Select Publications
Book Chapters
2019, 'Single-Cell Transcriptome Analysis of T Cells', in Methods in Molecular Biology, pp. 155 - 205, http://dx.doi.org/10.1007/978-1-4939-9728-2_16
,2016, 'Next-Generation Sequencing, What Has It Told Us So Far?', in Foodborne Viral Pathogens, CRC Press
,2008, 'ProteaMAlg: a Proteasome Modelling Algorithm to address the complexity of intracellular protein degradation kinetics.', in Gastone C; Lamberti E; Fortunati V; Franceschi C (ed.), Biocomplexity at the cutting edge of Physics, System Biology and Humanities, Bononia University Press, Bononia
,2007, 'Constructing a virtual proteasome', in Bertau M; Mosekilde E; Westerhoff HV (ed.), Biosimulation in Drug Development, Wiley-VCH Verlag GmbH & Co, Germany, pp. 373 - 402
,2007, 'Theoretical models for proteasome function: predictive methods to understand the ubiquitin protein system in neurodegenerative diseases. [Chapter on modelling proteasome degradation and of potential mechanisms behind the accumulation of proteins leading to neurodegenerative diseases, such as Huntington disease or Amyotrophic Lateral Sclerosis.]', in Napoli MD; Wojcik C (ed.), The Ubiquitin Proteasome System in the Central Nervous System: From Physiology to Pathology, Nova Biomedical Books
,2006, 'Mathematical models of the proteasome product size', in Schimansky Geier L; Malchow H; Poeschel T (ed.), Irreversible Prozesse und Selbstorganisation, Logos-Verlag, Berlin, pp. 279 - 292
,2006, 'Mathematical models of the proteasome product size distribution', in Schimansky-Geier L; Malchow H; Poeschel T (ed.), Irreversible Prozesse und Selbstorganisation, Logos-Verlag, Berlin, pp. 196 - 208
,Journal articles
2024, 'In-depth profiling of tumor tissue derived from malignant pleural mesothelioma patients identifies potential biomarkers predicting response to immune-checkpoint inhibitor therapy', Genes and Diseases, 11, http://dx.doi.org/10.1016/j.gendis.2023.101189
,2024, 'A novel network-based method identifies a cuproplasia-related pan-cancer gene signature to predict patient outcome', Human Genetics, 143, pp. 1145 - 1162, http://dx.doi.org/10.1007/s00439-024-02673-2
,2024, 'B-cell characteristics define HCV reinfection outcome', Journal of Hepatology, 81, pp. 415 - 428, http://dx.doi.org/10.1016/j.jhep.2024.04.004
,2024, 'Discovery of a monoclonal, high-affinity CD8+ T-cell clone following natural hepatitis C virus infection', Immunology and Cell Biology, 102, pp. 630 - 641, http://dx.doi.org/10.1111/imcb.12791
,2024, 'The CD8+ T cell tolerance checkpoint triggers a distinct differentiation state defined by protein translation defects', Immunity, 57, pp. 1324 - 1344.e8, http://dx.doi.org/10.1016/j.immuni.2024.04.026
,2024, 'Abstract 882: Harnessing single cell multi-omics data to identify predictors of clinical outcome in CD19 CAR T cell therapy', Cancer Research, 84, pp. 882 - 882, http://dx.doi.org/10.1158/1538-7445.am2024-882
,2024, 'Identification of clonally expanded γδ T-cell populations during CAR-T cell therapy', Immunology and Cell Biology, http://dx.doi.org/10.1111/imcb.12834
,2023, 'CAR+ and CAR− T cells share a differentiation trajectory into an NK-like subset after CD19 CAR T cell infusion in patients with B cell malignancies', Nature Communications, 14, http://dx.doi.org/10.1038/s41467-023-43656-7
,2023, 'Chimeric Antigen Receptor T Cell Therapy Targeting Epithelial Cell Adhesion Molecule in Gastric Cancer: Mechanisms of Tumor Resistance', Cancers, 15, http://dx.doi.org/10.3390/cancers15235552
,2023, 'Global and cell type-specific immunological hallmarks of severe dengue progression identified via a systems immunology approach', Nature Immunology, 24, pp. 2150 - 2163, http://dx.doi.org/10.1038/s41590-023-01654-3
,2023, 'A conversation on allergy: recognizing the past and looking to the future', Immunology and Cell Biology, 101, pp. 936 - 946, http://dx.doi.org/10.1111/imcb.12688
,2023, 'Newborn and child-like molecular signatures in older adults stem from TCR shifts across human lifespan', Nature Immunology, 24, pp. 1890 - 1907, http://dx.doi.org/10.1038/s41590-023-01633-8
,2023, 'CAR +and CAR −T cells differentiate into an NK-like subset that is associated with increased inflammatory cytokines following infusion', The Journal of Immunology, 210, pp. 159.15 - 159.15, http://dx.doi.org/10.4049/jimmunol.210.supp.159.15
,2023, 'Multi-omic profiling in coeliac disease reveals somatic driver mutations in rogue T cell clones', The Journal of Immunology, 210, pp. 234.12 - 234.12, http://dx.doi.org/10.4049/jimmunol.210.supp.234.12
,2023, 'Abstract 912: Single cell analysis reveals tumor evolution and CAR T cell dysfunction associated with tumor resistance', Cancer Research, 83, pp. 912 - 912, http://dx.doi.org/10.1158/1538-7445.am2023-912
,2023, 'High activation levels maintained in receptor-binding domain–specific memory B cells in people with severe coronavirus disease 2019', Immunology and Cell Biology, 101, pp. 142 - 155, http://dx.doi.org/10.1111/imcb.12607
,2023, 'Peripheral ameloblastoma: case report and our experience 20 years', Acta Biomedica, 94, http://dx.doi.org/10.23750/abm.v94iS1.13527
,2023, 'B Cell Signatures and Antibody Imprinting Define HCV Reinfection Outcome', , http://dx.doi.org/10.2139/ssrn.4418620
,2022, 'Identification of human progenitors of exhausted CD8+ T cells associated with elevated IFN-γ response in early phase of viral infection', Nature Communications, 13, http://dx.doi.org/10.1038/s41467-022-35281-7
,2022, 'VDJdb in the pandemic era: a compendium of T cell receptors specific for SARS-CoV-2', Nature Methods, 19, pp. 1017 - 1019, http://dx.doi.org/10.1038/s41592-022-01578-0
,2022, 'The functional and molecular determinants of HCV-specific CD8 T cell responses during early infection', The Journal of Immunology, 208, pp. 169.12 - 169.12, http://dx.doi.org/10.4049/jimmunol.208.supp.169.12
,2022, 'Haematopoietic Stem Cell Transplantation Results in Extensive Remodelling of the Clonal T Cell Repertoire in Multiple Sclerosis', Frontiers in Immunology, 13, http://dx.doi.org/10.3389/fimmu.2022.798300
,2022, 'DIAGNOSIS AND TREATMENT PLANNING IN ORAL SURGERY USING CONE BEAM COMPUTED TOMOGRAPHY (CBCT): A NARRATIVE REVIEW', International Journal of Clinical Dentistry, 15, pp. 795 - 820
,2021, 'Antigen-driven EGR2 expression is required for exhausted CD8+ T cell stability and maintenance', Nature Communications, 12, pp. 2782, http://dx.doi.org/10.1038/s41467-021-23044-9
,2021, 'CD8+ T cell landscape in Indigenous and non-Indigenous people restricted by influenza mortality-associated HLA-A*24:02 allomorph', Nature Communications, 12, http://dx.doi.org/10.1038/s41467-021-23212-x
,2021, 'Investigation of product-derived lymphoma following infusion of piggyBac-modified CD19 chimeric antigen receptor T cells', Blood, 138, pp. 1391 - 1405, http://dx.doi.org/10.1182/blood.2021010858
,2021, 'One year into the pandemic: Short-term evolution of SARS-CoV-2 and emergence of new lineages', Infection, Genetics and Evolution, 92, http://dx.doi.org/10.1016/j.meegid.2021.104869
,2021, 'Human CD8 T-stem cell memory subsets phenotypic and functional characterization are defined by expression of CD122 or CXCR3', European Journal of Immunology, 51, pp. 1732 - 1747, http://dx.doi.org/10.1002/eji.202049057
,2021, 'Natural killer cell receptors regulate responses of HLA-E-restricted T cells', Science Immunology, 6, http://dx.doi.org/10.1126/sciimmunol.abe9057
,2021, 'Atypical B cells are part of an alternative lineage of B cells that participates in responses to vaccination and infection in humans', Cell Reports, 34, http://dx.doi.org/10.1016/j.celrep.2020.108684
,2021, 'Hepatitis C treatment strategies in prisons: A cost-effectiveness analysis', PLoS ONE, 16, pp. e0245896, http://dx.doi.org/10.1371/journal.pone.0245896
,2021, 'Omics in immunology', Immunology and Cell Biology, 99, pp. 133 - 134, http://dx.doi.org/10.1111/imcb.12435
,2021, 'Recent advances in single-cell multimodal analysis to study immune cells', Immunology and Cell Biology, 99, pp. 157 - 167, http://dx.doi.org/10.1111/imcb.12432
,2021, 'Prophylactic antigen-specific T-cells targeting seven viral and fungal pathogens after allogeneic haemopoietic stem cell transplant', Clinical and Translational Immunology, 10, http://dx.doi.org/10.1002/cti2.1249
,2021, 'Quantitative analysis of the splice variants expressed by the major hepatitis B virus genotypes', Microbial Genomics, 7, pp. 1 - 13, http://dx.doi.org/10.1099/mgen.0.000492
,2020, 'Analytical validity of nanopore sequencing for rapid SARS-CoV-2 genome analysis', Nature Communications, 11, http://dx.doi.org/10.1038/s41467-020-20075-6
,2020, 'Conserved epitopes with high HLA-I population coverage are targets of CD8+ T cells associated with high IFN-γ responses against all dengue virus serotypes', Scientific Reports, 10, http://dx.doi.org/10.1038/s41598-020-77565-2
,2020, 'Single molecule, near full-length genome sequencing of dengue virus', Scientific Reports, 10, pp. 18196, http://dx.doi.org/10.1038/s41598-020-75374-1
,2020, 'Cytotoxic T cells swarm by homotypic chemokine signalling', eLife, 9, pp. 1 - 71, http://dx.doi.org/10.7554/eLife.56554
,2020, 'SARS-CoV-2 and COVID-19: A genetic, epidemiological, and evolutionary perspective', Infection, Genetics and Evolution, 84, http://dx.doi.org/10.1016/j.meegid.2020.104384
,2020, 'Rapidly expanded partially HLA DRB1-matched fungus-specific T cells mediate in vitro and in vivo antifungal activity', Blood Advances, 4, pp. 3443 - 3456, http://dx.doi.org/10.1182/bloodadvances.2020001565
,2020, 'Combined treatment and prevention strategies for hepatitis C virus elimination in the prisons in New South Wales: a modelling study', Addiction, 115, pp. 901 - 913, http://dx.doi.org/10.1111/add.14830
,2020, 'Incident hepatitis B virus infection and immunisation uptake in Australian prison inmates', Vaccine, 38, pp. 3255 - 3260, http://dx.doi.org/10.1016/j.vaccine.2020.02.076
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