Publications

Willem Van Der Byl, Simone Nüssing, Timothy J. Peters, Antonio Ahn, Hanjie Li, Guy Ledergor, Eyal David, Andrew S. Koh, Mayura V. Wagle, Christian Deo T. Deguit, Maria N. de Menezes, Avraham Travers, Shienny Sampurno, Kelly M. Ramsbottom, Rui Li, Axel Kallies, Paul A. Beavis, Ralf Jungmann, Maartje M.C. Bastings, Gabrielle T. Belz, Shom Goel, Joseph A. Trapani, Gerald R. Crabtree, Howard Y. Chang, Ido Amit, Chris C. Goodnow, Fabio Luciani, Ian A. Parish (2024). The CD8+ T cell tolerance checkpoint triggers a distinct differentiation state defined by protein translation defects. Immunity.

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Curtis Cai, Elizabeth Keoshkerian, Kristof Wing, Jerome Samir, Manuel Effenberger, Kilian Schober, Rowena A. Bull, Andrew R. Lloyd, Dirk H. Busch, Fabio Luciani (2024). Discovery of a monoclonal, high-affinity CD8+ T-cell clone following natural hepatitis C virus infection. Immunology & Cell Biology.

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Mandeep Singh, Raymond H. Y. Louie, Jerome Samir, Matthew A. Field, Claire Milthorpe, Thiruni Aldiriki, Joseph Mackie, Ellise Roper, Megan Faulks, Katherine J. L. Jackson, Andrew Calcino, Melinda Y. Hardy, Piers Blombery, Timothy G. Amos, Ira W. Deveson, Scott A. Read, Dmitri Shek, Antoine Guerin, Cindy S. Ma, Stuart G. Tangye, Antonio Di Sabatino, Marco V. Lenti, Alessandra Pasini, Rachele Ciccocioppo, Golo Ahlenstiel, Dan Suan, Jason A. Tye-Din, Christopher C. Goodnow, Fabio Luciani (2024). Expanded T cell clones with lymphoma driver somatic mutations in refractory celiac disease. medRxiv.

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Raymond H. Y. Louie, Curtis Cai, Jerome Samir, Mandeep Singh, Ira W. Deveson, James M. Ferguson, Timothy G. Amos, Helen M. McGuire, Kavitha Gowrishankar, Thiruni Adikari, Robert Balderas, Martina Bonomi, Marco Ruella, David Bishop, David Gottlieb, Emily Blyth, Kenneth Micklethwaite, Fabio Luciani (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.

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Yanping Yang, Raymond Louie, Janusz Puc, Yogindra Vedvyas, Yago Alcaina, Irene M. Min, Matt Britz, Fabio Luciani, Moonsoo M. Jin (2023). Chimeric Antigen Receptor T Cell Therapy Targeting Epithelial Cell Adhesion Molecule in Gastric Cancer: Mechanisms of Tumor Resistance. Cancers.

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Manu Singh, Raymond Louie, Claire Milthopre, Thiruni Adikari, Melinda Hardy, Megan Faulks, Matt Field, Golo Ahlenstiel, Jason Tye-Din, Fabio Luciani, Chris C. Goodnow (2023). Multi-omic profiling in coeliac disease reveals somatic driver mutations in rogue T cell clones. The Journal of Immunology.

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Jerome Samir, Simone Rizzetto, Money Gupta, Fabio Luciani (2020). Exploring and analysing single cell multi-omics data with VDJView. BMC Medical Genomics.

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Dmitry V Bagaev, Renske M A Vroomans, Jerome Samir, Ulrik Stervbo, Cristina Rius, Garry Dolton, Alexander Greenshields-Watson, Meriem Attaf, Evgeny S Egorov, Ivan V Zvyagin, Nina Babel, David K Cole, Andrew J Godkin, Andrew K Sewell, Can Kesmir, Dmitriy M Chudakov, Fabio Luciani, Mikhail Shugay (2020). VDJdb in 2019: database extension, new analysis infrastructure and a T-cell receptor motif compendium. Nucleic Acids Research.

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Willem Van Der Byl, Simone Rizzetto, Jerome Samir, Curtis Cai, Auda A. Eltahla, Fabio Luciani (2019). Single-Cell Transcriptome Analysis of T Cells. In Vitro Differentiation of T-Cells.

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Simone Rizzetto, David N P Koppstein, Jerome Samir, Mandeep Singh, Joanne H Reed, Curtis H Cai, Andrew R Lloyd, Auda A Eltahla, Christopher C Goodnow, Fabio Luciani (2018). B-cell receptor reconstruction from single-cell RNA-seq with VDJPuzzle. Bioinformatics.

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Preston Leung, Auda A. Eltahla, Andrew R. Lloyd, Rowena A. Bull, Fabio Luciani (2017). Understanding the complex evolution of rapidly mutating viruses with deep sequencing: Beyond the analysis of viral diversity. Virus Research.

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Auda A Eltahla, Simone Rizzetto, Mehdi R Pirozyan, Brigid D Betz‐Stablein, Vanessa Venturi, Katherine Kedzierska, Andrew R Lloyd, Rowena A Bull, Fabio Luciani (2016). Linking the T cell receptor to the single cell transcriptome in antigen‐specific human T cells. Immunology & Cell Biology.

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Rowena A. Bull, Preston Leung, Silvana Gaudieri, Pooja Deshpande, Barbara Cameron, Melanie Walker, Abha Chopra, Andrew R. Lloyd, Fabio Luciani (2015). Transmitted/Founder Viruses Rapidly Escape from CD8+ T Cell Responses in Acute Hepatitis C Virus Infection. Journal of Virology.

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Preston Leung, Rowena Bull, Andrew Lloyd, Fabio Luciani (2014). A Bioinformatics Pipeline for the Analyses of Viral Escape Dynamics and Host Immune Responses during an Infection. BioMed Research International.

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