database J. Biol. Databases Curation, 2014
Database J. Biol. Databases Curation, 2014
Proceedings of the Biocomputing 2014: Proceedings of the Pacific Symposium, 2014
Proceedings of the Trends and Applications in Knowledge Discovery and Data Mining, 2014
Proceedings of the Trends and Applications in Knowledge Discovery and Data Mining, 2014
Genetic testing knowledge base (GTKB) towards individualized genetic test recommendation - An experimental study.
Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014
Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014
Using semantic web technologies for quality measure phenotyping algorithm representation and automatic execution on EHR data.
Proceedings of IEEE-EMBS International Conference on Biomedical and Health Informatics, 2014
Challenges in adapting text mining for full text articles to assist pathway curation.
Proceedings of the 5th ACM Conference on Bioinformatics, 2014
Proceedings of the 5th ACM Conference on Bioinformatics, 2014
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Reducing the Screening Burden of Systematic Review with a Multiple-level Relevance Ranking System.
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
2013
Research and applications: Formative evaluation of the accuracy of a clinical decision support system for cervical cancer screening.
J. Am. Medical Informatics Assoc., 2013
Comprehensive temporal information detection from clinical text: medical events, time, and TLINK identification.
J. Am. Medical Informatics Assoc., 2013
Automatically extracting sentences from Medline citations to support clinicians' information needs.
J. Am. Medical Informatics Assoc., 2013
Network-based analysis of vaccine-related associations reveals consistent knowledge with the vaccine ontology.
J. Biomed. Semant., 2013
J. Biomed. Semant., 2013
Proceedings of the Second Joint Conference on Lexical and Computational Semantics, 2013
Automatic Identification of Comparative Effectiveness Research from Medline Citations to Support Clinicians' Treatment Information Needs.
Proceedings of the MEDINFO 2013, 2013
Proceedings of the MEDINFO 2013, 2013
Building a Knowledge Base of Severe Adverse Drug Events Based on AERS Reporting Data Using Semantic Web Technologies.
Proceedings of the MEDINFO 2013, 2013
Proceedings of the Smart Health - International Conference, 2013
Analysis of Vaccine-related Networks using Semantic MEDLINE and the Vaccine Ontology.
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
Proceedings of the Working Notes for CLEF 2013 Conference , 2013
Proceedings of the first Workshop on Bio-Medical Semantic Indexing and Question Answering, 2013
Proceedings of the Working Notes for CLEF 2013 Conference , 2013
An integrative computational approach to identify disease-specific networks from PubMed literature information.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013
Prioritizing journals relevant to a topic for addressing clinicians' information needs.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013
Decision Support can Improve Time Efficiency of Healthcare Providers for Deciding Preventive Care Recommendations.
Proceedings of the AMIA 2013, 2013
Proceedings of the AMIA 2013, 2013
Proceedings of the AMIA 2013, 2013
Proceedings of the AMIA 2013, 2013
Prioritize journals relevant to a clinical topic: A survey of US cardiologists about heart failure.
Proceedings of the AMIA 2013, 2013
2012
Unified Medical Language System term occurrences in clinical notes: a large-scale corpus analysis.
J. Am. Medical Informatics Assoc., 2012
Clinical decision support with automated text processing for cervical cancer screening.
J. Am. Medical Informatics Assoc., 2012
Coreference analysis in clinical notes: a multi-pass sieve with alternate anaphora resolution modules.
J. Am. Medical Informatics Assoc., 2012
Proceedings of The Twenty-First Text REtrieval Conference, 2012
Clinical Decision Support for Colonoscopy Surveillance Using Natural Language Processing.
Proceedings of the 2012 IEEE Second International Conference on Healthcare Informatics, 2012
Systematic Analysis of Cross-Institutional Medication Description Patterns in Clinical Notes.
Proceedings of the 2012 IEEE Second International Conference on Healthcare Informatics, 2012
Modeling UIMA type system using web ontology language: towards interoperability among UIMA-based NLP tools.
Proceedings of the 2nd International Workshop on Managing Interoperability and compleXity in Health Systems, 2012
Ontology-Based Temporal Relation Modeling with MapReduce Latent Dirichlet Allocations for Big EHR Data.
Proceedings of the 2012 Second International Conference on Cloud and Green Computing, 2012
Classifying protein complexes from candidate subgraphs using fuzzy machine learning model.
Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012
Electronic health record data suggests metformin improves cancer survival: A new model for drug repurposing studies.
Proceedings of the AMIA 2012, 2012
Proceedings of the AMIA 2012, 2012
Proceedings of the AMIA 2012, 2012
Proceedings of the AMIA 2012, 2012
Clinical Decision Support with Natural Language Processing for Cervical Cancer Screening.
Proceedings of the AMIA 2012, 2012
Proceedings of the AMIA 2012, 2012
A Study of Transportability of an Existing Smoking Status Detection Module across Institutions.
Proceedings of the AMIA 2012, 2012
Using Electronic Health Records to Identify Heart Failure Cohorts with Differentiation for Preserved and Reduced Ejection Fraction.
Proceedings of the AMIA 2012, 2012
2011
Using machine learning for concept extraction on clinical documents from multiple data sources.
J. Am. Medical Informatics Assoc., 2011
An exploratory study of a text classification framework for Internet-based surveillance of emerging epidemics.
Int. J. Medical Informatics, 2011
RedundancyMiner: De-replication of redundant GO categories in microarray and proteomics analysis.
BMC Bioinform., 2011
BMC Bioinform., 2011
Proceedings of The Twentieth Text REtrieval Conference, 2011
Proceedings of the Information Computing and Applications, 2011
Learning from positive and unlabeled documents for automated detection of alternative splicing sentences in medline abstracts.
Proceedings of the 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2011
Proceedings of the ACM International Conference on Bioinformatics, 2011
2010
Int. J. Funct. Informatics Pers. Medicine, 2010
Int. J. Comput. Model. Algorithms Medicine, 2010
Empir. Softw. Eng., 2010
Artif. Intell. Medicine, 2010
Proceedings of the Fourth International Symposium for Semantic Mining in Biomedicine, 2010
Proceedings of the ACM International Health Informatics Symposium, 2010
2009
An Investigation into the Functional Form of the Size-Defect Relationship for Software Modules.
IEEE Trans. Software Eng., 2009
J. Am. Medical Informatics Assoc., 2009
Semi-supervised Learning of Text Classification on Bacterial Protein-Protein Interaction Documents.
Proceedings of the International Joint Conferences on Bioinformatics, 2009
Proceedings of the CSIE 2009, 2009 WRI World Congress on Computer Science and Information Engineering, March 31, 2009
Proceedings of the Proceedings 22nd Conference on Software Engineering Education and Training, 2009
Support Vector Machine-Based Mucin-Type O-linked Glycosylation Site Prediction Using Enhanced Sequence Feature Encoding.
Proceedings of the AMIA 2009, 2009
2008
SpliceCenter: A suite of web-based bioinformatic applications for evaluating the impact of alternative splicing on RT-PCR, RNAi, microarray, and peptide-based studies.
BMC Bioinform., 2008
VennMaster: Area-proportional Euler diagrams for functional GO analysis of microarrays.
BMC Bioinform., 2008
Learning from Positive and Unlabeled Documents for Retrieval of Bacterial Protein-Protein Interaction Literature.
Proceedings of the Linking Literature, Information, and Knowledge for Biology, 2008
Proceedings of the 4th international workshop on End-user software engineering, 2008
Analysis of Microarray Titration Experiments.
Proceedings of the International Conference on Bioinformatics & Computational Biology, 2008
Proceedings of the 2008 IEEE International Conference on Bioinformatics and Biomedicine, 2008
Proceedings of the 2008 IEEE International Conference on Bioinformatics and Biomedicine, 2008
Proceedings of the AMIA 2008, 2008
2007
Identifying and characterizing change-prone classes in two large-scale open-source products.
J. Syst. Softw., 2007
A comparison study on algorithms of detecting long forms for short forms in biomedical text.
BMC Bioinform., 2007
SpliceMiner: a high-throughput database implementation of the NCBI Evidence Viewer for microarray splice variant analysis.
BMC Bioinform., 2007
AffyProbeMiner: a web resource for computing or retrieving accurately redefined Affymetrix probe sets.
Bioinform., 2007
Exploring Traits of Adjectives to Predict Polarity Opinion in Blogs and Semantic Filters in Genomics.
Proceedings of The Sixteenth Text REtrieval Conference, 2007
Effect of Coupling on Defect Proneness in Evolutionary Open-Source Software Development.
Proceedings of the Open Source Development, 2007
Proceedings of the Short Paper Proceedings of the 2nd International Symposium on Languages in Biology and Medicine (LBM 2007), 2007
Proceedings of the 29th International Conference on Software Engineering (ICSE 2007), 2007
Proceedings of the Workshops Proceedings of the 7th IEEE International Conference on Data Mining (ICDM 2007), 2007
Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, 2007
Proceedings of the AMIA 2007, 2007
2006
Terminology model discovery using natural language processing and visualization techniques.
J. Biomed. Informatics, 2006
Research Paper: Quantitative Assessment of Dictionary-based Protein Named Entity Tagging.
J. Am. Medical Informatics Assoc., 2006
Machine learning and word sense disambiguation in the biomedical domain: design and evaluation issues.
BMC Bioinform., 2006
Proceedings of the Knowledge Discovery in Life Science Literature, 2006
2005
An investigation of the effect of module size on defect prediction using static measures.
ACM SIGSOFT Softw. Eng. Notes, 2005
BMC Bioinform., 2005
Fusion of Knowledge-Intensive and Statistical Approaches for Retrieving and Annotating Textual Genomics Documents.
Proceedings of the Fourteenth Text REtrieval Conference, 2005
Proceedings of the ACL 2005, 2005
2004
Research Paper: A Multi-aspect Comparison Study of Supervised Word Sense Disambiguation.
J. Am. Medical Informatics Assoc., 2004
Comput. Biol. Chem., 2004
Knowledge-Intensive and Statistical Approaches to the Retrieval and Annotation of Genomics MEDLINE Citations.
Proceedings of the Thirteenth Text REtrieval Conference, 2004
Proceedings of the Biocomputing 2004, 2004
CliniViewer: A Tool for Viewing Electronic Medical Records Based on Natural Language Processing and XML.
Proceedings of the MEDINFO 2004, 2004
Proceedings of the 7th International Symposium on Parallel Architectures, 2004
Proceedings of the 4th IEEE International Symposium on BioInformatics and BioEngineering (BIBE 2004), 2004
2003
A vocabulary development and visualization tool based on natural language processing and the mining of textual patient reports.
J. Biomed. Informatics, 2003
Proceedings of the 8th Pacific Symposium on Biocomputing, 2003
2002
Research Paper: Automatic Resolution of Ambiguous Terms Based on Machine Learning and Conceptual Relations in the UMLS.
J. Am. Medical Informatics Assoc., 2002
2001
Disambiguating Ambiguous Biomedical Terms in Biomedical Narrative Text: An Unsupervised Method.
J. Biomed. Informatics, 2001
Evaluating the UMLS as a source of lexical knowledge for medical language processing.
Proceedings of the AMIA 2001, 2001
2000
A method for vocabulary development and visualization based on medical language processing and XML.
Proceedings of the AMIA 2000, 2000
1999
Research Paper: Representing Information in Patient Reports Using Natural Language Processing and the Extensible Markup Language.
J. Am. Medical Informatics Assoc., 1999
Proceedings of the 1999 International Symposium on Circuits and Systems, ISCAS 1999, Orlando, Florida, USA, May 30, 1999