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Paolo Prof. Provero

We're an interdisciplinary reseach team interested in diverse topics regarding computational biology and bioinformatics. Although we have started our collaboration already years ago, the CBU was officially formed in 2006 when the Molecular Biotechnology Center was inaugurated to pool the University's diverse biotechnology research groups and form a center of excellence for interdisciplinary teaching.

The research activity of the Computational Biology Unit focuses on gene regulation at the transcriptional and post-transcriptional levels. In particular we are currently investigating:

  • The function, evolution and variation of regulatory regions in the human genome, with an approach based on Total Binding Affinity as a predictor of the binding of transcription factors to cis-regulatory regions. This approach naturally takes into account the contribution of weak binding sites and, from an evolutionary perspective, the phenomenon of binding site turnover. We are applying this approach to (a) the prediction of gene expression from sequence and chromatin data in human cell lines (b) the study of naturally occurring variation in gene expression in human populations, and the unraveling of its genetic origin (c) the evolution of cis-regulatory regions as a major determinant of anatomical and behavioral differences in humans and great apes

  • The role of 3' UTRs in the post-transcriptional regulation of gene expression, in two related aspects: (a) competing endogenous RNAs, where the titration of microRNA abundance by their targets results in a regulatory cross-talk by targets of the same microRNAs that is wholly independent of their gene products (b) shortening of 3' UTR, in which proliferating cells escape regulation by microRNAs and other RNA-binding trans-acting factors by expressing shortened 3' UTR isoforms lacking binding sites for those factors.

The unit also collaborates with several experimental laboratories, within the MBC and elsewhere, providing computational and data-mining expertise.

Please visit our web site to access our web resources.

Il laboratorio del Prof. Provero si occupa di sviluppare metodi computazionali per lo studi della regolazione genica a livello sia trascrizionale sia post-trascrizionale. Per quanto riguarda la regolazione trascrizionale siamo interessati soprattutto alle dinamiche evolutive che ne guidano la variazione all'interno del genoma umano e la divergenza tra specie diverse. Nel campo della regolazione post-trascrizionale ci occupiamo soprattutto di fenomeni legati alla variazione del numero di siti di legame disponibili per i microRNA: regolazione della lunghezza del 3' UTR e competing endogenous RNAs. Inoltre collaboriamo con numerosi gruppi sperimentali a livello locale, nazionale e internazionale.

PROVERO Prof Paolo 

  1. Marnetto D, Molineris I, Grassi E, Provero P. Genome-wide identification and characterization of fixed human-specific regulatory regions. Am J Hum Genet. 2014. PMID: 24995867
  2. Lembo A, Provero P. Detecting alternative polyadenylation from microarray data. Methods Mol Biol. 2014. PMID: 24590786
  3. Ala U, Karreth FA, Bosia C, Pagnani A, Taulli R, Léopold V, Tay Y, Provero P, Zecchina R, Pandolfi PP. Integrated transcriptional and competitive endogenous RNA networks are cross-regulated in permissive molecular environments. Proc Natl Acad Sci U S A. 2013. PMID: 23536298
  4. Molineris I, Ala U, Provero P, Di Cunto F. Drug repositioning for orphan genetic diseases through Conserved Anticoexpressed Gene Clusters (CAGCs). BMC Bioinformatics. 2013. PMID: 24088245
  5. Molineris I, Schiavone D, Rosa F, Matullo G, Poli V, Provero P. Identification of functional cis-regulatory polymorphisms in the human genome. Hum Mutat. 2013. PMID: 23420607
  6. Grassi E, Gregorio FD, Molineris I. KungFQ: a simple and powerful approach to compress fastq files. IEEE/ACM Trans Comput Biol Bioinform. 2012. PubMed PMID: 23221092
  7. Lembo A, Di Cunto F, Provero P. Shortening of 3'UTRs correlates with poor prognosis in breast and lung cancer. PLoS One. 2012. PMID: 22347440
  8. Karreth FA, Tay Y, Perna D, Ala U, Tan SM, Rust AG, DeNicola G, Webster KA, Weiss D, Perez-Mancera PA, Krauthammer M, Halaban R, Provero P, Adams DJ, Tuveson DA, Pandolfi PP. In vivo identification of tumor- suppressive PTEN ceRNAs in an oncogenic BRAF-induced mouse model of melanoma. Cell. 2011. PMID: 22000016
  9. Molineris I, Grassi E, Ala U, Di Cunto F, Provero P. Evolution of promoter affinity for transcription factors in the human lineage.Mol Biol Evol. 2011. PMID: 21335606
  10. Piro RM, Ala U, Molineris I, Grassi E, Bracco C, Perego GP, Provero P, Di Cunto F. An atlas of tissue-specific conserved coexpression for functional annotation and disease gene prediction. Eur J Hum Genet. 2011. PMID: 21654723
  11. Damasco C, Lembo A, Somma MP, Gatti M, Di Cunto F, Provero P. A signature inferred from Drosophila mitotic 

Prof. Paolo PROVERO - Associate Professor
Dott. Ugo ALA – Post doctoral fellow
Ivan Molineris – Post doctoral fellow
Elena Grassi -  PhD Student
Davide Marnetto – PhD Student 


Last update: 17/05/2019 09:18
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