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2022 Journal Article Profiling of lung SARS-CoV-2 and influenza virus infection dissects virus-specific host responses and gene signaturesKulasinghe, Arutha, Tan, Chin Wee, dos Santos Miggiolaro, Anna Flavia Ribeiro, Monkman, James, SadeghiRad, Habib, Bhuva, Dharmesh D., da Silva Motta Junior, Jarbas, Vaz de Paula, Caroline Busatta, Nagashima, Seigo, Baena, Cristina Pellegrino, Souza-Fonseca-Guimaraes, Paulo, de Noronha, Lucia, McCulloch, Timothy, Rodrigues Rossi, Gustavo, Cooper, Caroline, Tang, Benjamin, Short, Kirsty R., Davis, Melissa J., Souza-Fonseca-Guimaraes, Fernando, Belz, Gabrielle T. and O'Byrne, Ken (2022). Profiling of lung SARS-CoV-2 and influenza virus infection dissects virus-specific host responses and gene signatures. European Respiratory Journal, 59 (6) 2101881, 1-19. doi: 10.1183/13993003.01881-2021 |
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2025 Journal Article Society for Immunotherapy of Cancer: Standards for Reporting of Multiplex Immunohistochemistry/Immunofluorescence Assays (STORMI)Sater, Sam, Bifulco, Carlo B., Rodriguez-Canales, Jaime, Yeong, Joe, Akturk, Guray, Angelo, Michael, Ballesteros-Merino, Carmen, Bankhead, Peter, Basu, Subham, Blando, Jorge M., Brajkovic, Saska, Cassano, Marco, Chen, Benjamin J., Coskun, Ahmet F., Cottrell, Tricia R., De Andrea, Carlos E., Edwards, Robin H., Egelston, Colt, Engle, Logan L., Ernstoff, Marc S., Fan, Rong, Feldman, Michael, Fox, Bernard A., Galon, Jerome, Gartrell, Robyn, Gnjatic, Sacha, Green, Benjamin F., Gulley, James L., Hellebust, Anne ... Taube, Janis M. (2025). Society for Immunotherapy of Cancer: Standards for Reporting of Multiplex Immunohistochemistry/Immunofluorescence Assays (STORMI). Journal for immunotherapy of cancer, 13 (12) e012280, e012280. doi: 10.1136/jitc-2025-012280 |
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2025 Journal Article A Digital Single‐Molecule Nanocavity Assay to Monitor Phosphoprotein Circuits in Single‐CellMiao, Xinzhe, Shanmugasundaram, Karthik, Vedelago, Courtney, Naei, Vahid Yaghoubi, Kulasinghe, Arutha, Lobb, Richard, Trau, Matt and Wuethrich, Alain (2025). A Digital Single‐Molecule Nanocavity Assay to Monitor Phosphoprotein Circuits in Single‐Cell. Advanced Materials Technologies e02611. doi: 10.1002/admt.202502611 |
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2025 Journal Article Carbonic anhydrase 3 overexpression modulates signalling pathways associated with cellular stress resilience and proteostasisYu, Yezhou, Anugraham, Merrina, Blick, Tony, Kulasinghe, Arutha, Sternicki, Louise M., Di Trapani, Giovanna, Poulsen, Sally-Ann, Kolarich, Daniel and Tonissen, Kathryn F. (2025). Carbonic anhydrase 3 overexpression modulates signalling pathways associated with cellular stress resilience and proteostasis. International Journal of Molecular Sciences, 26 (24) 12064. doi: 10.3390/ijms262412064 |
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2025 Conference Publication 95 Metabolic reprogramming of glycolysis, fatty acid oxidation, and anti-oxidative stress in macrophages is predictive of immunotherapy response in patients with non-small cell lung cancer (NSCLC)Yan, Raymond, Falkenstein, Brian, Burak Tosun, A, Monkman, James, Pullara, Filippo, Kulasinghe, Arutha and Chakra Chennubhotla, S (2025). 95 Metabolic reprogramming of glycolysis, fatty acid oxidation, and anti-oxidative stress in macrophages is predictive of immunotherapy response in patients with non-small cell lung cancer (NSCLC). BMJ Publishing Group Ltd. doi: 10.1136/jitc-2025-sitc2025.0095 |
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2025 Conference Publication 1256 Metabolic mapping of non-small cell lung cancer reveals spatial features associated with immunotherapy resistance and response in the first-line settingKulasinghe, Arutha (2025). 1256 Metabolic mapping of non-small cell lung cancer reveals spatial features associated with immunotherapy resistance and response in the first-line setting. BMJ Publishing Group Ltd. doi: 10.1136/jitc-2025-sitc2025.1256 |
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2025 Conference Publication 69 Markers of Wnt/B-catenin signaling and glutamine utilization within the stromal microenvironment in head & neck squamous cell carcinoma (HNSCC) predict cancer recurrenceYan, Raymond, Falkenstein, Brian, Burak Tosun, A, Monkman, James, Pullara, Filippo, Kulasinghe, Arutha and Chakra Chennubhotla, S (2025). 69 Markers of Wnt/B-catenin signaling and glutamine utilization within the stromal microenvironment in head & neck squamous cell carcinoma (HNSCC) predict cancer recurrence. BMJ Publishing Group Ltd. doi: 10.1136/jitc-2025-sitc2025.0069 |
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2025 Journal Article Editorial: Response/resistance to PD-1 axis inhibitors: focus on the tumor microenvironmentFazeli, Parmees, Yaghoubi, Diba, Vathiotis, Ioannis, Kulasinghe, Arutha and Aung, Thazin N. (2025). Editorial: Response/resistance to PD-1 axis inhibitors: focus on the tumor microenvironment. Frontiers in Immunology, 16 1720955, 1720955. doi: 10.3389/fimmu.2025.1720955 |
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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 Journal Article Spatial signatures for predicting immunotherapy outcomes using multi-omics in non-small cell lung cancerAung, Thazin N., Monkman, James, Warrell, Jonathan, Vathiotis, Ioannis, Bates, Katherine M., Gavrielatou, Niki, Trontzas, Ioannis P., Tan, Chin Wee, Fernandez, Aileen I., Moutafi, Myrto, O’ Byrne, Ken, Schalper, Kurt A., Syrigos, Konstantinos, Herbst, Roy S., Kulasinghe, Arutha and Rimm, David L. (2025). Spatial signatures for predicting immunotherapy outcomes using multi-omics in non-small cell lung cancer. Nature Genetics, 57 (10), 2482-2493. doi: 10.1038/s41588-025-02351-7 |
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2025 Journal Article Response-adapted surgical and radiotherapy de-escalation in resectable cutaneous squamous cell cancer using pembrolizumab: the De-Squamate studyLadwa, Rahul, Lee, Jenny H., McGrath, Margaret, Cooper, Caroline, Liu, Howard, Bowman, James, Gupta, Ruta, Cuscaden, Claire, Nottage, Michelle, Clark, Jonathan R., Le, Dieu, Pauley, Marketa, Kulasinghe, Arutha, Gonzalez-Cruz, Jazmina, Porceddu, Sandro V., Hughes, Brett G.M. and Panizza, Benedict (2025). Response-adapted surgical and radiotherapy de-escalation in resectable cutaneous squamous cell cancer using pembrolizumab: the De-Squamate study. Journal of Clinical Oncology, 43 (26) JCO-25-00387, 2888-2896. doi: 10.1200/jco-25-00387 |
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2025 Journal Article Proximity and metabolic activity proxies in the Tumour Microenvironment as predictors of survival in High Grade Serous Ovarian Cancer (HGSOC)Berrell, Naomi, Kilgallon, Aaron, Donovan, Meg L., Lawler, Clara, Tan, Chin Wee, Embaye, Kidane S., Tubelleza, Rafael, Monkman, James, Fraser, John F., O’Byrne, Ken, Huang, Ruby and Kulasinghe, Arutha (2025). Proximity and metabolic activity proxies in the Tumour Microenvironment as predictors of survival in High Grade Serous Ovarian Cancer (HGSOC). iScience, 28 (10) 113572, 113572. doi: 10.1016/j.isci.2025.113572 |
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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 |
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2025 Journal Article PRISM: a Python package for interactive and integrated analysis of multiplexed tissue microarraysTubelleza, Rafael, Kilgallon, Aaron, Tan, Chin Wee, Monkman, James, Fraser, John F and Kulasinghe, Arutha (2025). PRISM: a Python package for interactive and integrated analysis of multiplexed tissue microarrays. NAR Genomics and Bioinformatics, 7 (3) lqaf114, lqaf114-3. doi: 10.1093/nargab/lqaf114 |
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2025 Journal Article The development of a high-plex spatial proteomic methodology for the characterisation of the head and neck tumour microenvironmentTan, Chin Wee, Berrell, Naomi, Donovan, Meg L., Monkman, James, Lawler, Clara, Sadeghirad, Habib, Naei, Vahid Yaghoubi, Chen, Jinjin, Rossenbloom, Alyssa, Bonnett, Shilah, Conner, Mark, Filanoski, Brian, Kang, Christine, Beechem, Joseph M., Fraser, John F., Barnett, Catherine, Ladwa, Rahul, Hughes, Brett G. M. and Kulasinghe, Arutha (2025). The development of a high-plex spatial proteomic methodology for the characterisation of the head and neck tumour microenvironment. npj Precision Oncology, 9 (1) 191, 191-1. doi: 10.1038/s41698-025-00963-0 |
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2025 Other Outputs Metabolic microenvironment predictors of NSCLC immunotherapy responseKulasinghe, Arutha, Monkman, James, Tubelleza, Rafael, Kilgallon, Aaron and Lawler, Clara (2025). Metabolic microenvironment predictors of NSCLC immunotherapy response. The University of Queensland. (Dataset) doi: 10.48610/73b218c |
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2025 Conference Publication Spatial profiling of tumor microenvironment uncovers potential novel therapeutic approach in pediatric neuroblastomaTu, Cui, Tan, Chin Wee, Monkman, James, Almeida, Ana Clara, Antonio-Carreon, Gabrielle, Omer, Natacha, Hull, Giaan, Chung, Kimberly, Mehdi, Ahmed, Salerno, Antonietta, Vittorio, Orazio, Mayer, Aaron, Machado de Souza, Cleber, de Almeida Brehm Pinhati, Fernanda, Elifio-Esposito, Selene, Nicholls, Wayne, de Noronha, Lucia, Kulasinghe, Arutha and Souza-Fonseca-Guimaraes, Fernando (2025). Spatial profiling of tumor microenvironment uncovers potential novel therapeutic approach in pediatric neuroblastoma. 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.am2025-2705 |
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2025 Conference Publication Tumor microenvironment profiling of multiplexed images in head and neck cancer reveals spatial features associated with immunotherapy responseMarkovits, Ettai, Monkman, James, Kilgallon, Aaron, Aung, Thazin Nwe, Rimm, David and Kulasinghe, Arutha (2025). Tumor microenvironment profiling of multiplexed images in head and neck cancer reveals spatial features associated with immunotherapy response. 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.am2025-156 |
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2025 Conference Publication A Bayesian framework for unraveling disease biology from spatially resolved single-cell omics datasets by combining unbiased approaches with biological priors for cell-based microdomain discoveryFalkenstein, Brian, Yan, Raymond, Quinn, Shannon, Tosun, Akif Burak, Chennubhotla, S. Chakra, Kulasinghe, Arutha and Pullara, Filippo (2025). A Bayesian framework for unraveling disease biology from spatially resolved single-cell omics datasets by combining unbiased approaches with biological priors for cell-based microdomain discovery. 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.am2025-2485 |
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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 |
