Matteo Cereda
Socio Ordinario
Professore associato
University of Milan | Italian Institute for Genomic Medicine (IIGM)
Contact Information
website
RESEARCH AREA
algorithms,biological data integration,machine learning,network systems,sequence analysis,system biology
RESEARCH ACTIVITY
My group at the University "La Statale" of Milan and at the Italian Institute for genomic medicine (IIGM) studies cancer genomics using large-scale sequencing data to identify and characterize the molecular mechanisms driving cancer onset and progression. Through the use of mathematical and statistical models our research aims to disentangle the complexity of genomic data to provide a personalized medicine able to be incorporated into clinical practice. The group's activity focuses on identifying somatic alterations, reconstructing the clonal evolution of tumors, and identifying novel molecular mechanisms that are favourable clinical intervention points. Particular interest is devoted to the study of splicing factors and their role in the onset and progression of cancer.
SELECTED PUBLICATIONS
- Giudice M.D.°, Peirone S.°, Perrone S., Priante F., Varese F., Tirtei E., Fagioli F., Cereda M.*. Artificial intelligence in bulk and single-cell RNA-sequencing data to foster precision oncology. International Journal of Molecular Sciences. 2021. Vol:22 Issue:9 Art.N.:4563 doi:10.3390/ijms22094563 ISSN:16616596 PubMed ID:33925407
- Lauria A.°, Peirone S.°, Giudice M.D.°, Priante F., Rajan P., Caselle M., Oliviero S.°*, Cereda M.°* Identification of altered biological processes in heterogeneous RNA-sequencing data by discretization of expression profiles. Nucleic Acids Research. 2020. Vol:48 Issue:4 doi:10.1093/nar/gkz1208 ISSN:03051048 PubMed ID:31889184
- Cereda M, et al. Patients with genetically heterogeneous synchronous colorectal cancer carry rare damaging germline mutations in immune-related genes. Nature Communications. 2016
- Gambardella G*, Cereda M*, et al. MEGA-V: detection of variant gene sets in patient cohorts. Bioinformatics. 2016
- Cereda M, et al. Genetic Redundancy, Functional Compensation, and Cancer Vulnerability. Trends in Cancer. 2016
- Cereda M et al. RNAmotifs: prediction of multivalent RNA motifs that control alternative splicing. Genome Biology. 2014
- Tollervey JR, Curk T, Rogelj B, Briese M, Cereda M, et al. Characterizing the RNA targets and
position-dependent splicing regulation by TDP-43. Nature Neuroscience. 2011
- Cereda M, et al. GeCo++: a C++ library for genomic features computation and annotation in the presence of variants. Bioinformatics. 2011
- Lauria A.°, Peirone S.°, Giudice M.D.°, Priante F., Rajan P., Caselle M., Oliviero S.°*, Cereda M.°* Identification of altered biological processes in heterogeneous RNA-sequencing data by discretization of expression profiles. Nucleic Acids Research. 2020. Vol:48 Issue:4 doi:10.1093/nar/gkz1208 ISSN:03051048 PubMed ID:31889184
- Cereda M, et al. Patients with genetically heterogeneous synchronous colorectal cancer carry rare damaging germline mutations in immune-related genes. Nature Communications. 2016
- Gambardella G*, Cereda M*, et al. MEGA-V: detection of variant gene sets in patient cohorts. Bioinformatics. 2016
- Cereda M, et al. Genetic Redundancy, Functional Compensation, and Cancer Vulnerability. Trends in Cancer. 2016
- Cereda M et al. RNAmotifs: prediction of multivalent RNA motifs that control alternative splicing. Genome Biology. 2014
- Tollervey JR, Curk T, Rogelj B, Briese M, Cereda M, et al. Characterizing the RNA targets and
position-dependent splicing regulation by TDP-43. Nature Neuroscience. 2011
- Cereda M, et al. GeCo++: a C++ library for genomic features computation and annotation in the presence of variants. Bioinformatics. 2011
