Bachelor of Genetics from Peking University in 1988; Master of Developmental Biology from Institute of Developmental Biology, Chinese Academy of Sciences in 1991; Ph.D. post doctoral research. Former Director of Bioinformatics at the University of Illinois at Urbana-Champaign Biotechnology Center, Assistant Professor of the Department of Zoology at the University of Illinois at Urbana-Champaign, and National Center for Supercomputing at the University of Illinois at Urbana-Champaign Application, NCSA) researcher (Faculty Fellow). After returning to China, he served as a researcher of the "Hundred Talents Program" of the Shanghai Academy of Biological Sciences, the Chinese Academy of Sciences, the director of the Department of Translational Medicine of the Shanghai Public Health Clinical Center of Fudan University (affiliated), the deputy director of the Shanghai Bioinformatics Research Center, and the medical information and medicine of the Big Data Research Institute of Fudan University. Director of Imaging Intelligent Diagnosis Institute, etc.
He is currently the executive vice president of the Institute of Intelligent Medicine (preparation) of Fudan University, academician of the International Institute of Health Science Informatics (IAHSI), deputy director of the Professional Committee of Clinical Data and Sample Resource Bank of the Chinese Research Hospital Association, and a clinical researcher of the Chinese Research Hospital Association. Vice Chairman of the Data and Sample Resource Bank Professional Committee, Standing Committee Member of the Medical Information Branch of the Chinese Medical Association, etc.
Email: liulei@fudan.edu.cn
EDUCATION
05/1997 Ph.D. in Cell Biology University of Connecticut, Storrs, CT
12/1994 M.S. in Biochemistry University of Connecticut, Storrs, CT
06/1991 M.S. in Developmental Biology Institute of Developmental Biology, Chinese Academy of Sciences, Beijing, China
06/1988 B.S. in Genetics Peking University, Beijing, China
WORKING EXPERIENCE
06/2022 – present Executive Vice Director, Institute of Intelligent Medicine, Fudan University, Shanghai, China
05/2017 – present Director, Institute of Medical Informatics and Image Intelligent Diagnosis, School of Data Science, Fudan University, Shanghai, China
07/2020 – present Professor, School of Basic Medical Sciences, Fudan University, Shanghai, China
07/2013 – 06/2020 Professor, Institute of Biomedical Sciences, Fudan University, Shanghai, China
12/2007 – 12/2020 Deputy Director, Shanghai Center for Bioinformation Technology, Shanghai, China
12/2007 – 6/2013 Professor, The Key Laboratory of Systems Biology, Shanghai Institute for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
03/2002– 12/2007 Scientist, National Center for Supercomputing Application (NCSA), University of Illinois at Urbana-Champaign, Urbana, Illinois.
05/2000 – 12/2007 Adjunct Assistant Professor, Department of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois.
02/1999 – 12/2007 Director of Bioinformatics, the W. M. Keck Center for Comparative and Functional Genomics, the University of Illinois, Urbana, Illinois.
06/1999 – 08/1999 Interim Director of High Throughput DNA Sequencing, W. M. Keck Center for Comparative and Functional Genomics, University of Illinois, Urbana, Illinois.
06/1997 – 01/1999 Postdoctoral Fellow, Department of Computer Science and Engineering, University of Connecticut, Storrs, Connecticut.
HONOR
2022 Fellow, International Academy of Health Science Informatics (FIAHSI)
PUBLICATIONS
1. Zhu C, Xia X, Li N, Zhong F*, Yang Z*, Liu L*. (2023). RDKG-115: Assisting Drug Repurposing and Discovery for Rare Diseases by Trimodal Knowledge Graph Embedding. Comput Biol Med. 164:107262.
2. Xia X, Zhu C, Zhong F*, Liu L*. (2023). MDTips: A Multimodal-data based Drug-Target interaction prediction system fusing knowledge, gene expression profile and structural data. Bioinformatics. 39(7):btad411.
3. Chen Y, Yao L, Zhao S, Xu M, Ren S, Xie L*, Liu L*, Wang Y*. (2023). The oxidative aging model integrated various risk factors in type 2 diabetes mellitus at system level. Front Endocrinol (Lausanne). 14: 1196293.
4. Li R, Zhou L*, Wang Y, Shan F, Chen X*, Liu L*. (2023). A graph neural network model for the diagnosis of lung adenocarcinoma based on multimodal features and an edge-generation network. Quant Imaging Med Surg. 13(8):5333-5348.
5. Zhan K, Wang Y, Zhuo Y, Zhan Y, Yan Q, Shan F, Zhou L*, Chen X*, Liu L*. (2023). An uncertainty-aware self-training framework with consistency regularization for the multilabel classification of common computed tomography signs in lung nodules. Quant Imaging Med Surg. 13(9):5536-5554.
6. Xu H, Wu A, Ren H, Yu C, Liu G*, Liu L*. (2023). Classification of colorectal cancer consensus molecular subtypes using attention-based multi-instance learning network on whole-slide images. Acta Histochem. 125(6):152057.
7. Li, F., Zhou, L., Wang, Y., Chen, C., Yang, S., Shan, F., Liu, L. (2022). Modeling long-range dependencies for weakly supervised disease classification and localization on chest X-ray. Quant Imaging Med Surg 2022;12(6):3364-3378.
8. Sun, X., Xu, H, Liu, G. Chen, J., Xu, J., Li, M., Liu, L. (2022). A Robust Immuno-Prognostic Model of Non-Muscle-Invasive Bladder Cancer Indicates Dynamic Interaction in Tumor Immune Microenvironment Contributes to Cancer Progression. Front Genet.13:833989.
9. Zhu, C., Yang, Z., Xia, X., Li, N., Zhong, F., Liu, L. (2022). Multimodal reasoning based on knowledge graph embedding for specific diseases. Bioinformatics, 38(8), 2235-2245.
10. Zhang R, Liu Z, Chang X, Gao Y, Han H, Liu X, Cai H, Fu Q, Liu L, Yin K. (2022). linical significance of chromosomal integrity in gastric cancers.. Int J Biol Markers, Jun 19.
11. Liu, G., Liu, Z., Sun, X., Xia, X., Liu, Y., Liu, L. (2021). Pan-Cancer Genome-Wide DNA Methylation Analyses Revealed That Hypermethylation Influences 3D Architecture and Gene Expression Dysregulation in HOXA Locus During Carcinogenesis of Cancers. Front Cell Dev Biol, 9, 649168.
12. Liu, X., Wu, A., Wang, X., Liu, Y., Xu, Y., Liu, G., Liu, L. (2021). Identification of metabolism-associated molecular subtype in ovarian cancer. J Cell Mol Med, 25(20), 9617-9626.
13. Peng, X., Yang, S., Zhou, L., Mei, Y., Shi, L., Zhang, R., . . . Liu, L. (2021). Repeatability and Reproducibility of Computed Tomography Radiomics for Pulmonary Nodules: A Multicenter Phantom Study. Invest Radiol.
14. Shi, L., Shi, W., Peng, X., Zhan, Y., Zhou, L., Wang, Y., . . . Liu, L. (2021). Development and Validation a Nomogram Incorporating CT Radiomics Signatures and Radiological Features for Differentiating Invasive Adenocarcinoma From Adenocarcinoma In Situ and Minimally Invasive Adenocarcinoma Presenting as Ground-Glass Nodules Measuring 5-10mm in Diameter. Front Oncol, 11, 618677.
15. Shi, L., Zhao, J., Peng, X., Wang, Y., Liu, L., Sheng, M. (2021). CT-based radiomics for differentiating invasive adenocarcinomas from indolent lung adenocarcinomas appearing as ground-glass nodules: Asystematic review. Eur J Radiol, 144, 109956.
16. Wang, Y., Wang, K., Peng, X., Shi, L., Liu, L. J. N. (2021). DeepSDM: Boundary-aware Pneumothorax Segmentation in Chest X-Ray Images. Neurocomputing 454(3).
17. Xu, W., Chen, Z., Liu, G., Dai, Y., Xu, X., Ma, D., Liu, L. (2021). Identification of a Potential PPAR-Related Multigene Signature Predicting Prognosis of Patients with Hepatocellular Carcinoma. PPAR Res, 2021, 6642939.
18. Xu, W., Guo, W., Lu, P., Ma, D., Liu, L., Yu, F. (2021). Identification of an autophagy-related gene signature predicting overall survival for hepatocellular carcinoma. Biosci Rep, 41(1).
19. Chen, L., Liu, X., Li, M., Wang, S., Zhou, H., Liu, L., & Cheng, X. (2020). A novel model to predict cancer-specific survival in patients with early-stage uterine papillary serous carcinoma (UPSC). Cancer Med, 9(3), 988-998.
20. Cui, D., Liu, Y., Liu, G., Liu, L. (2020). A Multiple-Instance Learning-Based Convolutional Neural Network Model to Detect the IDH1 Mutation in the Histopathology Images of Glioma Tissues. J Comput Biol, 27(8), 1264-1272.
21. Liu, G., Xie, W., Jin, M., Li, P., Liu, L., Huang, G. (2020). Transcriptomic analysis reveals a WNT signaling pathway-based gene signature prognostic for non-small cell carcinoma. Aging (Albany NY), 12(19), 19159-19172.
22. Liu, X., Liu, G., Chen, L., Liu, F., Zhang, X., Liu, D., Liu, X., Cheng, X., Liu, L. (2020). Untargeted Metabolomic Characterization of Ovarian Tumors. Cancers, 12(12), 3642.
23. Liu, Y., Dou, Y., Lu, F., and Liu, L. (2020). A study of radiomics parameters from dual-energy computed tomography images for lymph node metastasis evaluation in colorectal mucinous adenocarcinoma. Medicine 99, e19251.
24. Ren, H., Zhou, L., Liu, G., Peng, X., Shi, W., Xu, H., Shan, F., and Liu, L. (2020). An unsupervised semi-automated pulmonary nodule segmentation method based on enhanced region growing. Quantitative Imaging in Medicine and Surgery 10, 233-242.
25. Wang, Y., Zhou, L., Wang, M., Shao, C., Shi, L., Yang, S., Zhang, Z., Feng, M., Shan, F., & Liu, L. (2020). Combination of generative adversarial network and convolutional neural network for automatic subcentimeter pulmonary adenocarcinoma classification. Quantitative imaging in medicine and surgery, 10(6), 1249–1264.
26. Xu, W.F., Liu, Z.H., Ren, H., Peng, X.Q., Wu, A.S., Ma, D., Liu, G., and Liu, L. (2020). Twenty Metabolic Genes Based Signature Predicts Survival of Glioma Patients. J Cancer 11, 441-449.
27. Wu, A., Liu, X., Liu , Y., Liu, G., & Liu, L. (2019). Application of Second Generation Gene Sequencing Data Management and Big Data Platform in Precision Medicine. China Biotechnology, 39(2): 101-111.
28. Li, Y., Wu, A., Liu, G., and Liu, L. (2019). A Review of Methods to Quantify the Genomic Similarity of Topological Associating Domains. Journal of Computational Biology A Journal of Computational Molecular Cell Biology.
29. Liu, X.-N., Cui, D.-N., Li, Y.-F., Liu, Y.-H., Liu, G., and Liu, L. (2019). Multiple "Omics" data-based biomarker screening for hepatocellular carcinoma diagnosis. World Journal of Gastroenterology.
30. Liu, Y., Yang, N., Peng, X., Liu, G., Zhong, H., and Liu, L. (2019). One-lincRNA and five-mRNA based signature for prognosis of multiple myeloma patients undergoing proteasome inhibitors therapy. Biomedicine & Pharmacotherapy 118, 109254.
31. Shi, W., Zhou, L., Peng, X., Ren, H., Wang, Q., Shan, F., Zhang, Z., Liu, L., & Shi, Y. (2019). HIV-infected patients with opportunistic pulmonary infections misdiagnosed as lung cancers: the clinicoradiologic features and initial application of CT radiomics. Journal of thoracic disease, 11(6), 2274–2286.
32. Zhan, Y., Peng, X., Shan, F., Feng, M., and Zhang, Z. (2019). Attenuation and Morphologic Characteristics Distinguishing a Ground-Glass Nodule Measuring 5–10 mm in Diameter as Invasive Lung Adenocarcinoma on Thin-Slice CT. American Journal of Roentgenology 213, 1-9.
33. Dong, C., Cui, D., Liu, G., Xu, H., Peng, X., Duan, J., and Liu, L. (2018). Cancer stem cell associated eight gene‑based signature predicts clinical outcomes of colorectal cancer. Oncology Letters.
34. Liu, G., Chen, L., Ren, H., Liu, F., Dong, C., Wu, A., Liu, Z., Zheng, Y., Cheng, X., and Liu, L. (2018). Seven Genes Based Novel Signature Predicts Clinical Outcome and Platinum Sensitivity of High Grade IIIc Serous Ovarian Carcinoma. International Journal of Biological Sciences 14, 2012-2022.
35. Liu, Z.H., Lian, B.F., Dong, Q.Z., Sun, H., Wei, J.W., Sheng, Y.Y., Li, W., Li, Y.X., Xie, L., and Liu, L. (2018). Whole-exome mutational and transcriptional landscapes of combined hepatocellular cholangiocarcinoma and intrahepatic cholangiocarcinoma reveal molecular diversity. Biochimica Et Biophysica Acta, S0925443918300383.
