Tristan Naumann

LLaVA-Rad MIMIC-CXR Annotations

Juan Manuel Zambrano Chaves (juanza), Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Akshay Chaudhari, Serena Yeung, Curtis Langlotz, Sheng Wang, Hoifung Poon

January 2025

Publication

Attribute Structuring Improves LLM-Based Evaluation of Clinical Text Summaries

Zelalem Gero, Chandan Singh, Yiqing Xie, Sheng Zhang, Tristan Naumann, Jianfeng Gao, Hoifung Poon

NeurIPS 2024 | December 2024

DOI Publication Publication

BiomedParse: a biomedical foundation model for image parsing of everything everywhere all at once

Theodore Zhao, Yu Gu, Jianwei Yang, Naoto Usuyama, Ho Hin Lee, Tristan Naumann, Jianfeng Gao, Angela Crabtree, B. Piening, Carlo Bifulco, Mu-Hsin Wei, Hoifung Poon, Sheng Wang

June 2024

DOI Vidéo

A whole-slide foundation model for digital pathology from real-world data

Hanwen Xu, Naoto Usuyama, Jaspreet Bagga, Sheng Zhang, Rajesh Rao, Tristan Naumann, Cliff Wong, Zelalem Gero, Javier González, Yu Gu, Yanbo Xu, Mu-Hsin Wei, Wenhui Wang, Shuming Ma, Furu Wei, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Jaylen Rosemon, Tucker Bower, Soohee Lee, R. Weerasinghe, Bill Wright, Ari Robicsek, Brian Piening, Carlo Bifulco, Sheng Wang, Hoifung Poon

Nature | May 2024

Publication DOI Publication

Towards a clinically accessible radiology foundation model: open-access and lightweight, with automated evaluation

Juan Manuel Zambrano Chaves, Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Hassan Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Serena Yeung-Levy, Curtis P. Langlotz, Sheng Wang, Hoifung Poon

March 2024

Publication

BiomedCLIP: a multimodal biomedical foundation model pretrained from fifteen million scientific image-text pairs

Sheng Zhang, Yanbo Xu, Naoto Usuyama, Hanwen Xu, Jaspreet Bagga, Rob Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Andrea Tupini, Yu Wang, Matt Mazzola, Swadheen Shukla, Lars Liden, Jianfeng Gao, Matthew P Lungren, Tristan Naumann, Sheng Wang, Hoifung Poon

January 2024

Publication

TRIALSCOPE: A Unifying Causal Framework for Scaling Real-World Evidence Generation with Biomedical Language Models

Javier González, Cliff Wong, Zelalem Gero, Jaspreet Bagga, Risa Ueno, Isabel Chien, Eduard Orakvin, Emre Kiciman, Aditya Nori, R. Weerasinghe, R. Leidner, B. Piening, Tristan Naumann, C. Bifulco, Hoifung Poon

ArXiv | November 2023, Vol abs/2311.01301

DOI Publication Publication

Scaling Clinical Trial Matching Using Large Language Models: A Case Study in Oncology

Cliff Wong, Sheng Zhang, Yu Gu, Christine Moung, Jacob Abel, Naoto Usuyama, Roshanthi Weerasinghe, Brian Piening, Tristan Naumann, Carlo Bifulco, Hoifung Poon

August 2023

Publication

Distilling Large Language Models for Biomedical Knowledge Extraction: A Case Study on Adverse Drug Events

Yu Gu, Sheng Zhang, Naoto Usuyama, Yonas Woldesenbet, Cliff Wong, Praneeth Sanapathi, Mu Wei, Naveen Valluri, Erika Strandberg, Tristan Naumann, Hoifung Poon

July 2023

Publication

What are the Desired Characteristics of Calibration Sets? Identifying Correlates on Long Form Scientific Summarization

Griffin Adams, Bichlien Nguyen, Jake Smith, Yingce Xia, Shufang Xie, Anna Ostropolets, Budhaditya Deb, Yuan-Jyue Chen, Tristan Naumann, Noémie Elhadad

ACL 2023 | July 2023

Publication

Continual Contrastive Finetuning Improves Low-Resource Relation Extraction

Wenxuan Zhou, Sheng Zhang, Tristan Naumann, Muhao Chen, Hoifung Poon

ACL 2023 | May 2023

Publication

Self-Verification Improves Few-Shot Clinical Information Extraction

Zelalem Gero, Chandan Singh, Hao Cheng, Tristan Naumann, Michel Galley, Jianfeng Gao, Hoifung Poon

May 2023

Publication

Diagnosing Transformers: Illuminating Feature Spaces for Clinical Decision-Making

Aliyah R. Hsu, Yeshwanth Cherapanamjeri, Briton Park, Tristan Naumann, A. Odisho, Bin Yu

ICLR 2024 | May 2023

Publication

Large-Scale Domain-Specific Pretraining for Biomedical Vision-Language Processing

Sheng Zhang, Yanbo Xu, Naoto Usuyama, Jaspreet Bagga, Robert Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Matthew P Lungren, Tristan Naumann, Hoifung Poon

March 2023

Publication

Making the Most of Text Semantics to Improve Biomedical Vision-Language Processing

Benedikt Boecking, Naoto Usuyama, Shruthi Bannur, Daniel Coelho de Castro, Anton Schwaighofer, Stephanie Hyland, Maria Teodora Wetscherek, Tristan Naumann, Aditya Nori, Javier Alvarez-Valle, Hoifung Poon, Ozan Oktay

The European Conference on Computer Vision (ECCV) | October 2022

Preprint Vidéo Télécharger Télécharger Projet

Knowledge-Rich Self-Supervision for Biomedical Entity Linking

Sheng Zhang, Hao Cheng, Shikhar Vashishth, Cliff Wong, Jinfeng Xiao, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon

EMNLP 2022 | May 2022

Publication

Modular Self-Supervision for Document-Level Relation Extraction

Sheng Zhang, Cliff Wong, Naoto Usuyama, Sarthak Jain, Tristan Naumann, Hoifung Poon

2021 Empirical Methods in Natural Language Processing | September 2021

Publication PDF

Domain-Specific Pretraining for Vertical Search: Case Study on Biomedical Literature

Yu Wang, Jinchao Li, Tristan Naumann, Chenyan Xiong, Hao Cheng, Rob Tinn, Cliff Wong, Naoto Usuyama, Rick Rogahn, Zhihong Shen, Yang Qin, Eric Horvitz, Paul Bennett, Jianfeng Gao, Hoifung Poon

KDD 2021 | August 2021

Publication Publication Projet

Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing

Yu Gu, Robert Tinn, Hao Cheng, Michael Lucas, Naoto Usuyama, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon

August 2020

PDF Vidéo Télécharger

Leveraging text representations for clinical predictive tasks

Tristan Naumann

June 2018

Thèse de doctorat : Massachusetts Institute of Technology | June 2018

PDF

Natural Language Processing for EHR-Based Computational Phenotyping

Zexian Zeng, Yu Deng, Xiaoyu Li, Tristan Naumann, Yuan Luo

Computation and Language | June 2018

Publication

Opportunities in Machine Learning for Healthcare

Marzyeh Ghassemi, Tristan Naumann, Peter Schulam, Andrew L. Beam, Rajesh Ranganath

June 2018

Publication

Visualizing Patient Timelines in the Intensive Care Unit

Dina Levy-Lambert, Jen J. Gong, Tristan Naumann, Tom J. Pollard, John V. Guttag

June 2018

Publication

CliNER 2.0: Accessible and Accurate Clinical Concept Extraction

Willie Boag, Elena Sergeeva, Saurabh Kulshreshtha, Peter Szolovits, Anna Rumshisky, Tristan Naumann

March 2018

Publication

Towards the Creation of a Large Corpus of Synthetically-Identified Clinical Notes

Willie Boag, Tristan Naumann, Peter Szolovits

March 2018

Publication

LLaVA-Rad MIMIC-CXR Annotations

Juan Manuel Zambrano Chaves (juanza), Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Akshay Chaudhari, Serena Yeung, Curtis Langlotz, Sheng Wang, Hoifung Poon

January 2025

Publication

Attribute Structuring Improves LLM-Based Evaluation of Clinical Text Summaries

Zelalem Gero, Chandan Singh, Yiqing Xie, Sheng Zhang, Tristan Naumann, Jianfeng Gao, Hoifung Poon

NeurIPS 2024 | December 2024

DOI Publication Publication

A whole-slide foundation model for digital pathology from real-world data

Hanwen Xu, Naoto Usuyama, Jaspreet Bagga, Sheng Zhang, Rajesh Rao, Tristan Naumann, Cliff Wong, Zelalem Gero, Javier González, Yu Gu, Yanbo Xu, Mu-Hsin Wei, Wenhui Wang, Shuming Ma, Furu Wei, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Jaylen Rosemon, Tucker Bower, Soohee Lee, R. Weerasinghe, Bill Wright, Ari Robicsek, Brian Piening, Carlo Bifulco, Sheng Wang, Hoifung Poon

Nature | May 2024

Publication DOI Publication

Towards a clinically accessible radiology foundation model: open-access and lightweight, with automated evaluation

Juan Manuel Zambrano Chaves, Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Hassan Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Serena Yeung-Levy, Curtis P. Langlotz, Sheng Wang, Hoifung Poon

March 2024

Publication

TRIALSCOPE: A Unifying Causal Framework for Scaling Real-World Evidence Generation with Biomedical Language Models

Javier González, Cliff Wong, Zelalem Gero, Jaspreet Bagga, Risa Ueno, Isabel Chien, Eduard Orakvin, Emre Kiciman, Aditya Nori, R. Weerasinghe, R. Leidner, B. Piening, Tristan Naumann, C. Bifulco, Hoifung Poon

ArXiv | November 2023, Vol abs/2311.01301

DOI Publication Publication

Distilling Large Language Models for Biomedical Knowledge Extraction: A Case Study on Adverse Drug Events

Yu Gu, Sheng Zhang, Naoto Usuyama, Yonas Woldesenbet, Cliff Wong, Praneeth Sanapathi, Mu Wei, Naveen Valluri, Erika Strandberg, Tristan Naumann, Hoifung Poon

July 2023

Publication

Continual Contrastive Finetuning Improves Low-Resource Relation Extraction

Wenxuan Zhou, Sheng Zhang, Tristan Naumann, Muhao Chen, Hoifung Poon

ACL 2023 | May 2023

Publication

Self-Verification Improves Few-Shot Clinical Information Extraction

Zelalem Gero, Chandan Singh, Hao Cheng, Tristan Naumann, Michel Galley, Jianfeng Gao, Hoifung Poon

May 2023

Publication

Diagnosing Transformers: Illuminating Feature Spaces for Clinical Decision-Making

Aliyah R. Hsu, Yeshwanth Cherapanamjeri, Briton Park, Tristan Naumann, A. Odisho, Bin Yu

ICLR 2024 | May 2023

Publication

Large-Scale Domain-Specific Pretraining for Biomedical Vision-Language Processing

Sheng Zhang, Yanbo Xu, Naoto Usuyama, Jaspreet Bagga, Robert Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Matthew P Lungren, Tristan Naumann, Hoifung Poon

March 2023

Publication

Making the Most of Text Semantics to Improve Biomedical Vision-Language Processing

Benedikt Boecking, Naoto Usuyama, Shruthi Bannur, Daniel Coelho de Castro, Anton Schwaighofer, Stephanie Hyland, Maria Teodora Wetscherek, Tristan Naumann, Aditya Nori, Javier Alvarez-Valle, Hoifung Poon, Ozan Oktay

The European Conference on Computer Vision (ECCV) | October 2022

Preprint Vidéo Télécharger Télécharger Projet

Knowledge-Rich Self-Supervision for Biomedical Entity Linking

Sheng Zhang, Hao Cheng, Shikhar Vashishth, Cliff Wong, Jinfeng Xiao, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon

EMNLP 2022 | May 2022

Publication

Domain-Specific Pretraining for Vertical Search: Case Study on Biomedical Literature

Yu Wang, Jinchao Li, Tristan Naumann, Chenyan Xiong, Hao Cheng, Rob Tinn, Cliff Wong, Naoto Usuyama, Rick Rogahn, Zhihong Shen, Yang Qin, Eric Horvitz, Paul Bennett, Jianfeng Gao, Hoifung Poon

KDD 2021 | August 2021

Publication Publication Projet

Leveraging text representations for clinical predictive tasks

Tristan Naumann

June 2018

Thèse de doctorat : Massachusetts Institute of Technology | June 2018

PDF

Visualizing Patient Timelines in the Intensive Care Unit

Dina Levy-Lambert, Jen J. Gong, Tristan Naumann, Tom J. Pollard, John V. Guttag

June 2018

Publication

Opportunities in Machine Learning for Healthcare

Marzyeh Ghassemi, Tristan Naumann, Peter Schulam, Andrew L. Beam, Rajesh Ranganath

June 2018

Publication

Natural Language Processing for EHR-Based Computational Phenotyping

Zexian Zeng, Yu Deng, Xiaoyu Li, Tristan Naumann, Yuan Luo

Computation and Language | June 2018

Publication

CliNER 2.0: Accessible and Accurate Clinical Concept Extraction

Willie Boag, Elena Sergeeva, Saurabh Kulshreshtha, Peter Szolovits, Anna Rumshisky, Tristan Naumann

March 2018

Publication

Towards the Creation of a Large Corpus of Synthetically-Identified Clinical Notes

Willie Boag, Tristan Naumann, Peter Szolovits

March 2018

Publication

LLaVA-Rad MIMIC-CXR Annotations

Juan Manuel Zambrano Chaves (juanza), Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Akshay Chaudhari, Serena Yeung, Curtis Langlotz, Sheng Wang, Hoifung Poon

January 2025

Publication

BiomedParse: a biomedical foundation model for image parsing of everything everywhere all at once

Theodore Zhao, Yu Gu, Jianwei Yang, Naoto Usuyama, Ho Hin Lee, Tristan Naumann, Jianfeng Gao, Angela Crabtree, B. Piening, Carlo Bifulco, Mu-Hsin Wei, Hoifung Poon, Sheng Wang

June 2024

DOI Vidéo

Towards a clinically accessible radiology foundation model: open-access and lightweight, with automated evaluation

Juan Manuel Zambrano Chaves, Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Hassan Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Serena Yeung-Levy, Curtis P. Langlotz, Sheng Wang, Hoifung Poon

March 2024

Publication

BiomedCLIP: a multimodal biomedical foundation model pretrained from fifteen million scientific image-text pairs

Sheng Zhang, Yanbo Xu, Naoto Usuyama, Hanwen Xu, Jaspreet Bagga, Rob Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Andrea Tupini, Yu Wang, Matt Mazzola, Swadheen Shukla, Lars Liden, Jianfeng Gao, Matthew P Lungren, Tristan Naumann, Sheng Wang, Hoifung Poon

January 2024

Publication

Large-Scale Domain-Specific Pretraining for Biomedical Vision-Language Processing

Sheng Zhang, Yanbo Xu, Naoto Usuyama, Jaspreet Bagga, Robert Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Matthew P Lungren, Tristan Naumann, Hoifung Poon

March 2023

Publication

Making the Most of Text Semantics to Improve Biomedical Vision-Language Processing

Benedikt Boecking, Naoto Usuyama, Shruthi Bannur, Daniel Coelho de Castro, Anton Schwaighofer, Stephanie Hyland, Maria Teodora Wetscherek, Tristan Naumann, Aditya Nori, Javier Alvarez-Valle, Hoifung Poon, Ozan Oktay

The European Conference on Computer Vision (ECCV) | October 2022

Preprint Vidéo Télécharger Télécharger Projet

LLaVA-Rad MIMIC-CXR Annotations

Juan Manuel Zambrano Chaves (juanza), Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Akshay Chaudhari, Serena Yeung, Curtis Langlotz, Sheng Wang, Hoifung Poon

January 2025

Publication

Attribute Structuring Improves LLM-Based Evaluation of Clinical Text Summaries

Zelalem Gero, Chandan Singh, Yiqing Xie, Sheng Zhang, Tristan Naumann, Jianfeng Gao, Hoifung Poon

NeurIPS 2024 | December 2024

DOI Publication Publication

A whole-slide foundation model for digital pathology from real-world data

Hanwen Xu, Naoto Usuyama, Jaspreet Bagga, Sheng Zhang, Rajesh Rao, Tristan Naumann, Cliff Wong, Zelalem Gero, Javier González, Yu Gu, Yanbo Xu, Mu-Hsin Wei, Wenhui Wang, Shuming Ma, Furu Wei, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Jaylen Rosemon, Tucker Bower, Soohee Lee, R. Weerasinghe, Bill Wright, Ari Robicsek, Brian Piening, Carlo Bifulco, Sheng Wang, Hoifung Poon

Nature | May 2024

Publication DOI Publication

Towards a clinically accessible radiology foundation model: open-access and lightweight, with automated evaluation

Juan Manuel Zambrano Chaves, Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Hassan Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Serena Yeung-Levy, Curtis P. Langlotz, Sheng Wang, Hoifung Poon

March 2024

Publication

TRIALSCOPE: A Unifying Causal Framework for Scaling Real-World Evidence Generation with Biomedical Language Models

Javier González, Cliff Wong, Zelalem Gero, Jaspreet Bagga, Risa Ueno, Isabel Chien, Eduard Orakvin, Emre Kiciman, Aditya Nori, R. Weerasinghe, R. Leidner, B. Piening, Tristan Naumann, C. Bifulco, Hoifung Poon

ArXiv | November 2023, Vol abs/2311.01301

DOI Publication Publication

Scaling Clinical Trial Matching Using Large Language Models: A Case Study in Oncology

Cliff Wong, Sheng Zhang, Yu Gu, Christine Moung, Jacob Abel, Naoto Usuyama, Roshanthi Weerasinghe, Brian Piening, Tristan Naumann, Carlo Bifulco, Hoifung Poon

August 2023

Publication

Distilling Large Language Models for Biomedical Knowledge Extraction: A Case Study on Adverse Drug Events

Yu Gu, Sheng Zhang, Naoto Usuyama, Yonas Woldesenbet, Cliff Wong, Praneeth Sanapathi, Mu Wei, Naveen Valluri, Erika Strandberg, Tristan Naumann, Hoifung Poon

July 2023

Publication

What are the Desired Characteristics of Calibration Sets? Identifying Correlates on Long Form Scientific Summarization

Griffin Adams, Bichlien Nguyen, Jake Smith, Yingce Xia, Shufang Xie, Anna Ostropolets, Budhaditya Deb, Yuan-Jyue Chen, Tristan Naumann, Noémie Elhadad

ACL 2023 | July 2023

Publication

Self-Verification Improves Few-Shot Clinical Information Extraction

Zelalem Gero, Chandan Singh, Hao Cheng, Tristan Naumann, Michel Galley, Jianfeng Gao, Hoifung Poon

May 2023

Publication

Diagnosing Transformers: Illuminating Feature Spaces for Clinical Decision-Making

Aliyah R. Hsu, Yeshwanth Cherapanamjeri, Briton Park, Tristan Naumann, A. Odisho, Bin Yu

ICLR 2024 | May 2023

Publication

Large-Scale Domain-Specific Pretraining for Biomedical Vision-Language Processing

Sheng Zhang, Yanbo Xu, Naoto Usuyama, Jaspreet Bagga, Robert Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Matthew P Lungren, Tristan Naumann, Hoifung Poon

March 2023

Publication

Making the Most of Text Semantics to Improve Biomedical Vision-Language Processing

Benedikt Boecking, Naoto Usuyama, Shruthi Bannur, Daniel Coelho de Castro, Anton Schwaighofer, Stephanie Hyland, Maria Teodora Wetscherek, Tristan Naumann, Aditya Nori, Javier Alvarez-Valle, Hoifung Poon, Ozan Oktay

The European Conference on Computer Vision (ECCV) | October 2022

Preprint Vidéo Télécharger Télécharger Projet

Modular Self-Supervision for Document-Level Relation Extraction

Sheng Zhang, Cliff Wong, Naoto Usuyama, Sarthak Jain, Tristan Naumann, Hoifung Poon

2021 Empirical Methods in Natural Language Processing | September 2021

Publication PDF

Domain-Specific Pretraining for Vertical Search: Case Study on Biomedical Literature

Yu Wang, Jinchao Li, Tristan Naumann, Chenyan Xiong, Hao Cheng, Rob Tinn, Cliff Wong, Naoto Usuyama, Rick Rogahn, Zhihong Shen, Yang Qin, Eric Horvitz, Paul Bennett, Jianfeng Gao, Hoifung Poon

KDD 2021 | August 2021

Publication Publication Projet

Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing

Yu Gu, Robert Tinn, Hao Cheng, Michael Lucas, Naoto Usuyama, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon

August 2020

PDF Vidéo Télécharger

Leveraging text representations for clinical predictive tasks

Tristan Naumann

June 2018

Thèse de doctorat : Massachusetts Institute of Technology | June 2018

PDF

Visualizing Patient Timelines in the Intensive Care Unit

Dina Levy-Lambert, Jen J. Gong, Tristan Naumann, Tom J. Pollard, John V. Guttag

June 2018

Publication

Opportunities in Machine Learning for Healthcare

Marzyeh Ghassemi, Tristan Naumann, Peter Schulam, Andrew L. Beam, Rajesh Ranganath

June 2018

Publication

Natural Language Processing for EHR-Based Computational Phenotyping

Zexian Zeng, Yu Deng, Xiaoyu Li, Tristan Naumann, Yuan Luo

Computation and Language | June 2018

Publication

CliNER 2.0: Accessible and Accurate Clinical Concept Extraction

Willie Boag, Elena Sergeeva, Saurabh Kulshreshtha, Peter Szolovits, Anna Rumshisky, Tristan Naumann

March 2018

Publication

Towards the Creation of a Large Corpus of Synthetically-Identified Clinical Notes

Willie Boag, Tristan Naumann, Peter Szolovits

March 2018

Publication

What are the Desired Characteristics of Calibration Sets? Identifying Correlates on Long Form Scientific Summarization

Griffin Adams, Bichlien Nguyen, Jake Smith, Yingce Xia, Shufang Xie, Anna Ostropolets, Budhaditya Deb, Yuan-Jyue Chen, Tristan Naumann, Noémie Elhadad

ACL 2023 | July 2023

Publication

Knowledge-Rich Self-Supervision for Biomedical Entity Linking

Sheng Zhang, Hao Cheng, Shikhar Vashishth, Cliff Wong, Jinfeng Xiao, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon

EMNLP 2022 | May 2022

Publication

Modular Self-Supervision for Document-Level Relation Extraction

Sheng Zhang, Cliff Wong, Naoto Usuyama, Sarthak Jain, Tristan Naumann, Hoifung Poon

2021 Empirical Methods in Natural Language Processing | September 2021

Publication PDF

Domain-Specific Pretraining for Vertical Search: Case Study on Biomedical Literature

Yu Wang, Jinchao Li, Tristan Naumann, Chenyan Xiong, Hao Cheng, Rob Tinn, Cliff Wong, Naoto Usuyama, Rick Rogahn, Zhihong Shen, Yang Qin, Eric Horvitz, Paul Bennett, Jianfeng Gao, Hoifung Poon

KDD 2021 | August 2021

Publication Publication Projet

Natural Language Processing for EHR-Based Computational Phenotyping

Zexian Zeng, Yu Deng, Xiaoyu Li, Tristan Naumann, Yuan Luo

Computation and Language | June 2018

Publication

Domain-Specific Pretraining for Vertical Search: Case Study on Biomedical Literature

Yu Wang, Jinchao Li, Tristan Naumann, Chenyan Xiong, Hao Cheng, Rob Tinn, Cliff Wong, Naoto Usuyama, Rick Rogahn, Zhihong Shen, Yang Qin, Eric Horvitz, Paul Bennett, Jianfeng Gao, Hoifung Poon

KDD 2021 | August 2021

Publication Publication Projet

LLaVA-Rad MIMIC-CXR Annotations

Juan Manuel Zambrano Chaves (juanza), Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Akshay Chaudhari, Serena Yeung, Curtis Langlotz, Sheng Wang, Hoifung Poon

January 2025

Publication

Towards a clinically accessible radiology foundation model: open-access and lightweight, with automated evaluation

Juan Manuel Zambrano Chaves, Shih-Cheng Huang, Yanbo Xu, Hanwen Xu, Naoto Usuyama (naotous), Sheng Zhang, Fei Wang, Yujia Xie, Mahmoud Khademi, Ziyi Yang, Hany Hassan Awadalla, Julia Gong, Houdong Hu, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Yu Gu, Cliff Wong, Mu-Hsin Wei, Tristan Naumann, Muhao Chen, Matthew P Lungren, Serena Yeung-Levy, Curtis P. Langlotz, Sheng Wang, Hoifung Poon

March 2024

Publication

BiomedCLIP: a multimodal biomedical foundation model pretrained from fifteen million scientific image-text pairs

Sheng Zhang, Yanbo Xu, Naoto Usuyama, Hanwen Xu, Jaspreet Bagga, Rob Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Andrea Tupini, Yu Wang, Matt Mazzola, Swadheen Shukla, Lars Liden, Jianfeng Gao, Matthew P Lungren, Tristan Naumann, Sheng Wang, Hoifung Poon

January 2024

Publication

Self-Verification Improves Few-Shot Clinical Information Extraction

Zelalem Gero, Chandan Singh, Hao Cheng, Tristan Naumann, Michel Galley, Jianfeng Gao, Hoifung Poon

May 2023

Publication

Large-Scale Domain-Specific Pretraining for Biomedical Vision-Language Processing

Sheng Zhang, Yanbo Xu, Naoto Usuyama, Jaspreet Bagga, Robert Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Matthew P Lungren, Tristan Naumann, Hoifung Poon

March 2023

Publication

Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing

Yu Gu, Robert Tinn, Hao Cheng, Michael Lucas, Naoto Usuyama, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon

August 2020

PDF Vidéo Télécharger

Visualizing Patient Timelines in the Intensive Care Unit

Dina Levy-Lambert, Jen J. Gong, Tristan Naumann, Tom J. Pollard, John V. Guttag

June 2018

Publication

Opportunities in Machine Learning for Healthcare

Marzyeh Ghassemi, Tristan Naumann, Peter Schulam, Andrew L. Beam, Rajesh Ranganath

June 2018

Publication

CliNER 2.0: Accessible and Accurate Clinical Concept Extraction

Willie Boag, Elena Sergeeva, Saurabh Kulshreshtha, Peter Szolovits, Anna Rumshisky, Tristan Naumann

March 2018

Publication

Towards the Creation of a Large Corpus of Synthetically-Identified Clinical Notes

Willie Boag, Tristan Naumann, Peter Szolovits

March 2018

Publication

A whole-slide foundation model for digital pathology from real-world data

Hanwen Xu, Naoto Usuyama, Jaspreet Bagga, Sheng Zhang, Rajesh Rao, Tristan Naumann, Cliff Wong, Zelalem Gero, Javier González, Yu Gu, Yanbo Xu, Mu-Hsin Wei, Wenhui Wang, Shuming Ma, Furu Wei, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Jaylen Rosemon, Tucker Bower, Soohee Lee, R. Weerasinghe, Bill Wright, Ari Robicsek, Brian Piening, Carlo Bifulco, Sheng Wang, Hoifung Poon

Nature | May 2024

Publication DOI Publication

TRIALSCOPE: A Unifying Causal Framework for Scaling Real-World Evidence Generation with Biomedical Language Models

Javier González, Cliff Wong, Zelalem Gero, Jaspreet Bagga, Risa Ueno, Isabel Chien, Eduard Orakvin, Emre Kiciman, Aditya Nori, R. Weerasinghe, R. Leidner, B. Piening, Tristan Naumann, C. Bifulco, Hoifung Poon

ArXiv | November 2023, Vol abs/2311.01301

DOI Publication Publication

Natural Language Processing for EHR-Based Computational Phenotyping

Zexian Zeng, Yu Deng, Xiaoyu Li, Tristan Naumann, Yuan Luo

Computation and Language | June 2018

Publication

Attribute Structuring Improves LLM-Based Evaluation of Clinical Text Summaries

Zelalem Gero, Chandan Singh, Yiqing Xie, Sheng Zhang, Tristan Naumann, Jianfeng Gao, Hoifung Poon

NeurIPS 2024 | December 2024

DOI Publication Publication

What are the Desired Characteristics of Calibration Sets? Identifying Correlates on Long Form Scientific Summarization

Griffin Adams, Bichlien Nguyen, Jake Smith, Yingce Xia, Shufang Xie, Anna Ostropolets, Budhaditya Deb, Yuan-Jyue Chen, Tristan Naumann, Noémie Elhadad

ACL 2023 | July 2023

Publication

Continual Contrastive Finetuning Improves Low-Resource Relation Extraction

Wenxuan Zhou, Sheng Zhang, Tristan Naumann, Muhao Chen, Hoifung Poon

ACL 2023 | May 2023

Publication

Diagnosing Transformers: Illuminating Feature Spaces for Clinical Decision-Making

Aliyah R. Hsu, Yeshwanth Cherapanamjeri, Briton Park, Tristan Naumann, A. Odisho, Bin Yu

ICLR 2024 | May 2023

Publication

Making the Most of Text Semantics to Improve Biomedical Vision-Language Processing

Benedikt Boecking, Naoto Usuyama, Shruthi Bannur, Daniel Coelho de Castro, Anton Schwaighofer, Stephanie Hyland, Maria Teodora Wetscherek, Tristan Naumann, Aditya Nori, Javier Alvarez-Valle, Hoifung Poon, Ozan Oktay

The European Conference on Computer Vision (ECCV) | October 2022

Preprint Vidéo Télécharger Télécharger Projet

Knowledge-Rich Self-Supervision for Biomedical Entity Linking

Sheng Zhang, Hao Cheng, Shikhar Vashishth, Cliff Wong, Jinfeng Xiao, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, Hoifung Poon

EMNLP 2022 | May 2022

Publication

Modular Self-Supervision for Document-Level Relation Extraction

Sheng Zhang, Cliff Wong, Naoto Usuyama, Sarthak Jain, Tristan Naumann, Hoifung Poon

2021 Empirical Methods in Natural Language Processing | September 2021

Publication PDF

Domain-Specific Pretraining for Vertical Search: Case Study on Biomedical Literature

Yu Wang, Jinchao Li, Tristan Naumann, Chenyan Xiong, Hao Cheng, Rob Tinn, Cliff Wong, Naoto Usuyama, Rick Rogahn, Zhihong Shen, Yang Qin, Eric Horvitz, Paul Bennett, Jianfeng Gao, Hoifung Poon

KDD 2021 | August 2021

Publication Publication Projet

BiomedParse: a biomedical foundation model for image parsing of everything everywhere all at once

Theodore Zhao, Yu Gu, Jianwei Yang, Naoto Usuyama, Ho Hin Lee, Tristan Naumann, Jianfeng Gao, Angela Crabtree, B. Piening, Carlo Bifulco, Mu-Hsin Wei, Hoifung Poon, Sheng Wang

June 2024

DOI Vidéo

Scaling Clinical Trial Matching Using Large Language Models: A Case Study in Oncology

Cliff Wong, Sheng Zhang, Yu Gu, Christine Moung, Jacob Abel, Naoto Usuyama, Roshanthi Weerasinghe, Brian Piening, Tristan Naumann, Carlo Bifulco, Hoifung Poon

August 2023

Publication

Distilling Large Language Models for Biomedical Knowledge Extraction: A Case Study on Adverse Drug Events

Yu Gu, Sheng Zhang, Naoto Usuyama, Yonas Woldesenbet, Cliff Wong, Praneeth Sanapathi, Mu Wei, Naveen Valluri, Erika Strandberg, Tristan Naumann, Hoifung Poon

July 2023

Publication

Leveraging text representations for clinical predictive tasks

Tristan Naumann

June 2018

Thèse de doctorat : Massachusetts Institute of Technology | June 2018

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