Pingjun Chen-陈平君 Principal Data Scientist Institute for Data Science in Oncology UT MD Anderson Cancer Center Email: pchen6 at mdanderson dot org

Introduction

Dr. Chen currently serves as the Principal Data Scientist at The University of Texas MD Anderson Cancer Center dedicated to Computational Pathology. He received a B.S. degree in software engineering and an M.S. degree in medical image analysis from the Dalian University of Technology in 2012 and 2015. He received a Ph.D. degree in biomedical engineering from the University of Florida in 2020.

He concentrates on developing cutting-edge computational models and frameworks to advance cancer prevention, detection, diagnosis, and treatment. Three pillars of his research are 1) AI-assisted digital pathology analysis to automate routine pathologic diagnosis and prognosis, 2) data- and biology-driven approaches to identify novel pathological biomarkers, and 3) intelligent multi-modality data integration to facilitate personalized cancer therapy. Dr. Chen aims to harmonize the perspectives of pathologists, oncologists, biologists, and computer scientists towards developing robust solutions to address critical unmet needs for making cancer history.

Updates

• [2024/06/17] One co-authored conference paper was accepted by MICCAI 2024.
• [2024/04/05] One co-authored conference paper was accepted by MIDL 2024 - Medical Imaging with Deep Learning.
• [2024/02/11] One co-authored journal paper was accepted by IEEE Transactions on Image Processing (IF: 10.6).
• [2024/01/25] One co-authored journal paper was accepted by Nature Communications (IF: 16.6).
• [2024/01/22] One co-authored journal paper was accepted by Cell Reports Medicine (IF: 14.3).
• [2023/12/04] Start as Principal Data Scientist at the UT MD Anderson Cancer Center in Houston, TX.
• [2023/08/31] One first-authored journal paper was accepted by Modern Pathology (IF: 7.5).
• [2023/04/04] One co-authored journal paper was accepted by The Lancet Digital Health (IF: 36.615).
• [2023/04/01] Start as Instructor at the UT MD Anderson Cancer Center in Houston, TX.
• [2023/02/02] Five abstracts were accepted by AACR Annual Meeting 2023.
• [2022/11/25] One co-authored journal paper was accepted by Nature Communications (IF: 17.694).
• [2022/10/20] Two abstracts were accepted by USCAP 112th Annual Meeting.
• [2022/08/27] Honored to be recognized as IEEE TMI Silver Distinguished Reviewer.
• [2022/08/01] Two first-authored conference papers were accepted by MICCAI-CMMCA2022.
• [2022/07/15] One co-authored journal paper was accepted by Cancers (IF: 6.575).
• [2022/05/25] One first-authored review paper was accepted by 21st Century Pathology.
• [2022/04/25] One first-authored journal paper was accepted by Cancers (IF: 6.639).
• [2022/04/01] Three abstracts were accepted by 2022 ASCO Annual Meeting.
• [2022/01/04] One first-authored journal paper was accepted by Modern Pathology (IF: 7.842).
• [2021/12/23] Two patents were published, as can be found at Google Patents.
• [2021/10/01] Two abstracts were accepted by The 63rd ASH Annual Meeting and Exposition.
• [2021/09/01] One first-authored journal paper was accepted by The Journal of Pathology (IF: 7.996).
• [2021/06/11] One first-authored conference paper was accepted by MICCAI 2021.
• [2020/12/16] One co-authored journal paper was accepted by IEEE Transactions on Image Processing (IF: 9.34).
• [2020/10/12] Start the postdoctoral training at the UT MD Anderson Cancer Center in Houston, TX.
• [2020/07/30] One first-authored conference paper was accepted by MICCAI-MLMI2020.
• [2020/06/23] One first-authored journal paper was accepted by Artificial Intelligence in Medicine (IF: 4.383).
• [2020/06/22] One first-authored journal paper was accepted by Computer Methods and Programs in Biomedicine (IF: 3.632).
• [2020/06/16] Successfully defended my dissertation at UF-BME, PHinally Done!
• [2020/05/02] One first-authored journal paper was accepted by Neurocomputing (IF: 4.438).
• [2020/05/01] Finish a fulfilling internship at UII America, Inc.
• [2020/04/10] One first-authored conference paper was accepted by EMBC 2020 for oral presentation.
• [2019/12/09] Start the internship at UII America, Inc. in Cambridge, MA.
• [2019/11/19] One co-authored journal paper was accepted by IEEE Transactions on Pattern Analysis and Machine Intelligence (IF: 17.861).
• [2019/08/13] One co-authored journal paper was accepted by BMC Bioinformatics (IF: 3.213).
• [2019/06/12] One first-authored journal paper was accepted by Computerized Medical Imaging and Graphics (IF: 3.75).
• [2019/04/15] One co-authored paper was jounral accepted by Nature Machine Intelligence (IF: 15.508).
• [2019/01/02] One first-authored software paper was accepted by Journal of Open Source Software.
• [2018/09/01] The homepage was launched.

Honors & Awards

• 2023, MDACC Fellowship Development Institute Grant Writing Cohort
• 2022, IEEE TMI Silver Distinguished Reviewer Award

Recent Publications

  *Equal Contribution

• Pingjun Chen*, Frank Rojas*, Xin Hu*, et al., Pathomic Features Reveal Immune and Molecular Evolution from Lung Preneoplasia to Invasive Adenocarcinoma, in Modern Pathology, 2023. Presentation
• Siba El Hussein*, Pingjun Chen*, et al., Artificial Intelligence-Assisted Mapping of Proliferation Centers Allows the Distinction of Accelerated Phase from Large Cell Transformation in Chronic Lymphocytic Leukemia, in Modern Pathology, 2022.
• Siba El Hussein*, Pingjun Chen*, et al., Artificial Intelligence Strategy Integrating Morphologic and Architectural Biomarkers Provides Robust Diagnostic Accuracy for Disease Progression in Chronic Lymphocytic Leukemia, in The Journal of Pathology, 2021. Invited Commentary
• Pingjun Chen*, Muhammad Aminu*, Siba El Hussein*, et al., Hierarchical Phenotyping and Graph Modeling of Spatial Architecture in Lymphoid Neoplasms, in International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), 2021. Presentation

Patents

• Joseph D. Khoury, Jia Wu, Siba EI Hussein & Pingjun Chen, Methods and Systems for Determining Leukemia or Lymphoma Levels using Lymphoid Images. Filed.
• Shanhui Sun, Pingjun Chen, Xiao Chen, Zhang Chen & Terrence Chen, Systems and Methods for Image Segmentation, 2022. US11488021B2
• Xiao Chen, Pingjun Chen, Zhang Chen, Terrence Chen & Shanhui Sun, Anatomy-Aware Motion Estimation, 2021. US20210397886A1

Software

• tissueloc: Whole Slide Digital Pathology Image Tissue Localization. [docs]
• pyslide: Whole Slide Digital Pathology Image Analysis Toolbox. [docs]

Datasets

• Pingjun Chen, Frank Rojas, et al., Lung Adenocarcinoma Evolution H&E Pathomic Feature Analysis Dataset, 2023. Mendeley Data
• Pingjun Chen, Knee Osteoarthritis Severity Grading Dataset, 2018. Mendeley Data