Name: Qiyuan Li
Title: Professor, PhD Supervisor
Contact Email: qiyuan.li@xmu.edu.cn

Education and Research Experience

November 2017 - Present: Professor, School of Medicine, Xiamen University

March 2012 - October 2017: Associate Professor, School of Medicine, Xiamen University

March 2010 - March 2012: Postdoctoral Fellow, Harvard Cancer Center, Harvard University

July 2006 - January 2011: PhD in Systems Biology, Technical University of Denmark

August 2004 - April 2006: Master's Degree in Bioinformatics, Technical University of Denmark

September 2000 - July 2003: Master's Degree in Cell Biology, Xiamen University

September 1996 - July 2000: Bachelor's Degree, East China University of Science and Technology

• Achievements

After completing his PhD at the Technical University of Denmark, Dr. Li Qiyuan conducted advanced postdoctoral research at the Harvard Cancer Center, where he co-authored groundbreaking research published in Nature Medicine. Since joining Xiamen University School of Medicine in 2012, Professor Li has authored or co-authored 57 SCI-indexed papers in prestigious journals such as Genome Medicine and Briefings in Bioinformatics, with an H-index of 36 and a total citation count of 10,884. He currently leads two National Natural Science Foundation of China (NSFC) projects and seven municipal research projects, participating in multiple national, provincial, and municipal R&D projects with a total funding of RMB 20 million.

 Major Research Directions

• Tumor Evolution Research: Utilizing statistical models to identify determinants associated with tumor classification, prognosis, and targeted therapy sensitivity from multi-omics data, including genetic polymorphisms, somatic mutations, epigenomics, and gene expression. Developing complex network models based on multi-omics associations and applying AI methods to discover novel tumor driver genes.

• Prediction of Chromatin 3D Structure: Predicting chromatin 3D structures across cell lines using graph neural networks (GCN) frameworks with Hi-C data and expression quantitative trait loci (eQTL).

• Single-cell Transcriptome Algorithm Research: Large-scale single-cell clustering algorithms based on K-means and Louvain; downsampling algorithms based on Minimal Unbiased Representative Points (MURP); temporal differentiation trajectory analysis and spatial reconstruction based on single-cell transcriptomes.

• Studying T-lymphocyte evolution and transcriptional regulation in the maternal-fetal interface immune microenvironment using single-cell sequencing technology; investigating the impact of smoking on the lung cancer immune microenvironment through single-cell sequencing.

• Studying the association between somatic mutation profiles from non-invasive prenatal testing (NIPT) and tumorigenesis.

• Medical Insurance Big Data Research: Specializing in the layout planning of medical insurance designated medical institutions and pharmacies. This project applies grid-based geographic information management and big data technologies to accurately evaluate and manage the effective supply of medical insurance resources for urban insured populations, providing real-time assessments and consultations for the geographical placement of new designated medical institutions and pharmacies. Providing real-time and precise resource presentations to medical insurance administration departments and society, offering statistical support for the stock management and incremental planning of medical insurance designated medical institutions.

Representative Papers

• Huanhuan Liu, Qinwei Chen, Jintao Guo, Ying Zhou, Zhiyu You, Jun Ren, Yuanyuan Zeng, Jing Yang, Jialiang Huang, Qiyuan Li*, Epigenome-augmented eQTL-hotspots reveal genome-wide transcriptional programs in 36 human tissues, Briefings in Bioinformatics, 2024, 25(3): bbae109.

• Qingqing Qin, Ying Zhou, Jintao Guo, Qinwei Chen, Weiwei Tang, Yuchen Li, Jun You, Qiyuan Li*. Conserved methylation signatures associate with the tumor immune microenvironment and immunotherapy response. Genome Medicine 16, 47 (2024).

• Jun Ren, Xuejing Lyu, Jintao Guo, Xiaodong Shi, Ying Zhou, Qiyuan Li*.CDSKNNXMBD: a novel clustering framework for large-scale single-cell data based on a stable graph structure[J]. Journal of Translational Medicine, 2024, 22(1): 233.

• Xuejing Lyu; Shaona Wang; Jiaxin Zhong; Lingzhu Cai; Yanhui Zheng; Ying Zhou; Ying Zhou;Qionghua Chen; Qiyuan Li* ; Gut microbiome interacts with pregnancy hormone metabolites in gestational diabetes mellitus, Frontiers in Microbiology, 2023, 14. 

• Jintao Guo, Ying Zhou, Chaoqun Xu, Qinwei Chen, Zsófia Sztupinszki, Judit Börcsök, Canqiang Xu, Feng Ye, Weiwei Tang, Jiapeng Kang, Lu Yang, Jiaxin Zhong, Taoling Zhong, Tianhui Hu, Rongshan Yu, Zoltan Szallasi, Xianming Deng, Qiyuan Li*; Genetic Determinants of Somatic Selection of Mutational Processes in 3,566 Human Cancers, Cancer Research, 2021, 81(16):4205-4217

The other published papers can be accessed via the provided Google Scholar link: https://scholar.google.com/citations?user=WGvpT-8AAAAJ&hl=zh-CN