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2025 Journal Article Integrated profiling of metaplastic breast cancer identifies putative master regulators of intratumoral heterogeneityFeng, Yufan, Xiong, Albert, Mulay, Onkar, Sokolova, Anna, Lim, Malcolm, Van Haeringen, Benjamin, McGuire, Natasha, de Luca, Xavier, Simpson, Peter T., Nguyen, Quan, Lakhani, Sunil R. and McCart Reed, Amy E. (2025). Integrated profiling of metaplastic breast cancer identifies putative master regulators of intratumoral heterogeneity. npj Breast Cancer, 11 (1) 89, 1. doi: 10.1038/s41523-025-00807-x |
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2025 Journal Article Cell-cell interactions as predictive and prognostic markers for drug responses in cancerLu, Xuehan, Tan, Xiao, Kim, Eun Ju, Jin, Xinnan, Donovan, Meg L, Gonzalez Cruz, Jazmina L., Xiong, Zherui, de Los Reyes Becerra Perez, Maria Reyes Becerra, Gong, Jialei, Monkman, James, Agrawal, Divya, Kulasinghe, Arutha, U. Q. CellOmics Innovation Forum, Nguyen, Quan and Tuong, Zewen Kelvin (2025). Cell-cell interactions as predictive and prognostic markers for drug responses in cancer. Genome Medicine, 17 (1) 117, 1-20. doi: 10.1186/s13073-025-01518-5 |
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2025 Other Outputs Spatial Transcriptomic Signature of Progressive Fibrosis in Human MASLD: Role of Senescence and Metabolic ReprogrammingVu, Hani, Sun, Yuliangzi, Xiong, Zherui, Tan, Xiao, Irvine, Katharine, Nguyen, Quan H. and Powell, Elizabeth E. (2025). Spatial Transcriptomic Signature of Progressive Fibrosis in Human MASLD: Role of Senescence and Metabolic Reprogramming. The University of Queensland. (Dataset) doi: 10.48610/e95155f |
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2025 Conference Publication Spatial transcriptomics reveals molecular determinants of mortality in thin melanomaZhou, C., Tan, S.X., Kao, Y., Claeson, M., Brown, S., Lambie, D., Whiteman, D.C., Pandeya, N., Olsen, C.M., Barbour, A., MacGregor, S., Soyer, H.P., Stark, M.S., Hayward, N., Smithers, B.M., Nguyen, Q. and Khosrotehrani, K. (2025). Spatial transcriptomics reveals molecular determinants of mortality in thin melanoma. Society for Investigative Dermatology (SID) 2025 Meeting, San Diego, CA United States, 7-10 May 2025. Oxford, United Kingdom: Elsevier. doi: 10.1016/j.jid.2025.06.109 |
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2025 Conference Publication Epithelial-mesenchymal transition and immune exclusion underpin the natural history of primary cutaneous melanomaTan, S.X., Muller, N., Zhou, C., Vipulaguna, N., Kao, Y., Whiteman, D.C., Soyer, H.P., Stark, M.S., Nguyen, Q. and Khosrotehrani, K. (2025). Epithelial-mesenchymal transition and immune exclusion underpin the natural history of primary cutaneous melanoma. Society for Investigative Dermatology (SID) 2025 Meeting, San Diego, CA United States, 7-10 May 2025. Oxford, United Kingdom: Elsevier. doi: 10.1016/j.jid.2025.06.953 |
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2025 Journal Article Transcriptomic plasticity of human alveolar macrophages revealed by single-cell RNA sequencing following drug exposure: implications for therapeutic developmentGroves, Penny L., Hockey, Levi, O’Sullivan, Brendan J., Zhang, Lai-Ying, Xiong, Zherui, Nguyen, Quan H., Tan, Maxine E., Lutzky, Viviana P., Davis, Rohan A., Chambers, Daniel C. and Apte, Simon H. (2025). Transcriptomic plasticity of human alveolar macrophages revealed by single-cell RNA sequencing following drug exposure: implications for therapeutic development. International Journal of Molecular Sciences, 26 (9) 4439, 4439. doi: 10.3390/ijms26094439 |
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2025 Journal Article Corrigendum to “Tolerogenic dendritic cells protect against acute kidney injury.” Kidney International 2023;104:492–507 (Kidney International (2023) 104(3) (492–507), (S0085253823003782), (10.1016/j.kint.2023.05.008))Li, Jennifer S.Y., Robertson, Harry, Trinh, Katie, Raghubar, Arti M., Nguyen, Quan, Matigian, Nicholas, Patrick, Ellis, Thomson, Angus W., Mallett, Andrew J. and Rogers, Natasha M. (2025). Corrigendum to “Tolerogenic dendritic cells protect against acute kidney injury.” Kidney International 2023;104:492–507 (Kidney International (2023) 104(3) (492–507), (S0085253823003782), (10.1016/j.kint.2023.05.008)). Kidney International, 107 (5), 949-949. doi: 10.1016/j.kint.2025.02.001 |
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2025 Conference Publication Unravelling melanoma brain metastasis tumor microenvironment characteristics using spatial transcriptomicsBelle, Clemence J., Brosda, Sandra, Bonazzi, Vanessa F., Bulteau, Victor, Stuart, Thomas, Xiong, Zherui, Lambie, Duncan, Johansson, Peter A., Aoude, Lauren G., Patel, Kalpana, Stehbens, Samantha J., Stark, Mitchell S., Haass, Nikolas K., Xu, Wen, Pinkham, Mark B., Foote, Matthew C., Olson, Sarah, Atkinson, Victoria, Kulasinghe, Arutha, Nguyen, Quan H. and Barbour, Andrew (2025). Unravelling melanoma brain metastasis tumor microenvironment characteristics using spatial transcriptomics. AACR Annual Meeting 2025, Chicago, IL United States, 25-30 April 2025. Philadelphia, PA United States: American Association for Cancer Research. doi: 10.1158/1538-7445.am2025-5076 |
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2025 Journal Article The single-cell spatial landscape of stage III colorectal cancersSu, Andrew, Lee, HoJoon, Tran, Minh, dela Cruz, Richard C., Sathe, Anuja, Bai, Xiangqi, Wichmann, Ignacio, Pflieger, Lance, Moulton, Bryce, Barker, Tyler, Haslem, Derrick, Jones, David, Nadauld, Lincoln, Nguyen, Quan, Ji, Hanlee P. and Rhodes, Terence (2025). The single-cell spatial landscape of stage III colorectal cancers. Npj Precision Oncology, 9 (1) 101, 1-13. doi: 10.1038/s41698-025-00853-5 |
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2025 Journal Article A spatial transcriptomic signature of 26 genes resolved at single-cell resolution characterizes high-risk gastric cancer precursorsHuang, Robert J., Wichmann, Ignacio A., Su, Andrew, Sathe, Anuja, Shum, Miranda V., Grimes, Susan M., Meka, Rithika, Almeda, Alison, Bai, Xiangqi, Shen, Jeanne, Nguyen, Quan, Luo, Ingrid, Han, Summer S., Amieva, Manuel R., Hwang, Joo Ha and Ji, Hanlee P. (2025). A spatial transcriptomic signature of 26 genes resolved at single-cell resolution characterizes high-risk gastric cancer precursors. npj Precision Oncology, 9 (1) 52, 1-13. doi: 10.1038/s41698-025-00816-w |
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2025 Journal Article Spatial analysis of a complete DIPG-infiltrated brainstem reveals novel ligand-receptor mediators of tumour-to-TME crosstalkKordowski, Anja, Mulay, Onkar, Tan, Xiao, Vo, Tuan, Baumgartner, Ulrich, Maybury, Mellissa K., Hassall, Timothy, Harris, Lachlan, Nguyen, Quan and Day, Bryan W. (2025). Spatial analysis of a complete DIPG-infiltrated brainstem reveals novel ligand-receptor mediators of tumour-to-TME crosstalk. Acta Neuropathologica Communications, 13 (1) 35. doi: 10.1186/s40478-025-01952-x |
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2025 Journal Article Atlas of multilineage stem cell differentiation reveals TMEM88 as a developmental regulator of blood pressureShen, Sophie, Werner, Tessa, Lukowski, Samuel W., Andersen, Stacey, Sun, Yuliangzi, Shim, Woo Jun, Mizikovsky, Dalia, Kobayashi, Sakurako, Outhwaite, Jennifer, Chiu, Han Sheng, Chen, Xiaoli, Chapman, Gavin, Martin, Ella M. M. A., Xia, Di, Pham, Duy, Su, Zezhuo, Kim, Daniel, Yang, Pengyi, Tan, Men Chee, Sinniah, Enakshi, Zhao, Qiongyi, Negi, Sumedha, Redd, Meredith A., Powell, Joseph E., Dunwoodie, Sally L., Tam, Patrick P. L., Bodén, Mikael, Ho, Joshua W. K., Nguyen, Quan and Palpant, Nathan J. (2025). Atlas of multilineage stem cell differentiation reveals TMEM88 as a developmental regulator of blood pressure. Nature Communications, 16 (1) 1356, 1-19. doi: 10.1038/s41467-025-56533-2 |
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2025 Journal Article Assessing spatial sequencing and imaging approaches to capture the molecular and pathological heterogeneity of archived cancer tissuesVo, Tuan, Prakrithi, P., Jones, Kahli, Yoon, Sohye, Lam, Pui Yeng, Kao, Yung-Ching, Ma, Ning, Tan, Samuel X., Jin, Xinnan, Zhou, Chenhao, Crawford, Joanna, Walters, Shaun, Gupta, Ishaan, Soyer, Peter H., Khosrotehrani, Kiarash, Stark, Mitchell S. and Nguyen, Quan (2025). Assessing spatial sequencing and imaging approaches to capture the molecular and pathological heterogeneity of archived cancer tissues. Journal of Pathology, 265 (3), 274-288. doi: 10.1002/path.6383 |
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2025 Conference Publication Genomic landscape of melanoma-prone skinLee, K., Kao, Y.-C., Smith, D.J., Oey, H., Saldias Montivero, M.K., Causer, A., Christiansen, B.C., Nguyen, Q., Soyer, H.P. and Stark, M.S. (2025). Genomic landscape of melanoma-prone skin. 21st EADO Congress & 11th World Congress of Melanoma, Athens, Greece, 3-5 April 2025. London, United Kingdom: Elsevier. doi: 10.1016/j.ejcskn.2025.100506 |
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2024 Journal Article Diversity-driven, efficient exploration of a MOF design space to optimize MOF propertiesLiu, Tsung-Wei, Nguyen, Quan, Dieng, Adji Bousso and Gomez-Gualdron, Diego A. (2024). Diversity-driven, efficient exploration of a MOF design space to optimize MOF properties. Chemical Science, 15 (45), 18903-18919. doi: 10.1039/d4sc03609c |
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2024 Journal Article Squamous cell carcinoma is associated with reduced IL34 expression, alterations in the Langerhans cell antigen‐processing‐presentation machinery and poor patient survivalDang, Thi Viet Trinh, Gillinder, Kevin R., Nguyen, Quan, Mulay, Onkar, Vo, Tuan, Mehdi, Ahmed M., Zhou, Chenhao, Brooks, Andrew J., Leggatt, Graham R., Hume, David A., Frazer, Ian H. and Chandra, Janin (2024). Squamous cell carcinoma is associated with reduced IL34 expression, alterations in the Langerhans cell antigen‐processing‐presentation machinery and poor patient survival. Clinical and Translational Immunology, 13 (12) e70018, 1-18. doi: 10.1002/cti2.70018 |
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2024 Journal Article Spatial analysis of HPV associated cervical intraepithelial neoplastic tissues demonstrate distinct immune signatures associated with cervical cancer progressionPavilion, Gianna, Vu, Hani, Xiong, Zherui, Dang, Thi Viet Trinh, Walsh, Michael, Causer, Andrew, Chandra, Janin, Nguyen, Quan and Frazer, Ian H. (2024). Spatial analysis of HPV associated cervical intraepithelial neoplastic tissues demonstrate distinct immune signatures associated with cervical cancer progression. doi: 10.1101/2024.10.02.611623 |
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2024 Journal Article The activity of early-life gene regulatory elements is hijacked in aging through pervasive AP-1-linked chromatin openingPatrick, Ralph, Naval-Sanchez, Marina, Deshpande, Nikita, Huang, Yifei, Zhang, Jingyu, Chen, Xiaoli, Yang, Ying, Tiwari, Kanupriya, Esmaeili, Mohammadhossein, Tran, Minh, Mohamed, Amin R., Wang, Binxu, Xia, Di, Ma, Jun, Bayliss, Jacqueline, Wong, Kahlia, Hun, Michael L., Sun, Xuan, Cao, Benjamin, Cottle, Denny L., Catterall, Tara, Barzilai-Tutsch, Hila, Troskie, Robin-Lee, Chen, Zhian, Wise, Andrea F., Saini, Sheetal, Soe, Ye Mon, Kumari, Snehlata, Sweet, Matthew J. ... Nefzger, Christian M. (2024). The activity of early-life gene regulatory elements is hijacked in aging through pervasive AP-1-linked chromatin opening. Cell Metabolism, 36 (8), 1858-1881.e23. doi: 10.1016/j.cmet.2024.06.006 |
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2024 Conference Publication Spatial Transcriptomic Sequencing Of A DIPG Patient Tumour ResourceKordowski, Anja, Mulay, Onkar, Harris, Lachlan, Nguyen, Quan H and Day, Bryan W. (2024). Spatial Transcriptomic Sequencing Of A DIPG Patient Tumour Resource. 2024 International Symposium on Pediatric Neuro-Oncology (ISPNO), Philadelphia, PA United States, 29 June – 2 July 2024. Cary, NC United States: Oxford University Press. doi: 10.1093/neuonc/noae064.102 |
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2024 Journal Article Exercise rejuvenates microglia and reverses T cell accumulation in the aged female mouse brainChauquet, Solal, Willis, Emily F., Grice, Laura, Harley, Samuel B. R., Powell, Joseph E., Wray, Naomi R., Nguyen, Quan, Ruitenberg, Marc J., Shah, Sonia and Vukovic, Jana (2024). Exercise rejuvenates microglia and reverses T cell accumulation in the aged female mouse brain. Aging Cell, 23 (7) e14172, e14172. doi: 10.1111/acel.14172 |
