
Overview
Background
Dr. Kelvin Tuong is a Senior Research Fellow/Group Leader at the Ian Frazer Centre for Children’s Immunotherapy Research (IFCCIR), Child Health Research Centre. He is interested in single-cell analysis of immune cells and harnessing adaptive immune receptors for understanding immune cell development and function in health and in cancer.
Dr. Tuong was born and raised in Singapore and moved to Brisbane, Australia, after completing national service in Singapore and obtaining a Diploma in Biomedical Laboratory Technology (Ngee Ann Polytechnic).
Dr. Tuong was originally trained as a molecular cell biologist and gradually transitioned into bioinformatics during his post-doctoral training. He has been very prolific for an early career researcher, having published >70 articles since 2013, with nearly a third of them as first/co-first or last author and has a stellar track record of pushing out highly collaborative work in prestigious journals including Nature, Cell, Science, Nature Medicine, Nature Biotechnology J Exp Med etc. He has the rare combination of having excellent laboratory and bioinformatics skill sets which provide him a strong command of both fundamental immunology and computational approaches.
Dr. Tuong completed his undergraduate Bachelor's degree in Biomedical science with Class I Honours, followed by his PhD in macrophage cell biology and endocrinology at UQ (Prof. Jenny Stow lab and Emiritus Prof. George Muscat lab, IMB, UQ). He then went on to a post-doc position with Emiritus Prof. Ian Frazer (co-inventor of the Gardasil cervical cancer vaccine, UQ Frazer Institute, Translational Research Institute) where he worked on HPV immunology, cervical cancer and skin cancer. In his time in the Frazer lab, he developed an interest in bioinformatics analyses as a means to tackle and understanding immunology problems in health and disease. He then moved to the UK and joined Prof. Menna Clatworthy's lab at the University of Cambridge and Dr. Sarah Teichmann's lab at the Wellcome Trust Sanger Institute. He has focused his interests on single-cell analyses of tissue immune cells, including T and B cells and their specific receptors (TCR/BCR). He has developed bespoke bioinformatics software, including one tailored for single-cell B Cell Receptor sequencing analysis, Dandelion, which he used in one of the largest combined single-cell transcriptomic, surface proteomic and TCR/BCR sequencing dataset in the world, published in Nature Medicine, and more recently in Nature Biotechnology where we introduced a TCR-based pseudotime trajectory analysis method.
Dr. Tuong is now leading the Computational Immunology group at the IFCCIR and his lab is focused on investigating how pediatric immunity is perturbed during cancer at the cellular level and how this information can be used for creating novel warning systems for children with cancer. For potential students/post-docs/trainees interested in joining the team, please contact Dr. Tuong at z.tuong@uq.edu.au.
Availability
- Dr Kelvin Tuong is:
- Available for supervision
- Media expert
Fields of research
Qualifications
- Doctor of Philosophy, The University of Queensland
Research interests
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Deep learning of immune repertoires
T cells and B cells play a critical role in recognizing and eliminating cancer cells through their highly specific adaptive immune receptors. Our vision is to harness the power of these receptors to enable early cancer detection and real-time disease monitoring, particularly in children. These receptors act as natural "time-keepers" of the immune system’s engagement with tumors, capturing a molecular history of the immune response as cancer progresses. Our research focuses on understanding the properties that make these immune cells effective in the context of childhood cancers. Using high-resolution single-cell gene expression profiling, we aim to uncover how T and B cells behave in pediatric patients and how their receptors evolve during disease and treatment. To achieve this, we are developing new computational tools and algorithms designed to analyze immune receptor sequences and their expression patterns. Using deep learning, we aim to identify receptor signatures that are specific to cancer, and use these patterns to predict therapeutic responses and monitor disease progression in children with blood cancers. This approach offers a path toward highly sensitive tool for early detection and long-term monitoring of pediatric immunity and cancer.
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Single-cell prediction of cancer cells
We’re interested in using deep learning to make sense of single-cell RNA sequencing (scRNA-seq) data, especially to uncover copy number variations (CNVs) that are often hidden in the noise of single-cell measurements. CNVs are a key feature in many cancers, but detecting them reliably at the single-cell level is still a challenge. Rather than relying on traditional approaches that often struggle with the sparse and noisy nature of scRNA-seq, we’re exploring how deep learning models can be trained to recognize subtle patterns in gene expression that point to underlying genomic alterations. Our goal is to build tools that can separate cancer cells from normal cells based on these inferred CNVs, helping us better understand tumor composition, heterogeneity, and evolution. This work has implications not just for identifying malignant cells, but also for tracking how tumors change over time or respond to treatment. We’re also interested in combining this with other data types—like epigenomic or spatial information—to build a more complete picture of what’s happening inside tumors at the single-cell level. We approach this work from both a computational and biological perspective, and we’re motivated by the potential for these methods to contribute to more personalized and effective cancer diagnostics.
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Paediatric Immune Cell Atlas
We’re building the largest immune cell atlas of Australian children to date, profiling blood samples from over 1,000 healthy and disease-affected children using single-cell RNA sequencing (scRNA-seq). Our goal is to create a high-resolution map of the developing immune system in early life—a period when immune function is still maturing and highly dynamic. Children’s immune systems differ significantly from those of adults, yet they remain understudied in immunology. By analyzing immune cell populations at single-cell resolution, we’re uncovering how these cells change with age, how they respond to infections or immune-related diseases, and how early-life immunity is shaped by both genetic and environmental factors. To fully capture the complexity of the pediatric immune system, we’re incorporating machine learning and deep learning approaches to uncover subtle patterns and rare cell states across this large and diverse dataset. We’re also applying integrative methods to link scRNA-seq data with immune repertoire sequencing, enabling us to explore how T and B cell clonality and diversity contribute to immune development and disease. This work has important implications for understanding pediatric diseases, identifying early biomarkers of immune dysregulation, and designing age-specific diagnostics and therapies. In addition to its clinical relevance, the atlas will serve as a foundational reference for researchers working in pediatric immunology and systems biology.
Works
Search Professor Kelvin Tuong’s works on UQ eSpace
2024
Journal Article
TGF-β signalling limits effector function capacity of NK cell anti-tumour immunity in human bladder cancer
Wong, Joshua K. M., McCulloch, Timothy R., Alim, Louisa, Omer, Natacha, Mehdi, Ahmed M., Tuong, Zewen Kelvin, Bonfim-Melo, Alexis, Chung, Eric, Nicol, Alice, Simpson, Fiona, Rhee, Handoo, Rossi, Gustavo Rodrigues and Souza-Fonseca-Guimaraes, Fernando (2024). TGF-β signalling limits effector function capacity of NK cell anti-tumour immunity in human bladder cancer. EBioMedicine, 104 105176, 105176. doi: 10.1016/j.ebiom.2024.105176
2024
Conference Publication
Early Human Lung Immune Cell Development and Its Role in Epithelial Cell Fate
Nikolic, M., Barnes, J. L., Yoshida, M., He, P., Worlock, K. B., Lindeboom, R. G. H., Suo, C., Pett, J. P., Wilbrey-Clark, A., Dann, E., Mamanova, L., Richardson, L., Polanski, K., Pennycuick, A., Allen-Hyttinen, J., Herczeg, I., Arzili, R., Hynds, R. E., Teixeira, V. H., Haniffa, M., Lim, K., Sun, D., Rawlins, E. L., Oliver, A., Lyons, P. A., Marioni, J. C., Ruhrberg, C., Tuong, Z. K., Clatworthy, M. R. ... Meyer, K. B. (2024). Early Human Lung Immune Cell Development and Its Role in Epithelial Cell Fate. International Conference of the American-Thoracic-Society (ATS), San Diego Ca, May 17-22, 2024. NEW YORK: AMER THORACIC SOC.
2024
Conference Publication
Early Human Lung Immune Cell Development and Its Role in Epithelial Cell Fate
Nikolic, M., Barnes, J.L., Yoshida, M., He, P., Worlock, K.B., Lindeboom, R.G.H., Suo, C., Pett, J.P., Wilbrey-Clark, A., Dann, E., Mamanova, L., Richardson, L., Polanski, K., Pennycuick, A., Allen-Hyttinen, J., Herczeg, I., Arzili, R., Hynds, R.E., Teixeira, V.H., Haniffa, M., Lim, K., Sun, D., Rawlins, E.L., Oliver, A., Lyons, P.A., Marioni, J.C., Ruhrberg, C., Tuong, Z.K., Clatworthy, M.R. ... Meyer, K.B. (2024). Early Human Lung Immune Cell Development and Its Role in Epithelial Cell Fate. American Thoracic Society 2024 International Conference, San Diego, CA United States, 17-22 May 2024. New York, NY United States: American Thoracic Society. doi: 10.1164/ajrccm-conference.2024.209.1_meetingabstracts.a7456
2024
Journal Article
Single-cell immune repertoire analysis
Irac, Sergio E., Soon, Megan Sioe Fei, Borcherding, Nicholas and Tuong, Zewen Kelvin (2024). Single-cell immune repertoire analysis. Nature Methods, 21 (5), 777-792. doi: 10.1038/s41592-024-02243-4
2024
Journal Article
Venous-plexus-associated lymphoid hubs support meningeal humoral immunity
Fitzpatrick, Zachary, Ghabdan Zanluqui, Nagela, Rosenblum, Jared S., Tuong, Zewen Kelvin, Lee, Colin Y. C., Chandrashekhar, Vikram, Negro-Demontel, Maria Luciana, Stewart, Andrew P., Posner, David A., Buckley, Monica, Allinson, Kieren S. J., Mastorakos, Panagiotis, Chittiboina, Prashant, Maric, Dragan, Donahue, Danielle, Helmy, Adel, Tajsic, Tamara, Ferdinand, John R., Portet, Anais, Peñalver, Ana, Gillman, Eleanor, Zhuang, Zhengping, Clatworthy, Menna R. and McGavern, Dorian B. (2024). Venous-plexus-associated lymphoid hubs support meningeal humoral immunity. Nature, 628 (8008) s41586-024-07202-9, 612-619. doi: 10.1038/s41586-024-07202-9
2024
Journal Article
Tumour-retained activated CCR7+ dendritic cells are heterogeneous and regulate local anti-tumour cytolytic activity
Lee, Colin Y. C., Kennedy, Bethany C., Richoz, Nathan, Dean, Isaac, Tuong, Zewen K., Gaspal, Fabrina, Li, Zhi, Willis, Claire, Hasegawa, Tetsuo, Whiteside, Sarah K., Posner, David A., Carlesso, Gianluca, Hammond, Scott A., Dovedi, Simon J., Roychoudhuri, Rahul, Withers, David R. and Clatworthy, Menna R. (2024). Tumour-retained activated CCR7+ dendritic cells are heterogeneous and regulate local anti-tumour cytolytic activity. Nature Communications, 15 (1) 682, 1-18. doi: 10.1038/s41467-024-44787-1
2024
Journal Article
Rapid functional impairment of natural killer cells following tumor entry limits anti-tumor immunity
Dean, Isaac, Lee, Colin Y. C., Tuong, Zewen K., Li, Zhi, Tibbitt, Christopher A., Willis, Claire, Gaspal, Fabrina, Kennedy, Bethany C., Matei-Rascu, Veronika, Fiancette, Rémi, Nordenvall, Caroline, Lindforss, Ulrik, Baker, Syed Murtuza, Stockmann, Christian, Sexl, Veronika, Hammond, Scott A., Dovedi, Simon J., Mjösberg, Jenny, Hepworth, Matthew R., Carlesso, Gianluca, Clatworthy, Menna R. and Withers, David R. (2024). Rapid functional impairment of natural killer cells following tumor entry limits anti-tumor immunity. Nature Communications, 15 (1) 683, 1-18. doi: 10.1038/s41467-024-44789-z
2023
Journal Article
Early human lung immune cell development and its role in epithelial cell fate
Barnes, Josephine L., Yoshida, Masahiro, He, Peng, Worlock, Kaylee B., Lindeboom, Rik G. H., Suo, Chenqu, Pett, J. Patrick, Wilbrey-Clark, Anna, Dann, Emma, Mamanova, Lira, Richardson, Laura, Polanski, Krzysztof, Pennycuick, Adam, Allen-Hyttinen, Jessica, Herczeg, Iván T., Arzili, Romina, Hynds, Robert E., Teixeira, Vitor H., Haniffa, Muzlifah, Lim, Kyungtae, Sun, Dawei, Rawlins, Emma L., Oliver, Amanda J., Lyons, Paul A., Marioni, John C., Ruhrberg, Christiana, Tuong, Zewen Kelvin, Clatworthy, Menna R., Reading, James L. ... Nikolić, Marko Z. (2023). Early human lung immune cell development and its role in epithelial cell fate. Science Immunology, 8 (90) eadf9988, 1-18. doi: 10.1126/sciimmunol.adf9988
2023
Journal Article
Tissue-resident B cells orchestrate macrophage polarisation and function
Suchanek, Ondrej, Ferdinand, John R., Tuong, Zewen K., Wijeyesinghe, Sathi, Chandra, Anita, Clauder, Ann-Katrin, Almeida, Larissa N., Clare, Simon, Harcourt, Katherine, Ward, Christopher J., Bashford-Rogers, Rachael, Lawley, Trevor, Manz, Rudolf A., Okkenhaug, Klaus, Masopust, David and Clatworthy, Menna R. (2023). Tissue-resident B cells orchestrate macrophage polarisation and function. Nature Communications, 14 (1) 7081, 1-20. doi: 10.1038/s41467-023-42625-4
2023
Journal Article
Autoimmune uveitis in Behçet's disease and Vogt‐Koyanagi‐Harada disease differ in tissue immune infiltration and T cell clonality
Kang, Hao, Sun, Hongjian, Yang, Yang, Tuong, Zewen K., Shu, Minglei, Wei, Yunbo, Zhang, Yu, Yu, Di and Tao, Yong (2023). Autoimmune uveitis in Behçet's disease and Vogt‐Koyanagi‐Harada disease differ in tissue immune infiltration and T cell clonality. Clinical and Translational Immunology, 12 (9) e1461, 1-17. doi: 10.1002/cti2.1461
2023
Journal Article
Atypical B cells and impaired SARS-CoV-2 neutralization following heterologous vaccination in the elderly
Ferreira, Isabella A.T.M., Lee, Colin Y.C., Foster, William S., Abdullahi, Adam, Dratva, Lisa M., Tuong, Zewen Kelvin, Stewart, Benjamin J., Ferdinand, John R., Guillaume, Stephane M., Potts, Martin O.P., Perera, Marianne, Krishna, Benjamin A., Peñalver, Ana, Cabantous, Mia, Kemp, Steven A., Ceron-Gutierrez, Lourdes, Ebrahimi, Soraya, Lyons, Paul, Smith, Kenneth G.C., Bradley, John, Collier, Dami A., McCoy, Laura E., van der Klaauw, Agatha, Thaventhiran, James E.D., Farooqi, I. Sadaf, Teichmann, Sarah A., MacAry, Paul A., Doffinger, Rainer, Wills, Mark R. ... Gupta, Ravindra K. (2023). Atypical B cells and impaired SARS-CoV-2 neutralization following heterologous vaccination in the elderly. Cell Reports, 42 (8) 112991, 112991. doi: 10.1016/j.celrep.2023.112991
2023
Journal Article
A novel multifunctional radioprotective strategy using P7C3 as a countermeasure against ionizing radiation-induced bone loss
Wei, Fei, Tuong, Zewen Kelvin, Omer, Mahmoud, Ngo, Christopher, Asiatico, Jackson, Kinzel, Michael, Pugazhendhi, Abinaya Sindu, Khaled, Annette R., Ghosh, Ranajay and Coathup, Melanie (2023). A novel multifunctional radioprotective strategy using P7C3 as a countermeasure against ionizing radiation-induced bone loss. Bone Research, 11 (1) 34, 1-20. doi: 10.1038/s41413-023-00273-w
2023
Journal Article
Distinct pathogenic roles for resident and monocyte-derived macrophages in lupus nephritis (vol 7, e159751, 2022)
Richoz, Nathan, Tuong, Zewen K., Loudon, Kevin W., Patino-Martinez, Eduardo, Ferdinand, John R., Portet, Anais, Romo-Tena, Jorge, Bashant, Kathleen R., Thevenon, Emeline, Rucci, Francesca, Hoyler, Thomas, Junt, Tobias, Kaplan, Mariana J., Siegel, Richard M. and Clatworthy, Menna R. (2023). Distinct pathogenic roles for resident and monocyte-derived macrophages in lupus nephritis (vol 7, e159751, 2022). Jci Insight, 8 (10) e171762. doi: 10.1172/jci.insight.171762
2023
Conference Publication
Venous plexus-associated lymphoid hubs support meningeal humoral immunity
Zanluqui, Nagela Ghabdan, Fitzpatrick, Zachary, Rosenblum, Jared S., Tuong, Zewen Kelvin, Chandrashekhar, Vikram, Negro-Demontel, Maria Luciana, Allinson, Kieren S. J., Mastorakos, Panagiotis, Chittiboina, Prashant, Maric, Dragan, Donahue, Danielle, Ferdinand, John R., Portet, Anais, Penalver, Ana, Gillman, Eleanor, Zhuang, Zhengping, Clatworthy, Menna R. and McGavern, Dorian B. (2023). Venous plexus-associated lymphoid hubs support meningeal humoral immunity. Immunology 2023™ Meeting, Washington, DC United States, 11-15 May 2023. Rockville, MD United States: American Association of Immunologists. doi: 10.4049/jimmunol.210.supp.76.23
2023
Journal Article
Dandelion uses the single-cell adaptive immune receptor repertoire to explore lymphocyte developmental origins
Suo, Chenqu, Polanski, Krzysztof, Dann, Emma, Lindeboom, Rik G. H., Vilarrasa-Blasi, Roser, Vento-Tormo, Roser, Haniffa, Muzlifah, Meyer, Kerstin B., Dratva, Lisa M., Tuong, Zewen Kelvin, Clatworthy, Menna R. and Teichmann, Sarah A. (2023). Dandelion uses the single-cell adaptive immune receptor repertoire to explore lymphocyte developmental origins. Nature Biotechnology, 42 (1), 40-51. doi: 10.1038/s41587-023-01734-7
2023
Journal Article
Low-dose IL-2 enhances the generation of IL-10-producing immunoregulatory B cells
Inaba, Akimichi, Tuong, Zewen Kelvin, Zhao, Tian X., Stewart, Andrew P., Mathews, Rebeccah, Truman, Lucy, Sriranjan, Rouchelle, Kennet, Jane, Saeb-Parsy, Kourosh, Wicker, Linda, Waldron-Lynch, Frank, Cheriyan, Joseph, Todd, John A., Mallat, Ziad and Clatworthy, Menna R. (2023). Low-dose IL-2 enhances the generation of IL-10-producing immunoregulatory B cells. Nature Communications, 14 (1) 2071, 1-11. doi: 10.1038/s41467-023-37424-w
2023
Journal Article
Heparan sulfate regulates IL-21 bioavailability and signal strength that control germinal center B cell selection and differentiation
Chen, Zhian, Cui, Yanfang, Yao, Yin, Liu, Bo, Yunis, Joseph, Gao, Xin, Wang, Naiqi, Cañete, Pablo F., Tuong, Zewen Kelvin, Sun, Hongjian, Wang, Hao, Yang, Siling, Wang, Runli, Leong, Yew Ann, Simon Davis, David, Qin, Jiahuan, Liang, Kaili, Deng, Jun, Wang, Conan K., Huang, Yen-Hua, Roco, Jonathan A., Nettelfield, Sam, Zhu, Huaming, Xu, Huajun, Yu, Zhijia, Craik, David, Liu, Zheng, Qi, Hai, Parish, Christopher and Yu, Di (2023). Heparan sulfate regulates IL-21 bioavailability and signal strength that control germinal center B cell selection and differentiation. Science immunology, 8 (80) eadd1728, 1-17. doi: 10.1126/sciimmunol.add1728
2023
Journal Article
Dimensionality reduction under scrutiny
Yang, Yang, Tuong, Zewen K. and Yu, Di (2023). Dimensionality reduction under scrutiny. Nature Computational Science, 3 (1), 8-9. doi: 10.1038/s43588-022-00383-1
2022
Journal Article
A human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates
He, Peng, Lim, Kyungtae, Sun, Dawei, Pett, Jan Patrick, Jeng, Quitz, Polanski, Krzysztof, Dong, Ziqi, Bolt, Liam, Richardson, Laura, Mamanova, Lira, Dabrowska, Monika, Wilbrey-Clark, Anna, Madissoon, Elo, Tuong, Zewen Kelvin, Dann, Emma, Suo, Chenqu, Goh, Isaac, Yoshida, Masahiro, Nikolić, Marko Z., Janes, Sam M., He, Xiaoling, Barker, Roger A., Teichmann, Sarah A., Marioni, John C., Meyer, Kerstin B. and Rawlins, Emma L. (2022). A human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates. Cell, 185 (25), 4841-4860.e25. doi: 10.1016/j.cell.2022.11.005
2022
Journal Article
Distinct pathogenic roles for resident and monocyte-derived macrophages in lupus nephritis
Richoz, Nathan, Tuong, Zewen K., Loudon, Kevin W., Patiño-Martínez, Eduardo, Ferdinand, John R., Portet, Anaïs, Bashant, Kathleen R., Thevenon, Emeline, Rucci, Francesca, Hoyler, Thomas, Junt, Tobias, Kaplan, Mariana J., Siegel, Richard M. and Clatworthy, Menna R. (2022). Distinct pathogenic roles for resident and monocyte-derived macrophages in lupus nephritis. JCI Insight, 7 (21) e159751, 1-19. doi: 10.1172/jci.insight.159751
Funding
Current funding
Past funding
Supervision
Availability
- Dr Kelvin Tuong is:
- Available for supervision
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Supervision history
Current supervision
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Doctor Philosophy
A Comprehensive Paediatric Immune Cell Atlas for Children's Immunotherapy Innovation
Principal Advisor
Other advisors: Dr Quan Nguyen, Professor Di Yu
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Doctor Philosophy
Advancing Paediatric Cancer Immunotherapy with Antigen Receptors and Artificial Intelligence
Principal Advisor
Other advisors: Dr Yang Yang
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Doctor Philosophy
Harnessing adaptive immune receptors to monitor paediatric immunity in cancer and enhance neoantigen vaccine pipeline
Principal Advisor
Other advisors: Professor Di Yu, Dr Jazmina Gonzalez Cruz
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Doctor Philosophy
Development of novel vaccines for cancer immunotherapy
Associate Advisor
Other advisors: Professor Maher Gandhi, Honorary Professor Kristen Radford
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Doctor Philosophy
Pipelines to model immune signalling networks in barrier tissue protection
Associate Advisor
Other advisors: Professor Gabrielle Belz
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Doctor Philosophy
Decipher interleukin-21 signaling and engineer next generation immunotherapies
Associate Advisor
Other advisors: Dr Zhian Chen
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Doctor Philosophy
Investigate T cell specificity and function in immune responses by systems immunology
Associate Advisor
Other advisors: Dr Yang Yang, Professor Di Yu
Completed supervision
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2022
Doctor Philosophy
Understanding CD4+ T cell responses to HPV16 E7 antigen in a mouse model of precancerous skin
Associate Advisor
Other advisors: Professor Ian Frazer, Dr Janin Chandra
Media
Enquiries
Contact Dr Kelvin Tuong directly for media enquiries about:
- Cancer
- Genomics
- Immunology
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