Giulio Caravagna

Research interests

Publications

• Long-term lineage commitment in haematopoietic stem cell gene therapy

  Nature · 2024 · 10.1038/s41586-024-08250-x

• The genomic landscape of 2,023 colorectal cancers

  Nature · 2024 · 10.1038/s41586-024-07747-9

• Immune selection determines tumor antigenicity and influences response to checkpoint inhibitors

  Nature Genetics · 2023 · 10.1038/s41588-023-01313-1

• Phenotypic plasticity and genetic control in colorectal cancer evolution

  Nature · 2022 · 10.1038/s41586-022-05311-x

• The co-evolution of the genome and epigenome in colorectal cancer

  Nature · 2022 · 10.1038/s41586-022-05202-1

• Signatures of TOP1 transcription-associated mutagenesis in cancer and germline

  Nature · 2022 · 10.1038/s41586-022-04403-y

• Germline MBD4 deficiency causes a multi-tumor predisposition syndrome

  The American Journal of Human Genetics · 2022 · 10.1016/j.ajhg.2022.03.018

• Clonal KEAP1 mutations with loss of heterozygosity share reduced immunotherapy efficacy and low immune cell infiltration in lung adenocarcinoma

  Annals of Oncology · 2022 · 10.1016/j.annonc.2022.12.002

• Chromatin Velocity reveals epigenetic dynamics by single-cell profiling of heterochromatin and euchromatin

  Nature Biotechnology · 2021 · 10.1038/s41587-021-01031-1

• The MOBSTER R package for tumour subclonal deconvolution from bulk DNA whole-genome sequencing data

  BMC Bioinformatics · 2020 · 10.1186/s12859-020-03863-1

• Exploiting evolutionary steering to induce collateral drug sensitivity in cancer

  Nature Communications · 2020 · 10.1038/s41467-020-15596-z

• Subclonal reconstruction of tumors by using machine learning and population genetics

  Nature Genetics · 2020 · 10.1038/s41588-020-0675-5

• Spatially constrained tumour growth affects the patterns of clonal selection and neutral drift in cancer genomic data

  PLoS Computational Biology · 2019 · 10.1371/journal.pcbi.1007243

• Learning mutational graphs of individual tumour evolution from single-cell and multi-region sequencing data

  BMC Bioinformatics · 2019 · 10.1186/s12859-019-2795-4

• Reply to ‘Neutral tumor evolution?’

  Nature Genetics · 2018 · 10.1038/s41588-018-0256-z

• Evolutionary dynamics of residual disease in human glioblastoma

  Annals of Oncology · 2018 · 10.1093/annonc/mdy506

• Detecting repeated cancer evolution from multi-region tumor sequencing data

  Nature Methods · 2018 · 10.1038/s41592-018-0108-x

• Algorithmic methods to infer the evolutionary trajectories in cancer progression

  Proceedings of the National Academy of Sciences · 2016 · 10.1073/pnas.1520213113

• TRONCO: an R package for the inference of cancer progression models from heterogeneous genomic data

  Bioinformatics · 2016 · 10.1093/bioinformatics/btw035

• CAPRI: efficient inference of cancer progression models from cross-sectional data

  Bioinformatics · 2015 · 10.1093/bioinformatics/btv296

• Inferring Tree Causal Models of Cancer Progression with Probability Raising

  PLoS ONE · 2014 · 10.1371/journal.pone.0108358

• The Interplay of Intrinsic and Extrinsic Bounded Noises in Biomolecular Networks

  PLoS ONE · 2013 · 10.1371/journal.pone.0051174

• Tumour suppression by immune system through stochastic oscillations

  Journal of Theoretical Biology · 2010 · 10.1016/j.jtbi.2010.05.013

• The Calculus of Looping Sequences

  Lecture notes in computer science · 2008 · 10.1007/978-3-540-68894-5_11

Current projects

No projects listed.