Meliha Yetisgen

J. Am. Medical Informatics Assoc., 2024

Does Data Contamination Detection Work (Well) for LLMs? A Survey and Evaluation on Detection Assumptions.

[BibT_eX]

[DOI]

CoRR, 2024

BioMistral-NLU: Towards More Generalizable Medical Language Understanding through Instruction Tuning.

[BibT_eX]

[DOI]

Yujuan Fu

CoRR, 2024

Large Language Model Capabilities in Perioperative Risk Prediction and Prognostication.

[BibT_eX]

[DOI]

Vikas N. O'Reilly-Shah

CoRR, 2024

DermaVQA: A Multilingual Visual Question Answering Dataset for Dermatology.

[BibT_eX]

[DOI]

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2024, 2024

Advancing Multimedia Retrieval in Medical, Social Media and Content Recommendation Applications with ImageCLEF 2024.

[BibT_eX]

[DOI]

Proceedings of the Advances in Information Retrieval, 2024

To Err Is Human, How about Medical Large Language Models? Comparing Pre-trained Language Models for Medical Assessment Errors and Reliability.

[BibT_eX]

[DOI]

Proceedings of the 2024 Joint International Conference on Computational Linguistics, 2024

A Novel Corpus of Annotated Medical Imaging Reports and Information Extraction Results Using BERT-based Language Models.

[BibT_eX]

[DOI]

Namu Park

Proceedings of the 2024 Joint International Conference on Computational Linguistics, 2024

Extracting Social Determinants of Health from Pediatric Patient Notes Using Large Language Models: Novel Corpus and Methods.

[BibT_eX]

[DOI]

Yujuan Fu

Proceedings of the 2024 Joint International Conference on Computational Linguistics, 2024

Overview of the MEDIQA-MAGIC Task at ImageCLEF 2024: Multimodal And Generative TelemedICine in Dermatology.

[BibT_eX]

[DOI]

Proceedings of the Working Notes of the Conference and Labs of the Evaluation Forum (CLEF 2024), 2024

Overview of the ImageCLEF 2024: Multimedia Retrieval in Medical Applications.

[BibT_eX]

[DOI]

Proceedings of the Experimental IR Meets Multilinguality, Multimodality, and Interaction, 2024

Is That the Right Dose? Investigating Generative Language Model Performance on Veterinary Prescription Text Analysis.

[BibT_eX]

[DOI]

Proceedings of the 23rd Workshop on Biomedical Natural Language Processing, 2024

Overview of the MEDIQA-M3G 2024 Shared Task on Multilingual Multimodal Medical Answer Generation.

[BibT_eX]

[DOI]

Proceedings of the 6th Clinical Natural Language Processing Workshop, 2024

Overview of the MEDIQA-CORR 2024 Shared Task on Medical Error Detection and Correction.

[BibT_eX]

[DOI]

Proceedings of the 6th Clinical Natural Language Processing Workshop, 2024

2023

Improving model transferability for clinical note section classification models using continued pretraining.

[BibT_eX]

[DOI]

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

LeafAI: query generator for clinical cohort discovery rivaling a human programmer.

[BibT_eX]

[DOI]

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

The 2022 n2c2/UW shared task on extracting social determinants of health.

[BibT_eX]

[DOI]

Özlem Uzuner

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

Advancements in extracting social determinants of health information from narrative text.

[BibT_eX]

[DOI]

Oliver J. Bear Don't Walk IV

Özlem Uzuner

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

Leveraging natural language processing to augment structured social determinants of health data in the electronic health record.

[BibT_eX]

[DOI]

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

Extracting medication changes in clinical narratives using pre-trained language models.

[BibT_eX]

[DOI]

J. Biomed. Informatics, March, 2023

Event-Based Clinical Finding Extraction from Radiology Reports with Pre-trained Language Model.

[BibT_eX]

[DOI]

J. Digit. Imaging, February, 2023

Backdoor Adjustment of Confounding by Provenance for Robust Text Classification of Multi-institutional Clinical Notes.

[BibT_eX]

[DOI]

CoRR, 2023

ACI-BENCH: a Novel Ambient Clinical Intelligence Dataset for Benchmarking Automatic Visit Note Generation.

[BibT_eX]

[DOI]

CoRR, 2023

ImageCLEF 2023 Highlight: Multimedia Retrieval in Medical, Social Media and Content Recommendation Applications.

[BibT_eX]

[DOI]

Proceedings of the Advances in Information Retrieval, 2023

Overview of the MEDIQA-Sum Task at ImageCLEF 2023: Summarization and Classification of Doctor-Patient Conversations.

[BibT_eX]

[DOI]

Proceedings of the Working Notes of the Conference and Labs of the Evaluation Forum (CLEF 2023), 2023

Overview of the ImageCLEF 2023: Multimedia Retrieval in Medical, Social Media and Internet Applications.

[BibT_eX]

[DOI]

Proceedings of the Experimental IR Meets Multilinguality, Multimodality, and Interaction, 2023

Building blocks for complex tasks: Robust generative event extraction for radiology reports under domain shifts.

[BibT_eX]

[DOI]

Sitong Zhou

Proceedings of the 5th Clinical Natural Language Processing Workshop, 2023

Prompt-based Extraction of Social Determinants of Health Using Few-shot Learning.

[BibT_eX]

[DOI]

Proceedings of the 5th Clinical Natural Language Processing Workshop, 2023

Overview of the MEDIQA-Chat 2023 Shared Tasks on the Summarization & Generation of Doctor-Patient Conversations.

[BibT_eX]

[DOI]

Proceedings of the 5th Clinical Natural Language Processing Workshop, 2023

2022

Call for papers: Special issue on clinical natural language processing for secondary use applications.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2022

Leveraging Natural Language Processing to Augment Structured Social Determinants of Health Data in the Electronic Health Record.

[BibT_eX]

[DOI]

CoRR, 2022

Generalizing through Forgetting - Domain Generalization for Symptom Event Extraction in Clinical Notes.

[BibT_eX]

[DOI]

CoRR, 2022

The Leaf Clinical Trials Corpus: a new resource for query generation from clinical trial eligibility criteria.

[BibT_eX]

[DOI]

CoRR, 2022

A Corpus of Radiology Reports From Multiple Imaging Modalities With Fine-grained Event-based Annotations.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2022, 2022

2021

Annotating social determinants of health using active learning, and characterizing determinants using neural event extraction.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2021

Extracting COVID-19 diagnoses and symptoms from clinical text: A new annotated corpus and neural event extraction framework.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2021

Transferability of neural network clinical deidentification systems.

[BibT_eX]

[DOI]

J. Am. Medical Informatics Assoc., 2021

Event-based clinical findings extraction from radiology reports with pre-trained language model.

[BibT_eX]

[DOI]

CoRR, 2021

Extracting Radiological Findings With Normalized Anatomical Information Using a Span-Based BERT Relation Extraction Model.

[BibT_eX]

[DOI]

CoRR, 2021

Performance of Automatic De-identification Across Different Note Types.

[BibT_eX]

[DOI]

CoRR, 2021

Transferability of Neural Network-based De-identification Systems.

[BibT_eX]

[DOI]

CoRR, 2021

Comparison of Three Phrase Chunking Approaches on Medical Concept Coverage in Clinical Text.

[BibT_eX]

[DOI]

Grace K. Turner

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

An exploration of information extraction models on transcribed patient visits.

[BibT_eX]

[DOI]

Erica Qiao

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

Identifying ARDS using the Hierarchical Attention Network with Sentence Objectives Framework.

[BibT_eX]

[DOI]

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

A New Corpus for Clinical Findings in Radiology Reports.

[BibT_eX]

[DOI]

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

Automatic Assignment of Radiology Examination Protocols Using Pre-trained Language Models with Knowledge Distillation.

[BibT_eX]

[DOI]

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

Automatic Detection of Surgical Site Infections Using EHR Data.

[BibT_eX]

[DOI]

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

2020

Predicting severe clinical events by learning about life-saving actions and outcomes using distant supervision.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2020

Alignment Annotation for Clinic Visit Dialogue to Clinical Note Sentence Language Generation.

[BibT_eX]

[DOI]

Proceedings of The 12th Language Resources and Evaluation Conference, 2020

A Novel Corpus With Detailed Annotations of Social Determinants of Health.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2020, 2020

Jointly Learning Clinical Entities and Relations with Contextual Language Models and Explicit Context.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2020, 2020

2019

Extraction and Analysis of Clinically Important Follow-up Recommendations in a Large Radiology Dataset.

[BibT_eX]

[DOI]

CoRR, 2019

Automatic Identification of Social Determinants of Health from Clinical Records.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2019, 2019

2018

Asynchronous Speech Recognition Affects Physician Editing of Notes.

[BibT_eX]

[DOI]

Appl. Clin. Inform., 2018

Hierarchical Attention-Based Prediction Model for Discovering the Persistence of Chronic Opioid Therapy from a large Clinical Dataset.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2018, 2018

Using Neural Multi-task Learning to Extract Substance Abuse Information from Clinical Notes.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2018, 2018

Learning about Life-Saving Interventions to Predict the Risk of Acute Organ Failures.

[BibT_eX]

[DOI]

Dae Hyun Lee

Eric Horvitz

Proceedings of the AMIA 2018, 2018

2017

Classifying tumor event attributes in radiology reports.

[BibT_eX]

[DOI]

J. Assoc. Inf. Sci. Technol., 2017

Automatic Liver Cancer Stage Prediction From Free-Text Clinical Notes.

[BibT_eX]

[DOI]

Proceedings of the Summit on Clinical Research Informatics, 2017

Automatic Identification of Substance Abuse Events from Clinical Text.

[BibT_eX]

[DOI]

Proceedings of the Summit on Clinical Research Informatics, 2017

Clinical Event Detection with Hybrid Neural Architecture.

[BibT_eX]

[DOI]

Adyasha Maharana

Proceedings of the BioNLP 2017, Vancouver, Canada, August 4, 2017, 2017

Classification of hepatocellular carcinoma stages from free-text clinical and radiology reports.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2017, 2017

Improving Electronic Inpatient Progress Notes Using Voice: Results from the VGEENS Project.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2017, 2017

Automatically Detecting Likely Edits in Clinical Notes Created Using Automatic Speech Recognition.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2017, 2017

Clustering Vital Sign Observations Using Unsupervised Random Forest.

[BibT_eX]

[DOI]

Dae Hyun Lee

Proceedings of the AMIA 2017, 2017

Automatic Identification of Substance Abuse from Social History in Clinical Text.

[BibT_eX]

[DOI]

Proceedings of the Artificial Intelligence in Medicine, 2017

2016

Tumor reference resolution and characteristic extraction in radiology reports for liver cancer stage prediction.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2016

Annotating and Detecting Medical Events in Clinical Notes.

[BibT_eX]

[DOI]

Prescott Klassen

Proceedings of the Tenth International Conference on Language Resources and Evaluation LREC 2016, 2016

Tumor Information Extraction in Radiology Reports for Hepatocellular Carcinoma Patients.

[BibT_eX]

[DOI]

Proceedings of the Summit on Clinical Research Informatics, 2016

A New Way of Representing Clinical Reports for Rapid Phenotyping.

[BibT_eX]

[DOI]

Proceedings of the Summit on Clinical Research Informatics, 2016

Automatic Identification of Lifestyle and Environmental Factors from Social History in Clinical Text.

[BibT_eX]

[DOI]

Proceedings of the Summit on Clinical Research Informatics, 2016

Identification of an Acute Kidney Injury Phenotype from Electronic Health Record Data.

[BibT_eX]

[DOI]

Michael G. Semanik

Ari Pollack

Proceedings of the Summit on Clinical Research Informatics, 2016

Annotation of Tumor Reference Resolution and Tumor Characteristics for Cancer Liver Stage Prediction.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2016, 2016

2015

Annotation of Disease Characteristics for Cancer Liver Stage Prediction.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2015, 2015

Annotating Recommendation Sentences in Radiology Reports.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2015, 2015

In-depth annotation for patient level liver cancer staging.

[BibT_eX]

[DOI]

Proceedings of the Sixth International Workshop on Health Text Mining and Information Analysis, 2015

Annotation of Clinically Important Follow-up Recommendations in Radiology Reports.

[BibT_eX]

[DOI]

Proceedings of the Sixth International Workshop on Health Text Mining and Information Analysis, 2015

2014

Annotating Clinical Events in Text Snippets for Phenotype Detection.

[BibT_eX]

[DOI]

Proceedings of the Ninth International Conference on Language Resources and Evaluation, 2014

Biomedical/Clinical NLP.

[BibT_eX]

[DOI]

Özlem Uzuner

Amber Stubbs

Proceedings of the COLING 2014, 2014

Improving Literature-Based Discovery with Advanced Text Mining.

[BibT_eX]

[DOI]

Anna Korhonen

Yufan Guo

Simon Baker

Ulla Stenius

Masashi Narita

Pietro Liò

Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2014

A New Corpus for Structured Microbiology Results.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2014, 2014

2013

A text processing pipeline to extract recommendations from radiology reports.

[BibT_eX]

[DOI]

Martin L. Gunn

Thomas H. Payne

J. Biomed. Informatics, 2013

Text classification for assisting moderators in online health communities.

[BibT_eX]

[DOI]

Jina Huh

J. Biomed. Informatics, 2013

Assertion modeling and its role in clinical phenotype identification.

[BibT_eX]

[DOI]

Cosmin Adrian Bejan

J. Biomed. Informatics, 2013

Annotating Change of State for Clinical Events.

[BibT_eX]

[DOI]

Proceedings of the Workshop on Events: Definition, 2013

Identification of Patients with Acute Lung Injury from Free-Text Chest X-Ray Reports.

[BibT_eX]

[DOI]

Cosmin Bejan

Mark M. Wurfel

Proceedings of the 2013 Workshop on Biomedical Natural Language Processing, 2013

On-time clinical phenotype prediction based on narrative reports.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2013, 2013

2012

Pneumonia identification using statistical feature selection.

[BibT_eX]

[DOI]

J. Am. Medical Informatics Assoc., 2012

Statistical Section Segmentation in Free-Text Clinical Records.

[BibT_eX]

[DOI]

Proceedings of the Eighth International Conference on Language Resources and Evaluation, 2012

Brainstorming design for health: helping patients utilize patient-generated information on the web.

[BibT_eX]

[DOI]

Mark S. Ackerman

Proceedings of the CSCW '12 Computer Supported Cooperative Work, Seattle, WA, USA, February 11-15, 2012, 2012

Smoking Status Detection Across Domains.

[BibT_eX]

[DOI]

Michael Tepper

Proceedings of the AMIA 2012, 2012

Text Classification to Weave Medical Advice with Patient Experiences.

[BibT_eX]

[DOI]

Jina Huh

Proceedings of the AMIA 2012, 2012

Assessing Pneumonia Identification from Time-Ordered Narrative Reports.

[BibT_eX]

[DOI]

Cosmin Adrian Bejan

Mark M. Wurfel

Proceedings of the AMIA 2012, 2012

2011

Dynamic categorization of clinical research eligibility criteria by hierarchical clustering.

[BibT_eX]

[DOI]

Zhihui Luo

Chunhua Weng

J. Biomed. Informatics, 2011

2010

Preliminary Experiments with Amazon's Mechanical Turk for Annotating Medical Named Entities.

[BibT_eX]

[DOI]

Imre Solti

Scott R. Halgrim

Proceedings of the 2010 Workshop on Creating Speech and Language Data with Amazon's Mechanical Turk, 2010

Annotating Large Email Datasets for Named Entity Recognition with Mechanical Turk.

[BibT_eX]

[DOI]

Nolan Lawson

Kevin Eustice

Mike Perkowitz

Proceedings of the 2010 Workshop on Creating Speech and Language Data with Amazon's Mechanical Turk, 2010

2009

A new evaluation methodology for literature-based discovery systems.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2009

2008

Finding the Meaning of Medical Concept Correlations.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2008, 2008

2007

Response to ''Validating discovery in literature-based discovery".

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2007

Extracting the meaning of medical concept correlations.

[BibT_eX]

[DOI]

Proceedings of the 4th International Conference on Knowledge Capture (K-CAP 2007), 2007

2006

Using statistical and knowledge-based approaches for literature-based discovery.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2006

2005

Data mining in deductive databases using query flocks.

[BibT_eX]

[DOI]

Ismail H. Toroslu

Expert Syst. Appl., 2005

Interaction design for literature-based discovery.

[BibT_eX]

[DOI]

Meredith M. Skeels

Kiera Henning

Proceedings of the Extended Abstracts Proceedings of the 2005 Conference on Human Factors in Computing Systems, 2005

The Effect of Feature Representation on MEDLINE Document Classification.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2005, 2005

2003

LitLinker: capturing connections across the biomedical literature.

[BibT_eX]

[DOI]

Proceedings of the 2nd International Conference on Knowledge Capture (K-CAP 2003), 2003

A Study of Biomedical Concept Identification: MetaMap vs. People.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2003, 2003

2002

Data Mining in Deductive Databases Using Query Flocks: Extended Abstract.

[BibT_eX]

Ismail H. Toroslu

Proceedings of the 6th Joint Conference on Information Science, 2002

2000

Data Mining Using Query Flocks with Views.

[BibT_eX]

[DOI]