Wenqi Shi | Georgia Institute of Technology

About Me

Welcome! I am a fifth-year Ph.D. candidate at Georgia Institute of Technology. I am very fortunate to be advised by Dr. May Dongmei Wang. My research interest lies in the interdisciplinary areas between clinical decision support and machine learning. Previously, I obtained my bachelor’s degree in Electronic Information Science and Technology at Beijing Normal University.

Research Interests

Large Language Models for Healthcare: LLM Agents for Clinical Decision Support
Responsible Artificial Intelligence: Explainable, Trustworthy, Generalized, Fair Models for Translational Clinical Practice
Clinical Informatics: FHIR-based Multi-Site and Multi-Modality Patient Data Integration
Precision Medicine: Generative AI for Personalized Clinical Decision Making

News

[Pinned to Top] I am actively seeking academic and industrial opportunities, as well as postdoctoral positions, beginning in 2024. I am happy to engage in discussions regarding potential opportunities!
[09/2023] Three groups of graduate and undergraduate students have obtained two first places and one honorable mention in the data hackathon of IEEE BHI’23. Congratulations to my mentees!
[09/2023] One paper got accepted in ACM BCB 2023 and received Best SIGBio Paper Award, discussing retrieval-augmented LLMs for shared decision making in rare diseases and pediatric healthcare.
[08/2023] Honored to be selected as a Rising Star in EECS this year (2023). See you in Atlanta.
[07/2023] Honored to receive NSF Student Travel Award for IEEE BHI’23 and ACM BCB’23. See you in Pittsburgh and Houston!

Selected Publications

The full list can be found in my Google Scholar Page.

Arxiv'24

EHRAgent: Code Empowers Large Language Models for Complex Tabular Reasoning on Electronic Health Records

Wenqi Shi, Ran Xu, Yuchen Zhuang, Yue Yu, Jieyu Zhang, Hang Wu, Yuanda Zhu, Joyce Ho, Carl Yang, May D. Wang

Arxiv, 2024.

PDF BibTex

Arxiv'23

Knowledge-Infused Prompting: Assessing and Advancing Clinical Text Data Generation with Large Language Models

Ran Xu, Hejie Cui, Yue Yu, Xuan Kan, Wenqi Shi, Yuchen Zhuang, Wei Jin, Joyce Ho, Carl Yang

Arxiv, 2023.

PDF BibTex

BCB'23

Retrieval-Augmented Large Language Models for Adolescent Idiopathic Scoliosis Patients in Shared Decision-Making

Wenqi Shi, Yuchen Zhuang, Yuanda Zhu, Henry J.Iwinski, J. Michael Wattenbarger, May D. Wang

ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB), 2023.

PDF BibTex Best Paper Award

BCB'23

Choice Over Effort: Mapping and Diagnosing Augmented Whole Slide Image Datasets with Training Dynamics

Wenqi Shi*, Benoit Marteau*, Felipe Giuste, May D. Wang (*=Equal Contribution)

ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB), 2023.

PDF BibTex

RBME

Explainable Artificial Intelligence Methods in Combating Pandemics: A Systematic Review

Felipe Giuste*, Wenqi Shi*, Yuanda Zhu, Tarun Naren, Monica Isgut, Ying Sha, Li Tong, Mitali Gupte, May D. Wang (*=Equal Contribution)

IEEE Reviews in Biomedical Engineering (RBME), 2022.

PDF BibTex Annual Featured Article (IF=17.6)

BIBM'21

A FHIR-compliant Application for Multi-Site and Multi-Modality Pediatric Scoliosis Patient Rehabilitation

Wenqi Shi*, Felipe O. Giuste*, Yuanda Zhu, Ashley M. Carpenter, Henry J. Iwinski, Coleman Hilton, J. Machael Wattenbarger, May D. Wang (*=Equal Contribution)

IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2021.

PDF BibTex

BHI'21

Learning from Heterogeneous Data via Contrastive Learning: An Application in Multi-Source COVID-19 Radiography

Wenqi Shi, Mitali S. Gupte, May D. Wang

IEEE EMBS International Conference on Biomedical and Health Informatics (BHI), 2021.

PDF BibTex

JBHI

COVID-19 Automatic Diagnosis With Radiographic Imaging: Explainable Attention Transfer Deep Neural Networks

Wenqi Shi, Li Tong, Yuanda Zhu, May D. Wang

IEEE Journal of Biomedical and Health Informatics (JBHI), 2021.

PDF BibTex (IF=7.02)

BCB'20

EXAM: An Explainable Attention-based Model for COVID-19 Automatic Diagnosis

Wenqi Shi, Li Tong, Yuchen Zhuang, Yuanda Zhu, May D. Wang

ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB), 2020.

PDF BibTex

Awards

First Place, Data Hackathon of Bioinformatics Drug Target Challenge in IEEE BHI’23 (2023)
First Place, Data Hackathon of Bioinformatics scRNA-Seq Challenge in IEEE BHI’23 (2023)
Honorable Mention, Data Hackathon of Sensor Informatics Challenge in IEEE BHI’23 (2023)
Best Paper Award in ACM BCB conference (2023)
EECS Rising Star Award (2023)
NSF Student Travel Award for IEEE BHI (2023)
NSF Student Travel Award for ACM BCB conference (2022, 2023)
AMIA 2023 AI Evaluation Showcase Stage I, II, and III (2023)
Georgia Tech Graduate Student SGA Conference Travel Award (2022, 2023)
Georgia Tech COE&COS Conference Travel Award (2022, 2023)
Finalist of the John H. Moe Award for Best Basic Science E-Poster at the SRS 57th Annual Meeting (2022)
IEEE Reviews in Biomedical Engineering Annual Featured Article (2022)
Best Paper Award in IEEE ICIR conference (2022)
Best Poster Award (1st place) in The 2021 IEEE Healthcare Summit (2021)
Top-10 Teams on 2021 AMIA/HL7 FHIR Applications Competition (2021)
First-class Scholarship of College of Information Science and Technology, Beijing Normal University (2016-2019)

Services

Academic Service

Guest editors for Frontiers Digital Medicine (2022-present)
Publicity Student Co-Chair for IEEE EMBS Community (2021-present)
Publicity Student Co-Chair for ACM SIGBio Community (2021-present)
Publicity Co-Chair and Webmaster for 2021 IEEE Healthcare Summit (2021)

Teaching Experience

Head Teaching Assistant of BMED6780/ECE6780/BMED4783/ECE4783 Medical Image Processing (Spring 2021, Spring 2022, Spring 2023)
Head Teaching Assistant of BMED4813/BMED8813 Biomedical and Health Informatics (Spring 2021, Summer 2021, Spring 2022, Summer 2022, Spring 2023, Summer 2023)
Head Teaching Assistant of BMED2400 Bio-statistics (Fall 2021, Fall 2022)

Reviewers

IEEE Journal of Biomedical and Health Informatics (IEEE JBHI) 2020-2023
IEEE Transactions on Biomedical Engineering (IEEE TBME) 2020-2023
IEEE Reviews in Biomedical Engineering (IEEE RBME) 2020-2023
Nature Scientific Reports 2020-2023
International Journal of Data Science and Analytics 2022
Alzheimer’s Research & Therapy 2022
AMIA Annual Symposium 2022-2023
IEEE COMPSAC 2020-2023

Industry Experience

Research Coordinator, Children’s Healthcare of Atlanta (07/2023-present)
CS Research Mentorship Program, Google Research (2021)
Research Intern, Xiaomi (2019)