Our laboratory integrates algorithmic design, data science, and molecular biology approaches to address relevant questions in cancer biology and therapeutics. We explore single and combinations of genetic and epigenetic alterations that emerge and are selected during cancer evolution, to understand cancer driving mechanisms and inform precision medicine approaches. Our group is embedded within the Department of Computational Biology of the University of Lausanne, and a member of the Swiss Cancer Center Leman (SCCL), the Swiss Institute of Bioinformatics (SIB), the Center of Precision Oncology of the CHUV, and the Swiss Institute for Experimental Cancer Research (ISREC). ...
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Whole-genome doubling drives oncogenic loss of chromatin segregation.
Lambuta RA, Nanni L, Liu Y, (...), Katanayeva N, Ciriello G, Oricchio E
Nature – 2023 Mar 15
Epistasis and evolutionary dependencies in human cancers.
Mina M, Iyer A, Ciriello G
Current opinion in genetics & development – 2022 Sep 28
Frequent 4EBP1 Amplification Induces Synthetic Dependence on FGFR Signaling in Cancer.
Mohan P, Pasion J, Ciriello G, (...), Wendel HG, Sanghvi VR, Singh K
Cancers – 2022 May 13
Methods for the Analysis of Topologically Associating Domains (TADs).
Zufferey M, Tavernari D, Ciriello G
Methods in molecular biology (Clifton, N.J.) – 2022 Apr 4
Systematic assessment of gene co-regulation within chromatin domains determines differentially active domains across human cancers.
Zufferey M, Liu Y, Tavernari D, Mina M, Ciriello G
Genome biology – 2021 Aug 3
Tcf1 is essential for initiation of oncogenic Notch1-driven chromatin topology in T-ALL.
Antoszewski M, Fournier N, Ruiz Buendía GA, (...), Weng AP, Koch U, Radtke F
Blood – 2022 Apr 21
Cell-autonomous inflammation of BRCA1-deficient ovarian cancers drives both tumor-intrinsic immunoreactivity and immune resistance via STING.
Bruand M, Barras D, Mina M, (...), Martinon F, Dangaj Laniti D, Coukos G
Cell reports – 2021 Jul 20
The many faces of cancer evolution.
Ciriello G, Magnani L
iScience – 2021 May 11
Systematic inference and comparison of multi-scale chromatin sub-compartments connects spatial organization to cell phenotypes.
Liu Y, Nanni L, Sungalee S, (...), Ceri S, Oricchio E, Ciriello G
Nature communications – 2021 May 10
Histone acetylation dynamics modulates chromatin conformation and allele-specific interactions at oncogenic loci.
Sungalee S, Liu Y, Lambuta RA, (...), Roulland S, Ciriello G, Oricchio E
Nature genetics – 2021 May 10
Cancer Cells Retrace a Stepwise Differentiation Program during Malignant Progression.
Saghafinia S, Homicsko K, Di Domenico A, (...), Ciriello G, Michael IP, Hanahan D
Cancer discovery – 2021 Apr 28
Discovering functional evolutionary dependencies in human cancers.
Mina M, Iyer A, Tavernari D, Raynaud F, Ciriello G
Nature genetics – 2020 Sep 28
Dynamic Emergence of Observed and Hidden Intra-tumor Heterogeneity.
Raynaud F, Mina M, Ciriello G
iScience – 2019 Oct 10
EZH2 oncogenic mutations drive epigenetic, transcriptional, and structural changes within chromatin domains.
Donaldson-Collier MC, Sungalee S, Zufferey M, (...), Manley S, Ciriello G, Oricchio E
Nature genetics – 2019 Jan 28
Comparison of computational methods for the identification of topologically associating domains.
Zufferey M, Tavernari D, Oricchio E, Ciriello G
Genome biology – 2018 Dec 10
Pan-Cancer Landscape of Aberrant DNA Methylation across Human Tumors.
Saghafinia S, Mina M, Riggi N, Hanahan D, Ciriello G
Cell reports – 2018 Oct 23
Pan-cancer inference of intra-tumor heterogeneity reveals associations with different forms of genomic instability.
Raynaud F, Mina M, Tavernari D, Ciriello G
PLoS genetics – 2018 Sep 13
Oncogenic Signaling Pathways in The Cancer Genome Atlas.
Sanchez-Vega F, Mina M, Armenia J, (...), Ciriello G, Sander C, Schultz N
Cell – 2018 Apr 5
Conditional Selection of Genomic Alterations Dictates Cancer Evolution and Oncogenic Dependencies.
Mina M, Raynaud F, Tavernari D, (...), Schultz N, Oricchio E, Ciriello G
Cancer cell – 2017 Jul 27
Emerging landscape of oncogenic signatures across human cancers.
Ciriello G, Miller ML, Aksoy BA, (...), Senbabaoglu Y, Schultz N, Sander C
Nature genetics – 2013 Oct