|
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 |
|
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 |
|
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. doi: 10.1038/s41523-025-00807-x |
|
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 |
|
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 |
|
2025 Other Outputs Integrating 12 spatial and single cell technologies to characterise tumour neighbourhoods and cellular interactions in three skin cancer typesPrakrithi, P., Grice, Laura F., Zhang, Feng, Hockey, Levi, Tan, Samuel X., Tan, Xiao, Xiong, Zherui, Mulay, Onkar, Causer, Andrew, Newman, Andrew, Pham, Duy, Ni, Guiyan, Tuong, Kelvin, Jin, Xinnan, Kim, Eunju, Tran, Minh, Vu, Hani, Muller, Nicholas M., Killingbeck, Emily E., Gregory, Mark T., Teoh, Siok Min, Vo, Tuan, Zhang, Min, Landi, Maria Teresa, Brown, Kevin M., Iles, Mark M., Reitz, Zachary, Devitt, Katharina, Pan, Liuliu ... Nguyen, Quan (2025). Integrating 12 spatial and single cell technologies to characterise tumour neighbourhoods and cellular interactions in three skin cancer types. doi: 10.1101/2025.07.25.666708 |
|
2025 Conference Publication Thick versus thin: the natural history of primary melanoma is characterized by Mesenchymal transition and immune exclusionTan, Samuel, Muller, Nicholas, Zhou, Chenhao, Kao, Yung-Ching, Vipulaguna, Nisal, Gavanescu, Danielle, Roy, Edwige, Whiteman, David, Soyer, H. Peter, Stark, Mitchell, Nguyen, Quan and Khosrotehrani, Kiarash (2025). Thick versus thin: the natural history of primary melanoma is characterized by Mesenchymal transition and immune exclusion. Australasian College of Dermatologists, 57th Annual Scientific Meeting, Brisbane, QLD, Australia, 31 May 2025 – 2 June 2025. Richmond, VIC, Australia: John Wiley & Sons. |
|
2025 Conference Publication Identifying tissue-level markers for thin melanoma survival via model-based clustering of spatial omics dataZhang, Min, Arief, Vivi, McLachlan, Geoffrey, Nguyen, Quan and Basford, Kaye (2025). Identifying tissue-level markers for thin melanoma survival via model-based clustering of spatial omics data. Stat4Onc Symposium, Stanford, CA, United States, 16-17 May 2025. |
|
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 |
|
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 |
|
2025 Journal Article Caspase-1 self-terminates protease activity to enforce homeostasis and prevent inflammasome-driven diseasesBurgener, Sabrina Sofia, Milner, Mark Thomas, Dey, Shoumit, Morgan, Pooranee K., Blackmore, Daniel G., Frampton, Emmanuelle, Miller, Gregory, Duarte de Oliveira, Monalisa, Kenney, Kirsten Myra, Bajracharya, Rinie, Baumgartner, Ulrich, Collins, Thomas J. C., Xiong, Zherui, Nguyen, Quan, Meikle, Peter J., Bodea, Liviu-Gabriel, Clouston, Andrew, Boucher, Dave, Götz, Jurgen, Murphy, Andrew J., Kaye, Paul M. and Schroder, Kate (2025). Caspase-1 self-terminates protease activity to enforce homeostasis and prevent inflammasome-driven diseases. BioRxiv. doi: 10.1101/2025.04.28.651119 |
|
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 |
|
2025 Conference Publication Concurrent spatial transcriptomics and metabolomics map differential effects of drug across brain cancer tissuesVo, Tuan, Cui, Cedric, Causer, Andrew, Tan, Xiao, Kim, Eunju, Xiong, Zherui, Vu, Hani, Hodson, Mark, Lu, Tianyao, Freytag, Saskia, Fung, Jenny, Lee, John and Nguyen, Quan (2025). Concurrent spatial transcriptomics and metabolomics map differential effects of drug across brain cancer tissues. AACR Annual Meeting 2025, 25-30 April 2025, Chicago, IL USA. Washington, DC USA: American Association for Cancer Research. doi: 10.1158/1538-7445.am2025-5067 |
|
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 |
|
2025 Conference Publication Environmentally stressed drug- naive melanoma cell subpopulations share a molecular signature with drug- induced early persister cells and drug-resistant cellsKangachar, S. Asgharzadeh, Ahmed, F., Al Emran, A., Matigian, N., Boyle, G. M., Nguyen, Q., Schaider, H. and Haass, N. K. (2025). Environmentally stressed drug- naive melanoma cell subpopulations share a molecular signature with drug- induced early persister cells and drug-resistant cells. 51st Annual Meeting of the Arbeitsgemeinschaft Dermatologische Forschung (ADF), Berlin, Germany, 12–15 March 2025. Chichester, West Sussex United Kingdom: Wiley-Blackwell. |
|
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 |
|
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, 35. doi: 10.1186/s40478-025-01952-x |
|
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 |
|
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 |
|
2025 Other Outputs STimage dataset for SkinVisium raw sequencing dataTan, Xiao and Nguyen, Quan (2025). STimage dataset for SkinVisium raw sequencing data. The University of Queensland. (Dataset) doi: 10.48610/c179fee |
