Giulio Caravagna

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Alex GraudenziDept. of Informatics, Systems and Communication, Univ. of Milan-BicoccaVerified email at unimib.it
Marco AntoniottiProfessor of Computer Science, Università degli Studi di Milano-BicoccaVerified email at unimib.it
Daniele RamazzottiDepartment of Medicine and Surgery, University of Milano-Bicocca, Milano, ItalyVerified email at unimib.it
Andrea SottorivaHuman TechnopoleVerified email at fht.org
Trevor A GrahamDirector, Centre for Evolution and Cancer, ICR, LondonVerified email at icr.ac.uk
Alberto d'OnofrioComputer Sciences for Complex Systems Lab, Università di TriesteVerified email at units.it
Bud MishraProfessor of Computer Science and MathematicsVerified email at nyu.edu
Benjamin WernerReader, Barts Cancer Institute, Queen Mary University LondonVerified email at qmul.ac.uk
Dr George D CresswellSt. Anna Children's Cancer Research InstituteVerified email at ccri.at
Guido SanguinettiReader in Informatics, University of EdinburghVerified email at inf.ed.ac.uk
Ahmet AcarMiddle East Technical UniversityVerified email at metu.edu.tr
Salvatore MiliteHuman TechnopoleVerified email at fht.org
Marc J WilliamsMemorial Sloan Kettering Cancer CenterVerified email at mskcc.org
William CrossResearcher, Lecturer, University of WestminsterVerified email at westminster.ac.uk
Luis ZapataTeam Leader, Center For Evolution And Cancer, ICRVerified email at icr.ac.uk
Chris P BarnesUniversity College LondonVerified email at ucl.ac.uk
Eszter LakatosAssistant Professor, Chalmers University of TechnologyVerified email at chalmers.se
Jacob HousehamData Science Team, The Institute of Cancer ResearchVerified email at icr.ac.uk
Nicola CalonaciPost-doc @ Cancer Data Science Lab, Università di TriesteVerified email at sissa.it
Javier Fernández-MateosPDTF University of Oviedo, SpainVerified email at uniovi.es

Giulio Caravagna

Cancer Data Science Laboratory, University of Trieste

Verified email at units.it - Homepage

Cancer Data Science Cancer Evolution Bioinformatics Computational Biology


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Detecting repeated cancer evolution from multi-region tumor sequencing data G Caravagna, Y Giarratano, D Ramazzotti, I Tomlinson, TA Graham, ... Nature methods 15 (9), 707-714, 2018	174	2018
Subclonal reconstruction of tumors by using machine learning and population genetics G Caravagna, T Heide, MJ Williams, L Zapata, D Nichol, K Chkhaidze, ... Nature genetics 52 (9), 898-907, 2020	110	2020
Exploiting evolutionary steering to induce collateral drug sensitivity in cancer A Acar, D Nichol, J Fernandez-Mateos, GD Cresswell, I Barozzi, SP Hong, ... Nature communications 11 (1), 1923, 2020	102	2020
CAPRI: efficient inference of cancer progression models from cross-sectional data D Ramazzotti, G Caravagna, L Olde Loohuis, A Graudenzi, I Korsunsky, ... Bioinformatics 31 (18), 3016-3026, 2015	101	2015
Phenotypic plasticity and genetic control in colorectal cancer evolution J Househam, T Heide, GD Cresswell, I Spiteri, C Kimberley, L Zapata, ... Nature 611 (7937), 744-753, 2022	96	2022
Algorithmic methods to infer the evolutionary trajectories in cancer progression G Caravagna, A Graudenzi, D Ramazzotti, R Sanz-Pamplona, L De Sano, ... PNAS 113 (28), E4025–E4034, 2016	93	2016
Chromatin Velocity reveals epigenetic dynamics by single-cell profiling of heterochromatin and euchromatin M Tedesco, F Giannese, D Lazarević, V Giansanti, D Rosano, S Monzani, ... Nature biotechnology 40 (2), 235-244, 2022	82	2022
Spatially constrained tumour growth affects the patterns of clonal selection and neutral drift in cancer genomic data K Chkhaidze, T Heide, B Werner, MJ Williams, W Huang, G Caravagna, ... PLoS computational biology 15 (7), e1007243, 2019	73	2019
Inferring tree causal models of cancer progression with probability raising LO Loohuis, G Caravagna, A Graudenzi, D Ramazzotti, G Mauri, ... PloS one 9 (10), e108358, 2014	73	2014
Evolutionary dynamics of residual disease in human glioblastoma I Spiteri, G Caravagna, GD Cresswell, A Vatsiou, D Nichol, A Acar, ... Annals of Oncology 30 (3), 456-463, 2019	72	2019
Tumour suppression by immune system through stochastic oscillations G Caravagna, A d’Onofrio, P Milazzo, R Barbuti Journal of theoretical biology 265 (3), 336-345, 2010	72*	2010
The co-evolution of the genome and epigenome in colorectal cancer T Heide, J Househam, GD Cresswell, I Spiteri, C Lynn, M Mossner, ... Nature 611 (7937), 733-743, 2022	70	2022
The interplay of intrinsic and extrinsic bounded noises in biomolecular networks G Caravagna, G Mauri, A d'Onofrio PLoS One 8 (2), e51174, 2013	49	2013
Signatures of TOP1 transcription-associated mutagenesis in cancer and germline MAM Reijns, DA Parry, TC Williams, F Nadeu, RL Hindshaw, ... Nature, 2022	48	2022
TRONCO: an R package for the inference of cancer progression models from heterogeneous genomic data L De Sano, G Caravagna, D Ramazzotti, A Graudenzi, G Mauri, B Mishra, ... Bioinformatics 32 (12), 1911-1913, 2016	47	2016
The calculus of looping sequences R Barbuti, G Caravagna, A Maggiolo–Schettini, P Milazzo, G Pardini Formal Methods for Computational Systems Biology: 8th International School …, 2008	47	2008
Learning mutational graphs of individual tumour evolution from single-cell and multi-region sequencing data D Ramazzotti, A Graudenzi, L De Sano, M Antoniotti, G Caravagna BMC bioinformatics 20, 1-13, 2019	39	2019
Germline MBD4 deficiency causes a multi-tumor predisposition syndrome C Palles, HD West, E Chew, S Galavotti, C Flensburg, JE Grolleman, ... The American Journal of Human Genetics 109 (5), 953-960, 2022	37*	2022
Immune selection determines tumor antigenicity and influences response to checkpoint inhibitors L Zapata, G Caravagna, MJ Williams, E Lakatos, K AbdulJabbar, ... Nature Genetics 55 (3), 451-460, 2023	33	2023
Reply to ‘Neutral tumor evolution?’ T Heide, L Zapata, MJ Williams, B Werner, G Caravagna, CP Barnes, ... Nature genetics 50 (12), 1633-1637, 2018	32	2018

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