About Me
I am a Senior Research Associate at BGI Research, utilizing large language models to predict health with human microbiome. I earned my Bachelor’s degree in Medicine with a specialization in Preventive Medicine from Sun Yat-sen University, honored to be advised by Prof. Qian Jun. Previously, I completed a clinical internship at the Seventh Affiliated Hospital, Sun Yat-sen University. To date, I have published 14 research papers with 
I am now preparing to pursue a PhD, with the intention of enrolling in either the School of Computer Science or the School of Medicine. If your research team has opportunities that align with my background and aspirations, I would be thrilled to discuss. Feel free to contact me!
My research interest includes:
- AI in Healthcare
- Machine Learning and Deep Learning
- Statistical analysis
- Medical imaging analysis
- Natural Language Processing
- Programming
Education
Experiences
Institute of Precision Health, BGI Research, Shenzhen, China.
Deploy the metagenomic analysis process on the stomics cloud platform and develop AI models to predict health status using microbiota.
The Seventh Affiliated Hospital, Sun Yat-sen University, Shenzhen, China.
Basic clinical skills training
Publications
Host genetic control of the oral microbiome and its links to human metabolism and immunity
Xiaomin Liu, Yafeng Wang, Longke Zeng, Gewei Wang, Junhong Chen, Xinxin Chen, Yan Li, Rui Zhao, Daoming Wang, Xuanlin Huang, Bing Chen, Qun Zhou, Qinqin Meng, Jinquan Gong, Yong Zhang, Jian Wang, Min Guo, Yuxiang Yang, Hui Wang, Hongyan Zhou, Qijia Fu, Yuan Jia, Chuan Chen, Jingwei Huang, Rudai Bi, Zheng Zhang, Xun Xu, Xin Jin, Liang Xiao, Zhenhua Mao, Chao Nie, Tao Zhang, Yaohui Zhao.
(Co-First) Nature Genetics. 2026. (JCR:Q1; IF:25.5)
Beyond Conditional Computation: Retrieval-Augmented Genomic Foundation Models with Gengram
Huinan Xu, Xuyang Feng, Junhong Chen, Junchen Liu, Kaiwen Deng, Kai Ding, Shengning Long, Jiaxue Shuai, zhaorong li, Shiping Liu, Guirong Xue, Zhan Xiao.
(Co-First) EMNLP. 2026 ACL conference. (JCR:CCF; IF:B)
Structural variants in the human genome associated with gut microbiome and blood metabolic traits with potential causal links
Qun Zhou, Keqing Wang, Junhong Chen, Haoyu Wang, Xinjiang Tan, Xuanlin Huang, Zhiyin Lin, Xun Xu, Xin Jin, Shaoqiao Zhang, Liang Xiao, Yuanqiang Zou, Tao Zhang, Xiaomin Liu.
(Co-First) Advanced Science. 2026. (JCR:Q1; IF:14.1)
Genomic landscape of the human vaginal microbiome is linked to host genetics and population of origin
Zhuye Jie, Weiting Liang, Qiuxia Ding, Xiaomin Liu, Yunhong Zhang, Na Chen, Shenghui Li, Xin Tong, Hongqin Gao, Ruike Lu, Xincheng Huang, Ruochun Guo, Junhong Chen, Jie Zhu, Zhe Zhang, Na Liu, Zhangwei Xie, Xiaman Wang, Le Qi, Yumei Li, Liang Xiao, Shaoqiao Zhang, Xin Jin, Xun Xu, Huanming Yang, Jian Wang, Fangqing Zhao, Huijie Jia, Karsten Kristiansen, Tao Zhang, Lilan Hao, Lan Zhu, Chen Chen.
(Author) Nature Genetics. 2026. (JCR:Q1; IF:25.5)
Genos: A Human-Centric Genomic Foundation Model.
Adi Lin, Bin Xie, Cheng Ye, Cheng Wang, Duoyuan Chen, Ercheng Wang, Fanfeng Lu, Guirong Xue, Haiqiang Zhang, Jiajie Zhan, Jianfeng Zhang, Jiangshuan Pang, Jianqiang Liang, Jiawei Lin, Jiaxin Ma, Jie Hu, Jing Ma, Jinni Dong, Jiongzhen Li, Junchen Liu, Junhong Chen, Junyou Li, Kai Ding, Kaiwen Deng, Kui Chen, Lihui Wang, Longqi Liu, Ling Guo, Liwen Xiong, Luhao Yang, Ming Cheng, Nanning Chen, Renzhong Chen, Shanxin Sun, Shaoshuai Li, Shicheng Chen, Shiping Liu, Siwei Xie, Suyan Liu, Tao Zhou, Wangyang Tang, Weiqiang Zhang, Xianyue Jiang, Xianzhi Qi, Xin Jin, Xinjiang Tan, Xinyue Hu, Xun Xu, Xuyang Feng, Yafei Lu, Yifan Gao, Yong Shang, Youzhe He, Yue Yuan, Yufan Wang, Yuqi Liu, Zhan Xiao, Zhangyuan Meng, Zhaorong Li, Zhe Zhao, Zheng Yang, Zilin Wang.
(contributed equally) GigaScience. giaf132. (JCR:Q1; IF:11.1)
MR-DELTAnet: A Longitudinal MRI-Transformer Model Predicting Pathological Complete Response and Revealing Immune Microenvironment via scRNA-seq in Locally Advanced Rectal Cancer
Wuteng Cao, Huaxian Chen, Jiao Li, Yihui Zheng, Liqing Xie, Guozhong Xiao, Zeyan Wang, Fen Yuan, Junhong Chen, Chongbao Sun, Jing Dai, Jinping Zeng, Xinhua Wang, Lei Wu, Hongcheng Lin.
(Author) Advanced Science. advs.202517721. (JCR:Q1; IF:14.1)
Unraveling the impact of host genetics and factors on the urinary microbiome in a young population.
Leying Zou, Zhe Zhang, Junhong Chen, Ruijin Guo, Xin Tong, Yanmei Ju, Haorong Lu, Huanming Yang, Jian Wang, Yang Zong, Xun Xu, Xin Jin, Liang Xiao, Huijue Jia, Tao Zhang, Xiaomin Liu.
(Co-First) mBio. 2024: e02773-24. (JCR:Q1; IF:5.9)
Deep Learning Assisted Classification of T1ρ-MR Based Intervertebral Disc Degeneration Phases.
Yanrun Li, Meiyu Hu, Junhong Chen, Zemin Ling, Xuenong Zou, Wuteng Cao, Fuxin Wei.
(Co-First) JMRI. 2024. (JCR:Q1; IF:4.4)
CT-based deep learning model for the prediction of DNA mismatch repair deficient colorectal cancer: a diagnostic study.
Wuteng Cao, Huabin Hu, Jirui Guo, Qiyuan Qin, Yanbang Lian, Jiao Li, Qianyu Wu, Junhong Chen, Xinhua Wang, Yanhong Deng.
(Author) Journal of Translational Medicine. 21, 214 (2023). (JCR:Q1; IF:6.1)
China special issue on gastrointestinal tumors‐Radiological features of pathological complete response in mismatch repair deficient colorectal cancer after neoadjuvant PD‐1 blockade: A post hoc analysis of the PICC phase II trial
Wuteng Cao, Huabin Hu, Jiao Li, Qianyu Wu, Lishuo Shi, Biao Li, Jie Zhou, Xinhua Wang, Junhong Chen, Chao Wang, Huaiming Wang, Weihao Deng, Yan Huang, Yanhong Deng.
(Author) International Journal of Cancer. 2023; 153(11): 1894-1903. (JCR:Q1; IF:5.7)
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Texture analysis of apparent diffusion coefficient maps: can it identify nonresponse to neoadjuvant chemotherapy for additional radiation therapy in rectal cancer patients Qianyu Wu, Yongju Yi, Bingjia Lai, Jiao Li, Yanbang Lian,
Junhong Chen, Yue Wu, Xinhua Wang, Wuteng Cao. (Author) Gastroenterology Report. Volume 12, 2024, goae035. (JCR:Q2; IF:3.8) [HTML] [PDF] -
Drivers and forecasts of multiple waves of the coronavirus disease 2019 pandemic: A systematic analysis based on an interpretable machine learning framework Zicheng Cao, Zekai Qiu, Feng Tang, Shiwen Liang, Yinghan Wang, Haoyu Long, Cai Chen, Bing Zhang, Chi Zhang, Yaqi Wang, Kang Tang, Jing Tang,
Junhong Chen, Chunhui Yang, Yuzhe Xu, Yulin Yang, Shenglan Xiao, Dechao Tian, Guozhi Jiang, Xiangjun Du. (Author) Transboundary and Emerging. 69, e1584–e1594. (JCR:Q1; IF:3.5) [HTML] [PDF] -
(Chinese)Statistical methods comparison for estimating the distribution of COVID-19 incubation period Yu Liu, Bingting Zhuo,
Junhong Chen, Zhicheng Du, Yuantao Hao. (Author) Chinese Journal of Health Statistics. 2023,40(4):540-545+548. (JCR:PKU 1; IF:1.228) [HTML] [PDF] -
(Chinese)Design and implementation of information technology service automation notification platform based on big data analysis. Lin Luo, Jinping Luo,
Junhong Chen. (Author) East China Science and Technology. 2023,(08):101-103. (JCR:Provincial-level technical category; IF:-) [HTML] [PDF]
Patents
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Junhong Chen, Xiaomin Liu, Tao Zhang. The combination of 12 biomarkers for high triglycerides and their application
Application number: P2024-1-0266.CN -
Junhong Chen, Zhe Zhang, Kexin Zhang, Chao Zhang, Peng Yin, Zhuye Jie, Xin Tong, Tao Zhang, Yong Zhang. Methods and applications for predicting colorectal cancer risk based on the llama large language model using gut microbiota
Application number: P2024-1-0273.CN -
Junhong Chen, Chao Zhang, Zhe Zhang, Peng Yin, Lihui Wang, Kexin Zhang, Tao Zhang, Yong Zhang. Methods and applications for predicting inflammatory bowel disease risk based on the llama large language model using gut microbiota
Application number: P2025-1-0005.CN - Xiaomin Liu,
Junhong Chen, Tao Zhang. The combination of 15 biomarkers for hyperuricemia and its application
Application number: P2024-1-0265.CN - Zhe Zhang,
Junhong Chen, Peng Yin, Chao Zhang, Kexin Zhang, Tao Zhang, Yong Zhang. Methods and applications for predicting vital health indices based on llama large language model with human commensal flora
Application number: P2025-1-0006.CN - Fuxin Wei, Wuteng Cao, Yanrun Li,
Junhong Chen, Zemin Ling. A T1ρ-MR based method and system for grading intervertebral disc degeneration
Application number: 202411821869.2 [PDF]
Softwares
- Wuteng Cao,
Junhong Chen, Yuzhe Xu, Jiao Li, Xinhua Wang, Qianyu Wu, Yue Wu. Pathology section cell counting software
Registration number: 2024SR0193449 [HTML] [PDF] - Wuteng Cao,
Junhong Chen, Jiao Li, Yuzhe Xu, Qianyu Wu, Yue Wu, Xinhua Wang. Single cell analysis platform
Registration number: 2024SR0025891 [HTML] [PDF]
🏅 Selected Honors and Awards
- 2023.12 Dragon Soars, Tiger Leaps Award (for deploying and optimizing automation processes, awarded by BGI)
- 2023.01 Outstanding Award of China Health Popular Science Competition [Work] [Certificate]
- 2022.09 Sun Yat-sen University Scholarship.
- 2021.04 Meritorious Winner of Interdisciplinary Contest In Modeling (COMAP) [Certificate]
- 2020.06 Excellence Award of Guangdong Health Science Popularization Competition
- 2019.09 Sun Yat-sen University Scholarship.
- 2016.09 Song Qingling Scholarship (GUANG DONG SONG QING LING FOUNDATION) [Certificate] .
💬 Conferences
- 2025.10 Invited Guest for the Metagenomics AI Special Session Roundtable Discussion at ICG 20.
- 2024.11 The 19th Annual Meeting of the International Conference on Genomics (ICG-19), Shenzhen China, Visitor and Volunteer.
- 2024.06 Academic Conference on Modern Life Science-based Health Management, Wuhan China, Honored guest.
Teaching
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2025.06 BGI Cource: DCSM Microbial Metagenomics Specialized Training. Offering three courses: Introduction to R and practical operations, commonly used R packages (ggplot2, Vegan, DESeq2), AI tools-assisted bioinformatics analysis.
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2024.09 BGI Cource: Design and case analysis of meta-genome association study. Teaching Assistant (TA), with A.R. Xiaomin Liu
Miscellaneous
- I’m an sport nut. I love to play badminton and well master in it. I led my team in the badminton team competition as captain and won the championship at the BGI Fall Games in 2024! [News]
- Programming is one of my favorites. My best programming language is Python, and I especially enjoy writing code to implement features to make our lives easier, which gives me a great sense of accomplishment. Following is my works：
- Sun Yat-sen University Student Assistant Management Platform
- Analysis of the trajectory of Covid-19 patients in Hainan Province
- Epidemic Investigation Trajectory Text Structuring Tool
- WeChat Mini Program: Sun Yat-sen University Information Technology Service Help Desk