Author

F. D. Ciccarelli

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Cancer Biology· 7 Immunology· 2

Signature Assays, Organisms & Methods

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Organism:human· 8 Research Focus:cell type annotation· 5 Approach:experimental assay· 5 Approach:statistical model· 5 Assay:bulk RNA-seq· 4 Research Focus:differential expression· 4 Research Focus:gene regulatory network inference· 4 Assay:whole-exome sequencing· 4

Frequent Co-Authors

H. Misetic· 4 shared J. Nulsen· 3 shared J. Spencer· 3 shared L. Montorsi· 3 shared M. Bortolomeazzi· 3 shared M. R. Keddar· 3 shared A. Acha-Sagredo· 2 shared D. Repana· 2 shared

Activity by Year

2018-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 39 mutual co-author links

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4 shared papersCancer Biology

H. Misetic

Mutual co-authors in cluster

Author profile →

9 papers

Recent·Most cited

Context-dependent effects of CDKN2A and other 9p21 gene losses during the evolution of oesophageal cancer

P. Ganguli, C. Colomina-Basanta, A. Acha-Sagrado, H. Misetic, M. Armero-Pineiro, A. Mendez, A. Zahra, G. Devonshire, G. Kelly, A. Freeman, M. Green, E. Nye, A. Bichisecchi, P. Bonfanti, Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Consortium, , F. D. Ciccarelli

The paper investigates how CDKN2A and other 9p21 gene losses influence oesophageal cancer progression, finding context-dependent effects on survival and immune infiltration.

bioRxiv · Jan 24, 2024 · PreprintCancer Biology

Unanticipated interacting features of human gut-associated lymphoid tissues link microbiota, intestinal immunity and autoimmunity

L. Montorsi, M. J. Pitcher, Y. Zhao, A. Demonti, T. J. Tull, C. Dionisi, P. Dhami, R. J. Ellis, C. Bishop, J. Sanderson, S. Jain, D. D'Cruz, D. Gibbons, T. H. Winkler, M. Bemark, , J. Spencer

The paper identifies DN2 B cells in human GALT that interact with DC expressing DNASE1L3 and C1Q, linking microbiota, immunity, and autoimmunity.

bioRxiv · Aug 29, 2023Immunology

Mechanistic insights into the interactions between cancer drivers and the tumour immune microenvironment

H. Misetic, M. R. Keddar, J.-P. Jeannon, F. D. Ciccarelli

The paper identifies 477 TIME drivers across 32 cancer types, showing their role in cancer evolution and predicting immunotherapy response, with a focus on HNSC.

bioRxiv · Jan 24, 2023 · PreprintCancer Biology

Comparative assessment of genes driving cancer and somatic evolution.

L. Dressler, M. Bortolomeazzi, M. R. Keddar, H. Misetic, G. Sartini, A. Acha-Sagredo, L. Montorsi, N. Wijewardhane, D. Repana, J. Nulsen, J. Goldman, M. Pollit, P. Davis, A. Strange, K. Ambrose, F. D. Ciccarelli

The paper assesses genes driving cancer and somatic evolution, revealing gaps in driver gene compendiums and identifying conserved genes that promote clonal expansion without malignancy.

bioRxiv · Aug 31, 2021 · PreprintCancer Biology

Immunogenomic profile of colorectal cancer response to immune checkpoint blockade

M. Bortolomeazzi, M. R. Keddar, L. Montorsi, A. Acha-Sagredo, L. Benedetti, D. Temelkovski, S. Choi, N. Petrov, K. Todd, P. Wai, J. Kohl, T. Denner, E. Nye, R. Goldstone, S. Ward, , F. D. Ciccarelli

This study identifies immunogenomic features predicting response to immune checkpoint blockade in colorectal cancer, showing that high clonality and immune escape mechanisms are more important than mutational burden.

bioRxiv · Dec 15, 2020 · PreprintCancer Biology

Pan-cancer detection of driver genes at the single-patient resolution

J. Nulsen, H. Misetic, C. Yau, F. D. Ciccarelli

This paper introduces sysSVM2, a machine learning tool to predict driver genes in individual cancer patients, showing it has low false positives and identifies known cancer pathways.

bioRxiv · Jun 12, 2020Cancer Biology

O-linked mucin-type glycosylation regulates the transcriptional programme downstream of EGFR in breast cancer

V. Tajadura-Ortega, G. Gambardella, A. Skinner, K. Ter-Borch Gram Schjoldager, R. Beatson, R. Graham, D. Achkova, J. Taylor-Papadimitriou, F. D. Ciccarelli, J. Burchell

The paper shows that O-linked glycosylation differences in breast cancer cells lead to distinct gene expression signatures via differential EGFR nuclear translocation.

bioRxiv · Jul 25, 2019Cancer Biology

Interleukin-36 promotes systemic Type-I IFN responses in severe psoriasis.

M. Catapano, M. Vergnano, M. Romano, S. K. Mahil, S.-E. Choon, D. A. Burden, H. S. Young, I. M. Carr, H. J. Lachmann, G. Lombardi, C. Smith, F. D. Ciccarelli, J. N. Barker, F. Capon

The paper identifies an IL-36/TLR-9/Type-I IFN axis that drives systemic inflammation in psoriasis, offering a potential therapeutic target.

bioRxiv · Dec 14, 2018 · PreprintImmunology

The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens.

D. Repana, J. Nulsen, L. Dressler, M. Bortolomeazzi, S. Kuppili Venkata, A. Tourna, A. Yakovleva, T. Palmieri, F. D. Ciccarelli

The paper curates a comprehensive list of 2,372 cancer-related genes from 275 publications, including sequencing screens of 119 cancer types, and provides annotations on their properties.

bioRxiv · Dec 1, 2018Cancer Biology