|
2025 Journal Article scRepertoire 2: Enhanced and efficient toolkit for single-cell immune profilingYang, Qile, Safina, Ksenia R., Nguyen, Kieu Diem Quynh, Tuong, Zewen Kelvin and Borcherding, Nicholas (2025). scRepertoire 2: Enhanced and efficient toolkit for single-cell immune profiling. PLOS Computational Biology, 21 (6) e1012760, e1012760-6. doi: 10.1371/journal.pcbi.1012760 |
|
2025 Journal Article Low-dose interleukin-2 induces clonal expansion of BACH2-repressed effector regulatory T cells following acute coronary syndromeCase, A. G., O’Brien, J. W., Lu, Y., Charlier, F. T. W., Zhao, X., Weng, Y., Masters, L., Tuong, Z. K., Sriranjan, R., Cheriyan, J., Kemper, C., Clatworthy, M. R., Mallat, Z. and Zhao, T. X. (2025). Low-dose interleukin-2 induces clonal expansion of BACH2-repressed effector regulatory T cells following acute coronary syndrome. Nature Cardiovascular Research, 4 (6) 40, 727-739. doi: 10.1038/s44161-025-00652-y |
|
2025 Journal Article Temporal multi-omics analysis of COVID-19 in end-stage kidney diseaseStephenson, Emily, Macdonald-Dunlop, Erin, Dratva, Lisa M., Lindeboom, Rik G.H., Tuong, Zewen Kelvin, Tun, Win Min, Kretschmer, Lorenz, Buang, Norzawani B., Ballereau, Stephane, Cabantaus, Mia, Peñalver, Ana, Prigmore, Elena, Ferdinand, John R., Stewart, Benjamin J., Gisby, Jack, Malik, Talat H., Clarke, Candice L., Medjeral-Thomas, Nicholas, Prendecki, Maria, McAdoo, Stephen, Portet, Anais, Willicombe, Michelle, Sandhu, Eleanor, Pickering, Matthew C., Botto, Marina, Teichmann, Sarah A., Haniffa, Muzlifah, Clatworthy, Menna R., Thomas, David C. and Peters, James E. (2025). Temporal multi-omics analysis of COVID-19 in end-stage kidney disease. Cell Genomics 100918, 100918. doi: 10.1016/j.xgen.2025.100918 |
|
2025 Journal Article GFI1-driven transcriptional and epigenetic programs maintain CD8+ T cell stemness and persistenceChaudhry, M. Zeeshan, Chen, Evelyn, Man, Hiu On, Jones, Aneesha, Denman, Renae, Yu, Huiyang, Huang, Qiutong, Ilich, Adrian, Schreuder, Jaring, Navarro, Severine, Tuong, Zewen K. and Belz, Gabrielle T. (2025). GFI1-driven transcriptional and epigenetic programs maintain CD8+ T cell stemness and persistence. Nature Immunology, 26 (6) 1418, 894-907. doi: 10.1038/s41590-025-02151-5 |
|
2025 Journal Article Data standards for single‐cell RNA‐sequencing of paediatric cancerXu, Xiaohan, Saxon, John, Soon, Megan Sioe Fei, Lee, Colin Y. C. and Tuong, Zewen Kelvin (2025). Data standards for single‐cell RNA‐sequencing of paediatric cancer. Clinical & Translational Immunology, 14 (5) e70033, e70033-5. doi: 10.1002/cti2.70033 |
|
2025 Journal Article CellPhoneDB v5: inferring cell–cell communication from single-cell multiomics dataTroulé, Kevin, Petryszak, Robert, Cakir, Batuhan, Cranley, James, Harasty, Alicia, Prete, Martin, Tuong, Zewen Kelvin, Teichmann, Sarah A., Garcia-Alonso, Luz and Vento-Tormo, Roser (2025). CellPhoneDB v5: inferring cell–cell communication from single-cell multiomics data. Nature Protocols 6619, 1-29. doi: 10.1038/s41596-024-01137-1 |
|
2025 Journal Article Temporal profiling of human lymphoid tissues reveals coordinated defense against viral challengeCoates, Matthew L., Richoz, Nathan, Tuong, Zewen K., Bowyer, Georgina S., Lee, Colin Y. C., Ferdinand, John R., Gillman, Eleanor, McClure, Mark, Dratva, Lisa, Teichmann, Sarah A., Jayne, David R., Di Marco Barros, Rafael, Stewart, Benjamin J. and Clatworthy, Menna R. (2025). Temporal profiling of human lymphoid tissues reveals coordinated defense against viral challenge. Nature Immunology, 26 (2) 838328, 215-229. doi: 10.1038/s41590-024-02064-9 |
|
2025 Journal Article Enhancement of anti-sarcoma immunity by NK cells engineered with mRNA for expression of a EphA2-targeted CARLam, Pui Yeng, Omer, Natacha, Wong, Josh K. M., Tu, Cui, Alim, Louisa, Rossi, Gustavo R., Victorova, Maria, Tompkins, Hannah, Lin, Cheng-Yu, Mehdi, Ahmed M., Choo, Amos, Elliott, Melissa R., Coleborn, Elaina, Sun, Jane, Mercer, Timothy, Vittorio, Orazio, Dobson, Lachlan J., Mclellan, Alexander D., Brooks, Andrew, Tuong, Zewen Kelvin, Cheetham, Seth W., Nicholls, Wayne and Souza-Fonseca-Guimaraes, Fernando (2025). Enhancement of anti-sarcoma immunity by NK cells engineered with mRNA for expression of a EphA2-targeted CAR. Clinical and Translational Medicine, 15 (1) e70140, 1-21. doi: 10.1002/ctm2.70140 |
|
2025 Journal Article dandelionR: Single-cell immune repertoire trajectory analysis in RYu, Jiawei, Xu, Xiaohan, Borcherding, Nicholas and Tuong, Zewen Kelvin (2025). dandelionR: Single-cell immune repertoire trajectory analysis in R. Computational and Structural Biotechnology Journal, 27, 2890-2897. doi: 10.1016/j.csbj.2025.06.047 |
|
2024 Journal Article An organotypic atlas of human vascular cellsBarnett, Sam N., Cujba, Ana-Maria, Yang, Lu, Maceiras, Ana Raquel, Li, Shuang, Kedlian, Veronika, Pett, J. Patrick, Polanski, Krzysztof, Miranda, Antonio M. A., Xu, Chuan, Cranley, James, Kanemaru, Kazumasa, Lee, Michael, Mach, Lukas, Perera, Shani, Tudor, Catherine, Joseph, Philomeena D., Pritchard, Sophie, Toscano-Rivalta, Rebecca, Tuong, Kelvin, Bolt, Liam, Petryszak, Robert, Prete, Martin, Cakir, Batuhan, Huseynov, Alik, Sarropoulos, Ioannis, Chowdhury, Rasheda A., Elmentaite, Rasa, Madissoon, Elo ... Teichmann, Sarah A. (2024). An organotypic atlas of human vascular cells. Nature Medicine, 30 (12), 3468-3481. doi: 10.1038/s41591-024-03376-x |
|
2024 Conference Publication Early human lung immune cell development and its role in epithelial cell fateBarnes, Josephine, Yoshida, Masahiro, He, Peng, Worlock, Kaylee, Lindeboom, Rik, Suo, Chenqu, Pett, J. Patrick, Wilbrey-Clark, Anna, Dann, Emma, Mamanova, Lira, Richardson, Laura, Polanski, Krzysztof, Pennycuick, Adam, Allen-Hytinnen, Jessica, Herczeg, Iván, Arzili, Romina, Hynds, Robert, Teixeira, Vitor, Haniffa, Muzlifah, Lim, Kyungtae, Sun, Dawei, Rawlins, Emma, Oliver, Amanda, Lyons, Paul, Marioni, John, Ruhrberg, Christiana, Tuong, Zewen, Clatworthy, Menna, Reading, James ... Nikolić, Marko (2024). Early human lung immune cell development and its role in epithelial cell fate. ERS Congress 2024, Vienna, Austria, 7-11 September 2024. Sheffield, United Kingdom: European Respiratory Society. doi: 10.1183/13993003.congress-2024.oa1893 |
|
2024 Conference Publication Self or Bacteria-reactive Th17 Expand from Conventional and Regulatory T Cells in Parabacteroides Goldsteinii Gnotobiotic Arthritic SKG Mice, in Context of Interferon-driven Synovial Inflammatory Macrophages and Reduced Bacterial Immune RegulationCai, Benjamin, Tuong, Zewen Kelvin, Morrison, Mark, Bergot, Anne-Sophie and Thomas, Ranjeny (2024). Self or Bacteria-reactive Th17 Expand from Conventional and Regulatory T Cells in Parabacteroides Goldsteinii Gnotobiotic Arthritic SKG Mice, in Context of Interferon-driven Synovial Inflammatory Macrophages and Reduced Bacterial Immune Regulation. ACR Convergence 2024, Washington, DC United States, 15–19 November 2024. Hoboken, NJ United States: John Wiley & Sons. |
|
2024 Journal Article Computational estimation of clonal diversity in autoimmunityTuong, Zewen Kelvin, van der Merwe, Rohan, Canete, Pablo F and Roco, Jonathan A (2024). Computational estimation of clonal diversity in autoimmunity. Immunology and Cell Biology, 102 (8), 692-701. doi: 10.1111/imcb.12801 |
|
2024 Journal Article Embracing computational immunologyCañete, Pablo F and Tuong, Zewen Kelvin (2024). Embracing computational immunology. Immunology & Cell Biology, 102 (8), 663-664. doi: 10.1111/imcb.12817 |
|
2024 Conference Publication The effect of low-dose interleukin-2 on the T cell receptor landscape in patients with acute myocardial infarctionCase, Ayden, O'Brien, James, Sriranjan, Rochelle, Tuong, Zewen Kelvin, Cheriyan, Joseph, Clatworthy, Menna, Mallat, Ziad and Zhao, Tian (2024). The effect of low-dose interleukin-2 on the T cell receptor landscape in patients with acute myocardial infarction. EAS Congress 2024, Lyon, France, 26-29 May 2024. Elsevier. doi: 10.1016/j.atherosclerosis.2024.118476 |
|
2024 Conference Publication LOW DOSE INTERLEUKIN 2 EXPANDS PLASMABLASTS WITH A REGULATORY B CELL PHENOTYPE POST-MTO'Brien, James, Case, Ayden, Sriranjan, Rochelle, Tuong, Zewen Kelvin, Cheriyan, Joseph, Clatworthy, Menna, Mallat, Ziad and Zhao, Tian (2024). LOW DOSE INTERLEUKIN 2 EXPANDS PLASMABLASTS WITH A REGULATORY B CELL PHENOTYPE POST-MT. 92nd Congress of the European-Atherosclerosis-Society (EAS), Lyon France, May 26-29, 2024. CLARE: ELSEVIER IRELAND LTD. |
|
2024 Conference Publication Low dose interleukin 2 expands plasmablasts with a regulatory b cell phenotype post-MIO'Brien, James, Case, Ayden, Sriranjan, Rochelle, Tuong, Zewen Kelvin, Cheriyan, Joseph, Clatworthy, Menna, Mallat, Ziad and Zhao, Tian (2024). Low dose interleukin 2 expands plasmablasts with a regulatory b cell phenotype post-MI. EAS Congress 2024, Lyon, France, 26-29 May 2024. Amsterdam, Netherlands: Elsevier. doi: 10.1016/j.atherosclerosis.2024.118287 |
|
2024 Journal Article Measuring single-cell immune clonality to track haematological cancersChoo, Amos and Tuong, Zewen Kelvin (2024). Measuring single-cell immune clonality to track haematological cancers. Clinical and Translational Medicine, 14 (8) e1780, e1780. doi: 10.1002/ctm2.1780 |
|
2024 Conference Publication THE EFFECT OF LOW-DOSE INTERLEUKIN-2 ON THE T CELL RECEPTOR LANDSCAPE IN PATIENTS WITH ACUTE MYOCARDIAL INFARCTIONCase, Ayden, O'Brien, James, Sriranjan, Rochelle, Tuong, Zewen Kelvin, Cheriyan, Joseph, Clatworthy, Menna, Mallat, Ziad and Zhao, Tian (2024). THE EFFECT OF LOW-DOSE INTERLEUKIN-2 ON THE T CELL RECEPTOR LANDSCAPE IN PATIENTS WITH ACUTE MYOCARDIAL INFARCTION. 92nd Congress of the European-Atherosclerosis-Society (EAS), Lyon France, May 26-29, 2024. CLARE: ELSEVIER IRELAND LTD. |
|
2024 Journal Article TGF-β signalling limits effector function capacity of NK cell anti-tumour immunity in human bladder cancerWong, 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 |
