RAMAZZOTTI, DANIELE
RAMAZZOTTI, DANIELE
DIPARTIMENTO DI MEDICINA E CHIRURGIA (SCHOOL OF MEDICINE AND SURGERY)
Targeting the immune microenvironment in Waldenström Macroglobulinemia via halting the CD40/CD40-ligand axis
2023 Sacco, A; Desantis, V; Celay, J; Giustini, V; Rigali, F; Savino, F; Cea, M; Soncini, D; Cagnetta, A; Solimando, A; D'Aliberti, D; Spinelli, S; Ramazzotti, D; Almici, C; Todoerti, K; Neri, A; Anastasia, A; Tucci, A; Motta, M; Chiarini, M; Kawano, Y; Martinez-Climent, J; Piazza, R; Roccaro, A
Characterization of SARS-CoV-2 Mutational Signatures from 1.5+ Million Raw Sequencing Samples
2023 Aroldi, A; Angaroni, F; D’Aliberti, D; Spinelli, S; Crespiatico, I; Crippa, V; Piazza, R; Graudenzi, A; Ramazzotti, D
DNA Damage Response (DDR) Is Associated With Treatment-free Remission in Chronic Myeloid Leukemia Patients
2023 Malighetti, F; Arosio, G; Manfroni, C; Mauri, M; Villa, M; Manghisi, B; Inzoli, E; Rindone, G; Zambrotta, G; Civettini, I; Guglielmana, V; Ramazzotti, D; Giudici, G; Bombelli, S; Perego, R; Piazza, R; Mologni, L; Gambacorti-Passerini, C
Pan-cancer landscape of AID-related mutations, composite mutations, and their potential role in the ICI response
2022 Hernández-Verdin, I; Akdemir, K; Ramazzotti, D; Caravagna, G; Labreche, K; Mokhtari, K; Hoang-Xuan, K; Peyre, M; Bielle, F; Touat, M; Idbaih, A; Duval, A; Sanson, M; Alentorn, A
PMCE: efficient inference of expressive models of cancer evolution with high prognostic power
2022 Angaroni, F; Chen, K; Damiani, C; Caravagna, G; Graudenzi, A; Ramazzotti, D
LACE: Inference of cancer evolution models from longitudinal single-cell sequencing data
2022 Ramazzotti, D; Angaroni, F; Maspero, D; Ascolani, G; Castiglioni, I; Piazza, R; Antoniotti, M; Graudenzi, A
The co-evolution of the genome and epigenome in colorectal cancer
2022 Heide, T; Househam, J; Cresswell, G; Spiteri, I; Lynn, C; Mossner, M; Kimberley, C; Fernandez-Mateos, J; Chen, B; Zapata, L; James, C; Barozzi, I; Chkhaidze, K; Nichol, D; Gunasri, V; Berner, A; Schmidt, M; Lakatos, E; Baker, A; Costa, H; Mitchinson, M; Piazza, R; Jansen, M; Caravagna, G; Ramazzotti, D; Shibata, D; Bridgewater, J; Rodriguez-Justo, M; Magnani, L; Graham, T; Sottoriva, A
Variant calling from scRNA-seq data allows the assessment of cellular identity in patient-derived cell lines
2022 Ramazzotti, D; Angaroni, F; Maspero, D; Ascolani, G; Castiglioni, I; Piazza, R; Antoniotti, M; Graudenzi, A
Large-Scale Analysis of SARS-CoV-2 Synonymous Mutations Reveals the Adaptation to the Human Codon Usage During the Virus Evolution
2022 Ramazzotti, D; Angaroni, F; Maspero, D; Mauri, M; D’Aliberti, D; Fontana, D; Antoniotti, M; Elli, E; Graudenzi, A; Piazza, R
SparseSignatures: An R package using LASSO-regularized non-negative matrix factorization to identify mutational signatures from human tumor samples
2022 Mella, L; Lal, A; Angaroni, F; Maspero, D; Piazza, R; Sidow, A; Antoniotti, M; Graudenzi, A; Ramazzotti, D
Early detection and improved genomic surveillance of SARS-CoV-2 variants from deep sequencing data
2022 Ramazzotti, D; Maspero, D; Angaroni, F; Spinelli, S; Antoniotti, M; Piazza, R; Graudenzi, A
Phenotypic plasticity and genetic control in colorectal cancer evolution
2022 Househam, J; Heide, T; Cresswell, G; Spiteri, I; Kimberley, C; Zapata, L; Lynn, C; James, C; Mossner, M; Fernandez-Mateos, J; Vinceti, A; Baker, A; Gabbutt, C; Berner, A; Schmidt, M; Chen, B; Lakatos, E; Gunasri, V; Nichol, D; Costa, H; Mitchinson, M; Ramazzotti, D; Werner, B; Iorio, F; Jansen, M; Caravagna, G; Barnes, C; Shibata, D; Bridgewater, J; Rodriguez-Justo, M; Magnani, L; Sottoriva, A; Graham, T
Variant calling from scRNA-seq data allows the assessment of cellular identity in patient-derived cell lines
2021 Ramazzotti, D; Angaroni, F; Maspero, D; Ascolani, G; Castiglioni, I; Piazza, R; Antoniotti, M; Graudenzi, A
VirMutSig: Discovery and assignment of viral mutational signatures from sequencing data
2021 Maspero, D; Angaroni, F; Porro, D; Piazza, R; Graudenzi, A; Ramazzotti, D
De novo mutational signature discovery in tumor genomes using SparseSignatures
2021 Lal, A; Liu, K; Tibshirani, R; Sidow, A; Ramazzotti, D
VERSO: a comprehensive framework for the inference of robust phylogenies and the quantification of intra-host genomic diversity of viral samples
2021 Ramazzotti., D; Angaroni, F; Maspero, D; Gambacorti-Passerini, C; Antoniotti, M; Graudenzi, A; Piazza, R
Mutational signatures and heterogeneous host response revealed via large-scale characterization of SARS-CoV-2 genomic diversity
2021 Graudenzi, A; Maspero, D; Angaroni, F; Piazza, R; Ramazzotti, D
Investigating the performance of multi-objective optimization when learning Bayesian Networks
2021 Nobile, M; Cazzaniga, P; Ramazzotti, D
Learning the structure of Bayesian Networks via the bootstrap
2021 Caravagna, G; Ramazzotti, D
Characterization of intra-host SARS-CoV-2 variants improves phylogenomic reconstruction and may reveal functionally convergent mutations
2020 Ramazzotti, D; Angaroni, F; Maspero, D; Gambacorti-Passerini, C; Antoniotti, M; Graudenzi, A; Piazza, R