Giulio Caravagna

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Alex GraudenziInstitute of Molecular Bioimaging and Physiology, Consiglio Nazionale delle Ricerche (IBFM-CNR)Verified email at unimib.it
Marco AntoniottiAssociate Professor of Computer Science, Università degli Studi di Milano-BicoccaVerified email at unimib.it
Daniele RamazzottiSchool of Medicine and Surgery, University of Milano-Bicocca, Milano, ItalyVerified email at unimib.it
Bud MishraProfessor of Computer Science and MathematicsVerified email at nyu.edu
Trevor A GrahamProfessor of Cancer Evolution, Barts Cancer Institute, QMULVerified email at qmul.ac.uk
Andrea SottorivaThe Institute of Cancer ResearchVerified email at icr.ac.uk
Benjamin WernerBarts Cancer Centre, Queen Mary University LondonVerified email at qmul.ac.uk
Guido SanguinettiReader in Informatics, University of EdinburghVerified email at inf.ed.ac.uk
Dr George D CresswellInstitute of Cancer ResearchVerified email at icr.ac.uk
Ahmet AcarMiddle East Technical UniversityVerified email at metu.edu.tr
Luis ZapataPostdoc, Center For Evolution in Cancer, ICRVerified email at icr.ac.uk
Marc J WilliamsMemorial Sloan Kettering Cancer CenterVerified email at mskcc.org
William CrossPostdoctoral Research Fellow, University College LondonVerified email at ucl.ac.uk
Chris P BarnesUniversity College LondonVerified email at ucl.ac.uk
Jane HillstonProfessor of Quantitative Modelling, University of EdinburghVerified email at ed.ac.uk
Ylenia GiarratanoPhD Student, Usher Institute of Population Health Sciences and Informatics, University of EdinburghVerified email at ed.ac.uk
Javier Fernández-MateosPDTF Institute of Cancer Research, LondonVerified email at icr.ac.uk
Luca MagnaniChair cancer adaptation and evolution/CRUK fellow/ Imperial College LondonVerified email at imperial.ac.uk
Iros BarozziMedical University of Vienna; Imperial College LondonVerified email at meduniwien.ac.at
Nicola ValeriThe Institute of Cancer Research LondonVerified email at icr.ac.uk

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	79	2018
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	71	2015
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	68	2016
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	60*	2010
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	56	2014
The interplay of intrinsic and extrinsic bounded noises in biomolecular networks G Caravagna, G Mauri, A d'Onofrio PLoS One 8 (2), e51174, 2013	47	2013
The calculus of looping sequences R Barbuti, G Caravagna, A Maggiolo–Schettini, P Milazzo, G Pardini International School on Formal Methods for the Design of Computer …, 2008	45	2008
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	33	2019
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), 1-14, 2020	29	2020
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	28*	2020
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	28	2016
Delay stochastic simulation of biological systems: a purely delayed approach R Barbuti, G Caravagna, A Maggiolo-Schettini, P Milazzo Transactions on Computational Systems Biology XIII, 61-84, 2011	27	2011
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	25	2019
Investigating the relation between stochastic differentiation, homeostasis and clonal expansion in intestinal crypts via multiscale modeling A Graudenzi, G Caravagna, G De Matteis, M Antoniotti PLoS One 9 (5), e97272, 2014	25*	2014
Bio-PEPAd: a non-Markovian extension of Bio-PEPA G Caravagna, J Hillston Theoretical Computer Science 419, 26-49, 2012	21	2012
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), 1-13, 2019	20	2019
Formal modeling and simulation of biological systems with delays G Caravagna Universita di Pisa, 2011	19	2011
Fine-tuning anti-tumor immunotherapies via stochastic simulations G Caravagna, R Barbuti, A d'Onofrio BMC bioinformatics 13 (4), 1-18, 2012	18	2012
Reply to ‘Neutral tumor evolution?’ T Heide, L Zapata, MJ Williams, B Werner, G Caravagna, CP Barnes, ... Nature genetics 50 (12), 1633-1637, 2018	17	2018
Modeling cumulative biological phenomena with Suppes-Bayes causal networks D Ramazzotti, A Graudenzi, G Caravagna, M Antoniotti Evolutionary Bioinformatics 14, 1176934318785167, 2018	17	2018

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