PhD programmes - Science and Technology
Doctoral programme
Biomolecular Sciences
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Publications (in chronological order)

PAPERS

2021 - 2023

  • Brina D, Ponzoni A, Troiani M, Calì B, Pasquini E, Attanasio G, Mosole S, Mirenda M, D'Ambrosio M, Colucci M, Guccini I, Revandkar A, Alajati A, Tebaldi T, Donzel D, Lauria F, Parhizgari N, Valdata A, Maddalena M, Calcinotto A, Bolis M, Rinaldi A, Barry S, Rüschoff JH, Sabbadin M, Sumanasuriya S, Crespo M, Sharp A, Yuan W, Grinu M, Boyle A, Miller C, Trotman L, Delaleu N, Fassan M, Moch H, Viero G, de Bono J, Alimonti A. The Akt/mTOR and MNK/eIF4E pathways rewire the prostate cancer translatome to secrete HGF, SPP1 and BGN and recruit suppressive myeloid cells. Nat Cancer. 2023 Aug;4(8):1102-1121. doi: 10.1038/s43018-023-00594-z. Epub 2023 Jul 17. PMID: 37460872
  • Guendalina Bergonzoni, Jessica Döring and Marta Biagioli. D1R- and D2R-Medium-Sized Spiny Neurons Diversity: Insights Into Striatal Vulnerability to Huntington’s Disease Mutation. Frontiers in Cellular Neuroscience. doi: 10.3389/fncel.2021.628010. 
  • Dilara Ayyildiz, Alan Monziani, Takshashila Tripathi, Jessica Döring, Guendalina Bergonzoni, Emanuela Kerschbamer, Francesca Di Leva, Elia Pennati, Luisa Donini, Marina Kovalenko, Jacopo Zasso, Luciano Conti, Vanessa C. Wheeler, Christoph Dieterich, Silvano Piazza, Erik Dassi, and Marta Biagioli. Defective linear and circular RNAs biogenesis in Huntington’s disease: CAG repeat expansion hijacks neuronal splicing. https://doi.org/10.1101/2021.12.27.474266 
  • Giulia Biancon, Emma Busarello, Poorval Joshi, Bluma J Lesch, Stephanie Halene, and Toma Tebaldi, Deconvolution of in vivo protein-RNA contacts using fractionated eCLIP-seq (freCLIP-seq). CellPress (in press)
  • Valles-Colomer M, Blanco-Míguez A, Manghi P, Asnicar F, Dubois L, Golzato D, Armanini F, Cumbo F, Huang KD, Manara S, Masetti G, Pinto F, Piperni E, Punčochář M, Ricci L, Zolfo M, Farrant O, Goncalves A, Selma-Royo M, Binetti AG, Becerra JE, Han B, Lusingu J, Amuasi J, Amoroso L, Visconti A, Steves CM, Falchi M, Filosi M, Tett A, Last A, Xu Q, Qin N, Qin H, May J, Eibach D, Corrias MV, Ponzoni M, Pasolli E, Spector TD, Domenici E, Collado MC, Segata N. The person-to-person transmission landscape of the gut and oral microbiomes. Nature. 2023 Jan 18. doi: 10.1038/s41586-022-05620-1. 
  • I. Mancini, A. Defant, N. Innocenti, F. Dosi,  Synthesis of Nucleoside-like Molecules from a Pyrolysis Product of Cellulose and Their Computational Prediction as Potential SARS-CoV-2 RNA-Dependent RNA Polymerase Inhibitors. International Journal of Molecular Sciences, doi: 10.3390/ijms23010518.
  • Francesca Destefanis*, Valeria Manara*, Stefania Santarelli*, Sheri Zola, Marco Brambilla, Giacomo Viola, Paola Maragno, Ilaria Signoria, Gabriella Viero, Maria Enrica Pasini, Marianna Penzo, Paola Bellosta. Reduction of nucleolar NOC1 accumulates pre-rRNAs and induces Xrp1 affecting growth and resulting in cell competition in Drosophila.  bioRxiv 2021.07.06.451100; doi: https://doi.org/10.1101/2021.07.06.451100
  • Mariachiara Micaelli, Andrea Dalle Vedove, Linda Cerofolini, Jacopo Vigna, Denise Sighel, Sara Zaccara, Isabelle Bonomo, Georgios Poulentzas, Emanuele Filiberto Rosatti, Giulia Cazzanelli, Laura Alunno, Romina Belli, Daniele Peroni, Erik Dassi, Shino Murakami, Samie R. Jaffrey, Marco Fragai, Ines Mancini, Graziano Lolli, Alessandro Quattrone, and Alessandro Provenzani. Small-Molecule Ebselen Binds to YTHDF Proteins Interfering with the Recognition of N6-Methyladenosine-Modified RNAs.  ACS Pharmacology & Translational Science 2022 5 (10), 872-891. DOI: 10.1021/acsptsci.2c00008
  • Marco Chierici, Nicolae Puica, Matteo Pozzi, Antonello Capistrano, Marcello Dorian Donzella, Antonio Colangelo, Venet Osmani and Giuseppe Jurman. Automatically detecting Crohn's disease and Ulcerative Colitis from endoscopic imaging.  BMC Medical Informatics and Decision Making. BMC Med Inform Decis Mak. 2022 Nov 18;22(Suppl 6):300. doi: 10.1186/s12911-022-02043-w. PMID: 36401328
  • Nicolai Karcher, Eleonora Nigro, Michal Punčochář, Aitor Blanco-Míguez, Matteo Ciciani, Paolo Manghi, Moreno Zolfo, Fabio Cumbo, Serena Manara, Davide Golzato, Anna Cereseto, Manimozhiyan Arumugam, Thi Phuong Nam Bui, Hanne L. P. Tytgat, Mireia Valles-Colomer, Willem M. de Vos & Nicola Segata. Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly.  Genome Biology. 10.1186/s13059-021-02427-7
  • Gianluca Ianiro, Michal Punčochář, Nicolai Karcher, Serena Porcari, Federica Armanini, Francesco Asnicar, Francesco Beghini, Aitor Blanco-Míguez, Fabio Cumbo, Paolo Manghi, Federica Pinto, Luca Masucci, Gianluca Quaranta, Silvia De Giorgi, Giusi Desirè Sciumè, Stefano Bibbò, Federica Del Chierico, Lorenza Putignani, Maurizio Sanguinetti, Antonio Gasbarrini, Mireia Valles-Colomer, Giovanni Cammarota & Nicola Segata. Variability of strain engraftment and predictability of microbiome composition after fecal microbiota transplantation across different diseases.  Nature Medicine. 10.1038/s41591-022-01964-3
  • Righetti E, Antonello A, Marchetti L, Domenici E, Reali F. Mechanistic models of α-synuclein homeostasis for Parkinson’s disease: A blueprint for therapeutic intervention. https://arxiv.org/abs/2209.15524 [Preprint]. 
  • Denise Sighel, Giulia Battistini, Emanuele Filiberto Rosatti, Jacopo Vigna, Matteo Pavan, Romina Belli, Daniele Peroni, Federica Alessandrini, Sara Longhi, Michael Pancher, Joanna Rorbach, Stefano Moro, Alessandro Quattrone, Ines Mancini. Streptogramin A derivatives as mitochondrial translation inhibitors to suppress glioblastoma stem cell growth.  Eur J Med Chem. 2023 Jan 15;246:114979.  doi: 10.1016/j.ejmech.2022.114979.
  • Riccardo Scandino, Federico Calabrese, Alessandro Romanel, Synggen: fast and data-driven generation of synthetic heterogeneous NGS cancer data. Bioinformatics, 2023 Jan 1;39(1):btac792.  doi: 10.1093/bioinformatics/btac792.
  • Kevin P. Guay, Roberta Ibba, JL Kiappes, Maria De Benedictis, Ilaria Zeni, James D. Le Cornu, Mario Hensen, Anu V. Chandran, Anastassia L. Kantsadi, Alessandro T. Caputo, Juan I. Blanco Capurro, Yusupha Bayo, Johan C. Hill, Kieran Hudson, Andrea Lia, Snežana Vasiljević, Carlos P. Modenutti, Stephen G. Withers, Marcelo Martí, Emiliano Biasini, Angelo Santino, Daniel N. Hebert, Nicole Zitzmann, Pietro Roversi. A quinolin-8-ol sub-millimolar inhibitor of UGGT, the ER glycoprotein folding quality control checkpoint. BioRxiv -preprint- doi: https://doi.org/10.1101/2022.06.21.496940
  • Spagnolli G., Massignan T., Astolfi A. et al. Pharmacological inactivation of the prion protein by targeting a folding intermediate.  Commun Biol 4, 62 2021). DOI: 10.1038/s42003-020-01585-x
  • Diomede L, Baroni S, De Luigi A et al. Doxycycline Inhibition of a Pseudotyped Virus Transduction Does Not Translate to Inhibition of SARS-CoV-2 Infectivity.  Viruses. 2021 Sep 1;13(9):1745. doi: 10.3390/v13091745. PMID: 34578326; PMCID: PMC8473150.
  • Ilaria Brentari, Virginia Brancato, Lucia Coscujuela Tarrero, Mattia Furlan, Francesco Nicassio and Michela A. Denti – News from around the RNA world: new avenues in RNA biology, biotechnology and therapeutics from the 2022 SIBBM meeting – The Company of Biologists – 2022 – doi:10.1242/bio.059597.
  • Samuel Valentini, Francesco Gandolfi, Mattia Carolo, Davide Dalfovo, Lara Pozza, Alessandro Romanel. Polympact: exploring functional relations among common human genetic variants.  Nucleic Acids Research, DOI: 10.1093/nar/gkac024
  • Alessia Del Piano, Tea Kecman, Michael Schmid, Ruggero Barbieri, Luciano Brocchieri, Silvia Tornaletti, Claudia Firrito, Luca Minati, Paola Bernabo, Ilaria Signoria, Fabio Lauria, Thomas H. Gillingwater, Gabriella Viero, Massimiliano Clamer. Phospho-RNA sequencing with CircAID-p-seq. NAR 01 December 2021 https://doi.org/10.1093/nar/gkab1158 
  • Giulia Assoni*, Valeria La Pietra*, Rosangela Digilio*, Caterina Ciani, Nausicaa Valentina Licata, Mariachiara Micaelli, Elisa Facen, Weronika Tomaszewska, Linda Cerofolini, Anna Pérez-Ràfols, Marta Varela Rey, Marco Fragai, Ashwin Woodhoo, Luciana Marinelli, Daniela Arosio, Isabelle Bonomo, Alessandro Provenzani, Pierfausto Seneci. HuR-targeted agents: an insight into medicinal chemistry, biophysical, computational studies and pharmacological effects on cancer models.   Advanced Drug Delivery Review. 2022 Feb;181:114088. doi: 10.1016/j.addr.2021.114088.
  • Tedaldi G. et al., Genetic and Epigenetic Alterations of CDH1 Regulatory Regions in Hereditary and Sporadic Gastric Cancer.  Pharmaceuticals, 2021 May 12;14(5):457. doi: 10.3390/ph14050457. DOI: 10.3390/ph14050457
  • Aiello, Giuseppe et al. Transient rapamycin treatment during developmental stage extends lifespan in Mus musculus and Drosophila melanogaster.  EMBO reports vol. 23,9 (2022): e55299. doi:10.15252/embr.202255299
  • Gilmozzi V, Gentile G, Riekschnitz DA, Volpato CB, Di Segni M, Silipigni R, Pramstaller PP, Hicks AA, Pichler I, Zanon A; Generation of an induced pluripotent stem cell line (EURACi014-A) from a Parkinson's disease patient with an A53T mutation in the SNCA gene by an integration-free reprogramming method.  Stem Cell research; doi: 10.1016/j.scr.2022.102713
  • Castelo Rueda MP, Gilmozzi V, Riekschnitz DA, Di Segni M, Silipigni R, Pramstaller PP, Hicks AA, Pichler I, Zanon A; Generation and characterization of induced pluripotent stem cell (iPSC) lines of two asymptomatic individuals carrying a heterozygous exon 7 deletion in Parkin (PRKN) and two non-carriers from the same family. Stem cell research; doi: 10.1016/j.scr.2022.102692
  • Clara Zaccaria, Mattia Mancinelli, Beatrice Vignoli, Ilya Auslender, Paolo Bettotti, Asiye Malkoç, Marco Canossa, Lorenzo Pavesi, Light induced memory in in-vitro neuronal cultures.  Proc. SPIE 11947, Optogenetics and Optical Manipulation 2022, 1194703. doi: 10.1117/12.2606876
  • Matteo Ciciani, Michele Demozzi, Eleonora Pedrazzoli, Elisabetta Visentin, Laura Pezzè, Lorenzo Signorini, Aitor Blanco-Míguez, Moreno Zolfo, Francesco Asnicar, Antonio Casini, Nicola Segata, Anna Cereseto. Automated identification of sequence-tailored Cas9 proteins using massive metagenomic data.  Nat. Commun. 2022 Oct 29;13(1):6474.  doi: 10.1038/s41467-022-34213-9.
  • Michele Tomasi, Elena Caproni, Mattia Benedet, Ilaria Zanella, Sebastiano Giorgetta, Mattia Dalsass, Enrico König, Assunta Gagliardi, Laura Fantappiè, Alvise Berti, Silvia Tamburini, Lorenzo Croia, Gabriele Di Lascio, Erika Bellini, Silvia Valensin, Giada Licata, Guido Sebastiani, Francesco Dotta, Federica Armanini, Fabio Cumbo, Francesco Asnicar, Aitor Blanco-Míguez, Eliana Ruggiero, Nicola Segata, Guido Grandi, Alberto Grandi - Membrane Vesicles From The Gut Microbiome Contribute to Tumor Immunity by Eliciting Cross-Reactive T Cells. Outer– Frontiers in Oncology, 2022 DOI: 10.3389/fonc.2022.912639
  • Tschigg, K., Consoli, L., Biasiotto, R., & Mascalzoni, D. (2022).Ethical, legal and social/societal implications (ELSI) of recall-by-genotype (RbG) and genotype-driven-research (GDR) approaches: a scoping review.  Eur. J. Hum. Genet., 1–11. doi: 10.1038/s41431-022-01120-y
  • Roberta Biasiotto, Maria Kösters, Katharina Tschigg, Peter P. Pramstaller, Norbert Brüggeman, Max Borsche, Christine Klein, Andrew A. Hicks, Deborah Mascalzoni. Participant perspective on the recall-by-genotype research approach: a mixed-method embedded study with participants of the CHRIS study.  Eur J Hum Genet. 2023 Jan 4. doi: 10.1038/s41431-022-01277-6.
  • Fadaei, Fatemeh; Tortora, Mariagrazia; Gessini, Alessandro; Masciovecchio, Claudio; Catalini, Sara; Vigna, Jacopo; Mancini, Ines; Mele, Andrea; Vacek, Jan; Reha, David; Minofar, Babak; Rossi, Barbara. Structural specificity of groove binding mechanism between imidazolium-based ionic liquids and DNA revealed by synchrotron-UV Resonance Raman spectroscopy and molecular dynamics simulations.  JOURNAL OF MOLECULAR LIQUIDS, v. 347, (2022), p. 118350.1-118350.14. DOI:10.1016/j.molliq.2021.118350
  • Mancini, Ines; Vigna, Jacopo; Sighel, Denise; Defant, Andrea. Hybrid Molecules Containing Naphthoquinone and Quinolinedione Scaffolds as Antineoplastic Agents.  MOLECULES, v. 27, n. 15 (2022), p. 4948-4989. - URL: https://www.mdpi.com/1420-3049/27/15/4948. - DOI:10.3390/molecules27154948;
  • G. Assoni*, G. Frapporti*, E. Colombo, D. Gornati, M. D. Perez-Carrion, L. Polito, P. Seneci, G. Piccoli, D. Arosio, Trehalose-based neuroprotective autophagy inducers, Bioorg. Med. Chem. Lett. 40 (2021) 127929, https://doi.org/10.1016/j.bmcl.2021.127929.
  • G. Assoni*, V. La Pietra*, R. Digilio*, C. Ciani, N. V. Licata, M. Micaelli, E. Facen, W. Tomaszewska, L. Cerofolini, A. Pérez-Ràfols, M. Varela Rey, M. Fragai, A. Woodhoo, L. Marinelli, D. Arosio, I. Bonomo, A.  Provenzani, P. Seneci, HuR-targeted agents: an insight into medicinal chemistry, biophysical, computational studies and pharmacological effects on cancer models,  Adv. Drug Deliv. Rev. 181 (2022) 114088,  https://doi.org/10.1016/j.addr.2021.114088
  • P. Russomanno*, G. Assoni*, J. Amato*, V. M. D'Amore, R. Scaglia, D. Brancaccio, M. Pedrini, G. Polcaro, V. La Pietra, P. Orlando, M. Falzoni, L. Cerofolini, S. Giuntini, M. Fragai, B. Pagano, G. Donati, E. Novellino, C. Quintavalle, G. Condorelli, F. Sabbatino, P. Seneci, D. Arosio, S. Pepe, L. Marinelli, J. Interfering with the Tumor-Immune Interface: Making Way For Triazine-Based Small Molecules as Novel PD-L1 Inhibitors,  Med. Chem. – J. Med. Chem. 64 (2021) 16020, https://doi.org/10.1021/acs.jmedchem.1c01409
  • Frapporti G.*, Colombo E.*, Ahmed H., Assoni G., Polito L., Randazzo P., Arosio D., Seneci P., Piccoli G. Squalene based nano-assemblies improve the pro-autophagic activity of trehalose. Pharmaceutics 14 (2022) 862. https://doi.org/10.3390/pharmaceutics14040862.
  • Supriya Chakraborty, Claudio Martines, Fabiola Porro, Ilaria Fortunati, Alice Bonato, Marija Dimishkovska, Silvano Piazza, Brijesh S. Yadav, Idanna Innocenti, Rosa Fazio, Tiziana Vaisitti, Silvia Deaglio, Alberto Zamò, Aleksandar J. Dimovski, Luca Laurenti, Dimitar G. Efremov. B-cell receptor signaling and genetic lesions in TP53 and CDKN2A/CDKN2B cooperate in Richter transformation. Blood (2021). doi.org/10.1182/blood.2020008276
  • Daniele Pollini, Rosa Loffredo, Federica Maniscalco, Marina Cardano, Mariachiara Micaelli, Isabelle Bonomo, Nausicaa Valentina Licata, Daniele Peroni, Weronika Tomaszewska, Annalisa Rossi, Valeria Crippa, Erik Dassi, Gabriella Viero, Alessandro Quattrone, Angelo Poletti, Luciano Conti, Alessandro Provenzani. Multilayer and MATR3-dependent regulation of mRNAs maintains pluripotency in human induced pluritpotent stem.  iScience volume 24, issue 3, 102197, March 19, 2021. DOI: 10.1016/j.isci.2021.102197
  • Giulia Ruozi, Francesca Bortolotti, Antonio Mura, Mateusz Tomczyk, Antonella Falcione, Valentina Martinelli, Simone Vodret, Luca Braga, Matteo Dal Ferro, Antonio Cannatà, Lorena Zentilin, Gianfranco Sinagra, Serena Zacchigna, Mauro Giacca. Cardioprotective factors against myocardial infarction selected in vivo from an AAV secretome library.  Science Translational Medicine, 14(660), eabo0699. doi: 10.1126/scitranslmed.abo0699.
  • IDiehl, W.E.; Guney, M.H.; Vanzo, T.; Kyawe, P.P.; White, J.M.; Pizzato, M.; Luban, J. nfluence of Different Glycoproteins and of the Virion Core on SERINC5 Antiviral Activity.  Viruses 2021, 13, 1279. https://doi.org/10.3390/v13071279
  • Huan Peng, Daniele Rossetto, Sheref S. Mansy, Maria C. Jordan, Kenneth P. Roos, and Irene A. Chen Treatment of Wound Infections in a Mouse Model Using Zn2+-Releasing Phage Bound to Gold Nanorods.  (2022). ACS Nano, 16 (3), 4756-4774. DOI: 10.1021/acsnano.2c00048
  • Valer L., Rossetto D., Scintilla S., Hu y. J., Anju, Nader S, Betinol O. I, and Mansy S. S, Methods to identify and characterize iron-sulfur peptides in water. Canadian Journal of Chemistry.  https://doi.org/10.1139/cjc-2021-0237
  • Rossetto, D., and Mansy, S. S. Metals Are Integral to Life as We Know It.  (2022). Front. Cell Dev. Biol. 10, 2020–2023. doi:10.3389/fcell.2022.864830.
  • Rossetto, D.; Valer, L.; Yeh Martín, N.; Guella, G.; Hongo, Y.; Mansy, S. S. Prebiotic Environments with Mg2+ and Thiophilic Metal Ions Increase the Thermal Stability of Cysteine and Non- cysteine Peptides. In ACS Earth and Space Chemistry. 2022. https://doi.org/10.1021/acsearthspacechem.2c00042.
  • Valer, L.; Rossetto, D.; Parkkila, T.; Sebastianelli, L.; Guella, G.; Hendricks, A. L.; Cowan, J. A.; Sang, L.; Mansy, S. S. Histidine Ligated Iron-Sulfur Peptides.  ChemBioChem 2022, n/a (n/a), e202200202. https://doi.org/https://doi.org/10.1002/cbic.202200202.
  • Ceci, A.T.; Bassi, M.; Guerra, W.; Oberhuber, M.; Robatscher, P.; Mattivi, F.; Franceschi, P. Metabolomic Characterization of Commercial, Old, and Red-Fleshed Apple Varieties.  Metabolites 2021, 11, 378. https://doi.org/10.3390/metabo11060378
  • Ceci, Adriana Teresa; Franceschi, Pietro; Serni, Enrico; Perenzoni, Daniele; Oberhuber, Michael; Robatscher, Peter; Mattivi, Fulvio, Metabolomic Characterization of Pigmented and Non-Pigmented Potato Cultivars Using a Joint and Individual Variation Explained (JIVE); FOODS, v. 11, n. 12 (2022), p. 170801-170825. - URL: https://www.mdpi.com/2304-8158/11/12/1708 . - DOI: 10.3390/foods11121708
  • Lena Granehäll, Kun D Huang, Adrian Tett, Paolo Manghi, Alice Paladin, Niall O’Sullivan, Omar Rota-Stabelli, Nicola Segata, Albert Zink, Frank Maixner, Metagenomic analysis of ancient dental calculus reveals unexplored diversity of oral archaeal Methanobrevibacter.  Microbiome, 2021, 10.1186/s40168-021-01132-8
  • Francesco Beghini, Lauren J McIver, Aitor Blanco-Míguez, Leonard Dubois, Francesco Asnicar, Sagun Maharjan, Ana Mailyan, Paolo Manghi, Matthias Scholz, Andrew Maltez Thomas, Mireia Valles-Colomer, George Weingart, Yancong Zhang, Moreno Zolfo, Curtis Huttenhower, Eric A Franzosa, Nicola Segata, Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3.  Elife 10, 2021, 10.7554/eLife.65088
  • Davide Serrano, Chiara Pozzi, Silvia Guglietta, Bruno Fosso, Mariano Suppa, Patrizia Gnagnarella, Federica Corso, Federica Bellerba, Debora Macis, Valentina Aristarco, Paolo Manghi, Nicola Segata, Cristina Trovato, Maria Giulia Zampino, Marinella Marzano, Bernardo Bonanni, Maria Rescigno, Sara Gandini, Microbiome as Mediator of Diet on Colorectal Cancer Risk: The Role of Vitamin D, Markers of Inflammation and Adipokines.  Nutrients, 2021, 10.3390/nu13020363
  • Paolo Ghensi, Paolo Manghi, Moreno Zolfo, Federica Armanini, Edoardo Pasolli, Mattia Bolzan, Alberto Bertelle, Federico dall’Acqua, Romina Waldner, Francesco Tessarolo, Cristiano Tomasi, Nicola Segata, Strong oral plaque microbiome signatures for dental implant diseases identified by strain- resolution metagenomics. npj Biofilms and Microbiomes, 2021, 10.1038/ s41522-020-00155-7
  • Bussola N Papa B, Melaiu O, Castellano A, Fruci D, and Jurman G. Quantification of the immune content in Neuroblastoma: Deep Learning and Topological Data Analysis in Digital Pathology.  International Journal of Molecular Sciences 22, no. 16: 8804 (2021).
  • Bussola N Marcolini A, Maggio V, Jurman G, and Furlanello C. AI slipping on tiles: data leakage in digital pathology.  Lecture Notes in Computer Science, vol 12661. Springer (2021).
  • Monaco S, Bussola N Buttò S, Sona D, Apiletti D, Jurman G, Viola E, Chierici M, Xinaris C, and Viola V. Cyst segmentation on kidney tubules by means of U-Net deep-learning models. IEEE proceedings of the BigData 2021 workshop Multi-Modal Medical Data Analysis (2021).
  • Magarò, Maria Sara; Bertacchini, Jessika; Florio, Francesca; Zavatti, Manuela; Potì, Francesco; Cavani, Francesco; Amore, Emanuela; De Santis, Ilaria; Bevilacqua, Alessandro; Reggiani Bonetti, Luca; Torricelli, Pietro; Maurel, Delphine B; Biressi, Stefano; Palumbo, Carla, Identification of Sclerostin as a Putative New Myokine Involved in the Muscle-to-Bone Crosstalk. in BIOMEDICINES, v. 9, n. 1 (2021), p. 71. - DOI: 10.3390/biomedicines9010071
  • Ghzaiel, Imen; Zarrouk, Amira; Nury, Thomas; Libergoli, Michela; Florio, Francesca; Hammouda, Souha; Ménétrier, Franck; Avoscan, Laure; Yammine, Aline; Samadi, Mohammad; Latruffe, Norbert; Biressi, Stefano; Levy, Débora; Bydlowski, Sérgio Paulo; Hammami, Sonia; Vejux, Anne; Hammami, Mohamed; Lizard, Gérard, Antioxidant Properties and Cytoprotective Effect of Pistacia lentiscus L. Seed Oil against 7β-Hydroxycholesterol-Induced Toxicity in C2C12 Myoblasts: Reduction in Oxidative Stress, Mitochondrial and Peroxisomal Dysfunctions and Attenuation of Cell Death. in ANTIOXIDANTS, v. 10, n. 11 (2021), p. 1772. - DOI: 10.3390/antiox10111772
  • Francesca Florio, Silvia Accordini, Michela Libergoli and Stefano Biressi, Targeting muscle-resident single cells through in vivo electro-enhanced plasmid transfer in healthy and compromised skeletal muscle. Frontiers in Physiology - Striated Muscle Physiology. doi: 10.3389/fphys.2022.834705
  • Gaudioso, G.; Marzorati, G.; Faccenda, F.; Weil, T.; Lunelli, F.; Cardinaletti, G.; Marino, G.; Olivotto, I.; Parisi, G.; Tibaldi, E.; Tuohy, K.M.; Fava, F. Processed animal proteins from insect and poultry by- products in fish meal-free diet for rainbow trout: impact on intestinal microbiota and inflammatory markers. Int. J. Mol. Sci. 2021, 22, 5454. https://doi.org/10.3390/ijms22115454
  • Ubbiali D, Orlando M, Kovačič M, Iacobucci C, Fortuna S, Semrau MS, Medagli B, Bajc G, Oloketuyi S, Sinz A, Grandori R, Storici P, de Marco A. An anti-HER2 nanobody binds to its antigen HER2 via two independent paratopes. International Journal of Biological Macromolecules, Volume 182, 2021, Pages 502-511, ISSN 0141-8130,
  • Battista T, Pascarella G, Staid DS, Colotti G, Rosati J, Fiorillo A, Casamassa A, Vescovi AL, Giabbai B, Semrau MS, Fanelli S, Storici P, Squitieri F, Morea V, Ilari A. Known Drugs Identified by Structure-Based Virtual Screening Are Able to Bind Sigma-1 Receptor and Increase Growth of Huntington Disease Patient-Derived Cells. Int. J. Mol. Sci. 2021, 22, 1293.
  • Chiara Ambrosini*, Francesca Garilli, Alessandro Quattrone, Reprogramming Translation for Gene Therapy 2021 (Progress in Molecular Biology and Translational Science)
  • Denise Sighel, Michela Notarangelo, Shintaro Aibara, Angela Re, Gianluca Ricci, Marianna Guida, Alessia Soldano, Valentina Adami, Chiara Ambrosini, Francesca Broso et al.,Inhibition of mitochondrial translation suppresses glioblastoma stem cell growth. 2021 (Cell Reports)
  • Corbellari R, Stringhini M, Mock J, Ongaro T, Villa A, Dario Neri and Roberto De Luca. A novel antibody-interleukin-15 fusion protein selectively localizes to tumors, synergizes with TNF-based immunocytokines and inhibits metastasis. (Molecular Cancer Therapeutics, 2021)
  • Zanella I, König E, Tomasi M , Gagliardi A, Isaac SJ, Grigolato M, Frattini L, Zerbini F , Fantappiè L, Irene C, Caproni R, Corbellari R , Valensin S, Bini L, Ashhab Y, Grandi A and Guido Grandi. Proteome-minimized Outer Membrane Vesicles from Escherichia coli as a vaccine platform for infectious diseases and cancer.(Journal of Extra Cellular Vescicles, 2021)
  • Jacopo Millul, Gabriele Bassi, Jacqueline Mock, Abdullah Elsayed, Christian Pellegrino, Aureliano Zana, Sheila Dakhel Plaza, Lisa Nadal, Andreas Gloger, Eleonore Schmidt, Ilaria Biancofiore, Etienne J. Donckele,Florent Samain, Dario Nerib, and Samuele Cazzamalli. An ultra-high-affinity small organic ligand of fibroblast activation protein for tumor-targeting applications. PNAS 2021 Vol. 118 No. 16 e2101852118 - DOI:/10.1073/pnas.2101852118
  • Alaimo A, De Felice D, Genovesi S, Lorenzoni M, Lunardi A. Tune the channel: TRPM8 targeting in prostate cancer. Oncoscience. 2021 Sep 10;8:97-100. doi: 10.18632/oncoscience.543. PMID: 34514058; PMCID: PMC8428510. https://pubmed.ncbi.nlm.nih.gov/34514058/ – 2021
  • De Felice D. Beccaceci G. Genetic Syndromes: A Comprehensive Reference Guide Chapter: Wilson Disease https://doi.org/10.1007/978-3-319-66816-1– 2021 

2010 - 2020

  • Lauria F., Bernabò P., Tebaldi T., Groen E.J.N., Perenthaler E., Maniscalco F., Rossi A., Donzel D., Clamer M., Marchioretto M., Omersa N., Orri J., Dalla Serra M., Anderluh G., Quattrone A., Inga A., Gillingwater T.H. & Viero G. SMN-primed ribosomes modulate the translation of transcripts related to spinal muscular atrophya. Nature Cell Biology volume 22, pages1239–1251(2020)
  • Lauria F., Bernabò P., Tebaldi T., Groen E.J.N., Perenthaler E., Maniscalco F., Rossi A., Donzel D., Clamer M., Marchioretto M., Omersa N., Orri J., Dalla Serra M., Anderluh G., Quattrone A., Inga A., Gillingwater T.H. & Viero G. SMN-primed ribosomes modulate the translation of transcripts related to spinal muscular atrophya. Nature Cell Biology volume 22, pages1239–1251(2020)
  • Chierici M, Giulini M, Bussola N, Jurman J, and Furlanello C. Machine learning models for predicting endocrine disruption potential of environmental chemicals. Journal of Environmental Science and Health Part C, doi: 10.1080/10590501.2018.1537155, 10 Jan 2019.
  • Bizzego A & Bussola N, Chierici M, Cristoforetti M, Francescatto M, Maggio V, Jurman G, and Furlanello C. Evaluating reproducibility of AI algorithms in digital pathology with DAPPER. PLOS Computational Biology, doi: 10.1371/journal.pcbi.1006269, Mar 27 2019.
  • Bizzego A, Bussola N, Salvalai D, Chierici M, Maggio V, Jurman G, and Furlanello C. Integrating deep and radiomics features in cancer bioimaging. IEEE Proceedings of the 16th International Conference on Computational Intelligence in Bioinformatics and Computational Biology, doi: 10.1109/CIBCB.2019.8791473, 8 Aug 2019.
  • Bussola N & Marcolini A, Maggio V., Jurman G, and Furlanello C. Not again! Data Leakage in Digital Pathology Arxiv preprint 1909.06539, 29 Sep 2019.
  • Fracassi G, Lorenzin F, Demichelis F, Better screened than sorry!—an informed panel of inherited DNA repair gene variants for prostate cancer screening and prognostication, Annals of Translational Medicine, doi: 10.21037/atm.2019.06.59
  • Colombo E, Biocotino M, Frapporti G, Randazzo P, Christodoulou MS, Piccoli G, Polito L, Seneci P, Passarella D. Nanolipid-Trehalose Conjugates and Nano-Assemblies as Putative Autophagy Inducers. Pharmaceutics. 2019 Aug 20;11(8). pii: E422. doi: 10.3390/pharmaceutics11080422.
  • Pontali G., Cascione L., Arribas A.J., Rinaldi A., Bertoni F., Giugno R. (2019). In: Rojas I., Valenzuela O., Rojas F., Ortuño F. A Reliable Method to Remove Batch Effects Maintaining Group Differences in Lymphoma Methylation Case Study (eds) Bioinformatics and Biomedical Engineering. IWBBIO 2019. Lecture Notes in Computer Science, vol 11466. Springer, Cham
  • Veggiani G, Giabbai B, Semrau MS, Medagli B, Riccio V, Bajc G, Storici P, de Marco A. Comparative analysis of fusion tags used to functionalize recombinant antibodies. Protein Expr Purif. 2019 Sep 26:105505. doi: 10.1016/j.pep.2019.105505.
  • Bertino F, Firestone K, Bellacchio E, Jackson KE, Asamoah A, Hersh J, Fiorito V, Destefanis F, Gonser R, Tucker ME, Altruda F, Tolosano E, Chiabrando D, Heme and sensory neuropathy: insights from novel mutations in the heme exporter Feline Leukemia Virus subgroup C Receptor 1, Pain, 2019 Aug 10.
  • Destefanis F, Fiorito V, Altruda F, Tolosano E, Investigating the connection between endogenous heme accumulation and COX2 activity in cancer cells, Front Oncol, 2019 Mar 19.
  • De Caneva A. , Porro F. , Bortolussi G. , Sola R. , Lisjak M. , Barzel A. , Giacca M. , Kay MA. , Vlahoviček K. , Zentilin L. , Muro AF. Coupling AAV-mediated promoterless gene targeting to SaCas9 nuclease to efficiently correct liver metabolic diseases. JSI Insight. doi: 10.1172/jci.insight.128863
  • Ciato D, Li R, Monteserin Garcia J, L, Papst L, D’Annunzio S, Hristov M, Tichomirowa M, A, Belaya Z, Rozhinskaya L, Buchfelder M, Theodoropoulou M, Paez-Pereda M, Stalla G, Inhibition of Heat Shock Factor 1 Enhances Repressive Molecular Mechanisms on the <b><i>POMC</i></b> Promoter, K. Neuroendocrinology 2019.doi: 10.1159/000500200
  • Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes spanning age, geography, and lifestyle, Pasolli E, Asnicar F, Manara S, Zolfo M, Karcher N, Armanini F, Beghini F, Manghi P, Tett A, Ghensi P, Collado MC, Rice BL, DuLong C, Morgan XC, Golden CD, Quince C, Huttenhower C, Segata N, Cell, https://doi.org/10.1016/j.cell.2019.01.001
  • Maltez Thomas A, Manghi P, Asnicar F, Pasolli E, Armanini F, Zolfo M, Beghini F, Manara S, Karcher N, Pozzi C, Gandini S, Serrano D, Tarallo S, Francavilla A, Gallo G, Trompetto M, Ferrero G, Mizutani S, Shiroma H, Shiba S, Shibata T, Yachida S, Yamada T, Wirbel J, Schrotz-King P, Ulrich CM, Brenner H, Arumugam M, Bork P, Zeller G, Cordero F, Dias-Neto E, Setubal JC, Tett A, Pardini B, Rescigno M, Waldron L, Naccarati A, Segata N, Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation, Nature Medicine, https://www.nature.com/articles/s41591-019-0405-7
  • Wirbel J, Pyl PT, Kartal E, Zych K, Kashani A, Milanese A, Fleck JS, Voigt AY, Palleja A, Ponnudurai R, Sunagawa S, Coelho LP, Schrotz-King P, Vogtmann E, Habermann N, Niméus E, Maltez Thomas A, Manghi P, Gandini S, Serrano D, Mizutani S, Shiroma H, Shiba S, Shibata T, Yachida S, Yamada T, Waldron L, Naccarati A, Segata N, Sinha R, Ulrich CM, Brenner H, Arumugam M, Bork P, Zeller G, Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer Nature Medicine, https://www.nature.com/ articles/s41591-019-0406-6
  • Tarallo S, Ferrero G, Gallo G, Francavilla A, Clerico G, Realis Luc A, Manghi P, Maltez Thomas A, Vineis P, Segata N, Pardini B, Naccarati A, Cordero F, Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples, mSystems, 10.1128/mSystems.00289-19
  • Martín NY, Valer L, Mansy SS:. Toward long-lasting artificial cells that better mimic natural living cells 09/2019;, DOI:10.1042/ETLS20190026
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  • Rigoli M, Spagnolli G, Faccioli P, Requena JR, Biasini E. Ok google, how could i design therapeutics against prion diseases?  Current Opinion in Pharmacology, Feb 2019. 44:39-45 DOI: 10.1016/j.coph.2019.03.015
  • Renson A, Jones HE, Beghini F, Segata N, Zolnik C, Usyk M, Moody TU, Thorpe L, Burk R, Waldron L, Dowd JB - Sociodemographic variation in the oral microbiome - Annals of Epidemiology, 2019/5/8 
  • Beghini F, Renson A, Zolnik CP, Geistlinger L, Usyk M, Moody TU, Lorna Thorpe, Dowd JB, Burk R, Segata N, Jones HE, Waldron L,  Tobacco exposure associated with oral microbiota oxygen utilization in the New York City Health and Nutrition Examination Study Annals of Epidemiology, 2019/3/28
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  • Hoxha E., Marcinnò A., Montarolo F., Masante L., Balbo I., Ravera F., Laezza F., Tempia F., Emerging roles of Fgf14 in behavioral control, Behavioural Brain Research, doi: 10.1016/j.bbr.2018.08.034
  • Biggi S*, Pancher M, Stincardini C, Luotti S, Massignan T, Dalle Vedove A, Astolfi A, Gatto P, Lolli G, Barreca ML, Bonetto V, Adami V and Biasini E*. Identification of compounds inhibiting prion replication and toxicity by removing PrPC from the cell surface. J Neurochem. 2019 Jul 2. doi: 10.1111/jnc.14805.
  • Gomes S., Bosco B., Loureiro J.B., Ramos H., Raimundo L., Soares J., Nazareth N., Barcherini V., Domingues L., Oliveira C., Bisio A., Piazza S., Bauer M.R., Bràs J.P., Almeida M.I., Gomes C., Reis F., Fersht A.R., Inga A., Santos M.M.M., Saraiva L., SLMP53-2 restores wild-type-like function to mutant p53 through Hsp70: promising activity in hepatocellular carcinoma. 2019. Cancers, 11, doi: 10.3390/cancers11081151
  • Monti P., Bosco B., Gomes S., Saraiva L., Fronza G., Inga A., Yeast as a chassis for developing functional assays to study human p53: background, protocols and examples, 2019. Journal of Visualized Experiments, 150, doi:10.3791/59071
  • Detassis S., Grasso M., Tabraue-Chavez M., Marín-Romero A., Lopez-Longarela B., Ilyine  H., Ress C., Ceriani S., Erspan M., Maglione A., Díaz-Mochon J.J., Pernagallo S., Denti M.A., New Platform for the Direct Profiling of microRNA in Biofluids. Analytical Chemistry. 2019. DOI: 10.1021/acs.analchem.9b00213
  • Delgado-Gonzalez A., Robles-Remacho A., Marín-Romero A., Detassis S., Lopez-Longarela B., Lopez-Delgado F.J., de Miguel-Perez D., Guardia-Monteagudo J.J., Fara M.A., Tabraue-Chavez M., Pernagallo S., Sanchez-Martin R., Diaz-Mochon J.J. PCR-free and Chemistry-based Technology for miR-21 Rapid Detection from Tumour Cells. Talanta. 2019: DOI: 10.1016/j.talanta.2019.03.039
  • Irene C, Fantappiè L, Caproni E, Zerbini F, Anesi A, Tomasi M, Zanella I, Stupia S, Prete S, Valensin S, König E, Frattini L, Gagliardi A, Isaac SJ, Grandi A, Guella G, and Grandi G – Bacterial outer membrane vesicles engineered with lipidated antigens as a platform for Staphylococcus aureus vaccine. PNAS 2019 Oct 7, DOI: 10.1073/pnas.1905112116
  • Maule G, Casini A, Montagna C, Ramalho AS, De Boeck K, Debyser Z, Carlon MS, Petris G, Cereseto A, Allele specific repair of splicing mutations in cystic fibrosis through AsCas12a genome editing, Nat Communication, 2019 Aug 7;10(1):3556. doi: 10.1038/s41467-019-11454-9.
  • Precazzini F, Pancher M, Gatto P, Tushe A, Adami V, Anelli V,  Mione MC, Automated in vivo screen in zebrafish identifies Clotrimazole as targeting a metabolic vulnerability in a melanoma model. Dev.Biol. 2019; doi:10.1016/j.ydbio.2019.04.005
  • Gabisonia K, Prosdocimo G, Aquaro GD, Carlucci L, Zentilin L, Secco I, Ali H, Braga L, Gorgodze N, Bernini F, Burchielli S, Collesi C, Zandonà L, Sinagra G, Piacenti M, Zacchigna S, Bussani R, Recchia FA, Giacca M, MicroRNA therapy stimulates uncontrolled cardiac repair after myocardial infarction in pigs. Nature, 2019 May;569(7756):418-422. doi: 10.1038/s41586-019-1191-6
  • Ferrara D, Pasetto L, Bonetto V and Basso M. Role of Extracellular Vesicles in Amyotrophic Lateral Sclerosis. Frontiers in Neuroscience, 2018. DOI: 10.3389/fnins.2018.00574.
  • Ferretti P, Pasolli E, Tett A, Asnicar F, Gorfer V, Fedi S, Armanini F, Truong DT, Manara S, Zolfo M, Beghini F, Bertorelli R, De Sanctis V, Bariletti I, Canto R, Clementi R, Cologna M, Crifò T, Cusumano G, Gottardi S, Innamorati C, Masè C, Postai D, Savoi D, Duranti S, Lugli GA, Mancabelli L, Turroni F, Ferrario C, Milani C, Mangifesta M, Anzalone R, Viappiani A, Yassour M, Vlamakis H, Xavier R, Collado CM, Koren O, Tateo S, Soffiati M, Pedrotti A, Ventura M, Huttenhower C, Bork P, Segata N - Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome - Cell Host & Microbe, Volume 24, Issue 1, 2018, https://doi.org/10.1016/j.chom.2018.06.005.
  • Wang F, Orioli S, Ianeselli A, Spagnolli G,. a Beccara S, Gershenson A, Faccioli P and Wintrode PL. All-Atom Simulations Reveal How Single-Point Mutations Promote Serpin Misfolding. Biophysical Journal, 8 May 2018. 114(9):2083-2094 DOI: 10.1016/j.bpj.2018.03.027
  • Bertelli C, Firrito C, Vanzo T, Chande A, and Pizzato M. The anti-retroviral activity of human SERINC genes. Retrovirology 2018, 15(Suppl 1):55. Proceedings of the Frontiers in Retrovirology Conference 2018. DOI: https://doi.org/10.1186/s12977-018-0436-z
  • Firrito C, Bertelli C, Vanzo T, Chande , and Pizzato M. SERINC5 as a new restriction factor for human immunodeficiency virus and murine leukaemia virus. Annual Reviews of Virology 2018 Vol. 5:323-340. DOI: 10.1146/annurev-virology-092917-043308
  • T Islam AD, Adlar PA, Finkelstein DI, Lewis V, Biggi S, Biasini E, Collins SJ, “Acute Neurotoxicity Models of Prion Disease” ACS Chem Neurosci. 2018 Feb 14. doi: 10.1021/acschemneuro.7b00517. [Epub ahead of print]
  • Barreca ML, Iraci N, Biggi S, Cecchetti V, Biasini E, “Pharmacological Agents Targeting the Cellular Prion Protein”. 2018, Pathogens, 7(1), doi:10.3390/pathogens7010027
  • Bosco B., Defant A., Messina A., Incitti T., Sighel D., Bozza A., Ciribilli Y., Inga A., Casarosa S. and Mancini I, Synthesis of 2,6-Diamino-Substituted Purine Derivatives and Evaluation of Cell Cycle Arrest in Breast and Colorectal Cancer Cells,., 2018. Molecules, 23, doi:10.3390/molecules23081996.
  • Sen S, Bonfio C, Mansy SS, Cowan JA., “Investigation of glutathione-derived electrostatic and hydrogen-bonding interactions and their role in defining Grx5 [2Fe-2S] cluster optical spectra and transfer chemistry”, J Biol Inorg Chem. 2018 Mar;23(2):241-252. doi: 10.1007/s00775-017-1525-5. Epub 2017 Dec 20.
  • Antonio Casini, Michele Olivieri, Gianluca Petris, Claudia Montagna, Giordano Reginato, Giulia Maule, Francesca Lorenzin, Davide Prandi, Alessandro Romanel, Francesca Demichelis, Alberto Inga, Anna Cereseto, “A highly specific SpCas9 variant is identified by in vivo screening in yeast”, Nature Biotechnology, doi:10.1038/nbt.4066  Epub. 29 January 2018
  • Schwarz-Schilling M, Dupin A, Chizzolini F, Krishnan S, Mansy SS, Simmel FC, “Optimized Assembly of a Multifunctional RNA-Protein Nanostructure in a Cell-Free Gene Expression System”, Nano Lett. 2018, doi:10.1021/acs.nanolett.8b00526
  • Lauria F, Tebaldi T, Bernabò P, Groen EJN, Gillingwater TH, Viero G (2018) riboWaltz: Optimization of ribosome P-site positioning in ribosome profiling data. PLoS Comput Biol 14(8): e1006169. DOI: https://doi.org/10.1371/journal.pcbi.1006169
  • Clamer, M., Tebaldi, T., Lauria, F., Bernabo, P., Gómez-Biagi, R. F., Perenthaler, E., ... & Gillingwater, T. H. (2018). Active ribosome profiling with RiboLace. Cell reports, 25(4), 1097-1108.  DOI: https://doi.org/10.1016/j.celrep.2018.09.084
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  • Leulmi N, Sighel D, Defant A, Khenaka K, Boulahrouf A, Mancini I “Nigericin and grisorixin methyl ester from the Algerian soil-living Streptomyces youssoufiensis SF10 strain: a computational study on their epimeric structures and evaluation of glioblastoma stem cells growth inhibition”. 2018, Nat. Prod. Res., doi:10.1080/14786419.2018.1446014
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  • Massignan, Tania; Sangiovanni, Valeria; Biggi, Silvia; Stincardini, Claudia; Elezgarai, Saioa R.; Maietta, Giulia; Andreev, Ivan A.; Ratmanova, Nina K.; Belov, Dmitry S.; Lukyanenko, Evgeny R.; Belov, Grigory M.; Barreca, Maria Letizia; Altieri, Andrea; Kurkin, Alexander V.; Biasini, Emiliano, "A Small-Molecule Inhibitor of Prion Replication and Mutant Prion Protein Toxicity" in CHEMMEDCHEM, v. 12, n. 16 (2017), p. 1286-1292. DOI: 10.1002/cmdc.201700302
  •  Claudia Bonfio, Luca Valer, Simone Scintilla, Sachin Shah, David J. Evans, Lin Jin, Jack W. Szostak, Dimitar D. Sasselov, John D. Sutherland, Sheref S. Mansy, "UV-light-driven prebiotic synthesis of iron–sulfur clusters". Nat Chem 2017 , DOI: 10.1038/nchem.2817
  •  C. Bonfio, S.S. Mansy, "The Chemical Roots of Iron-Sulfur Dependent Metabolism". Biochemistry. 2017 Oct 10;56(40):5225-5226. doi: 10.1021/acs.biochem.7b00842 
  •  Sen S, Bonfio C, Mansy SS, Cowan JA (2017), “Investigation of glutathione-derived electrostatic and hydrogen-bonding interactions and their role in defining Grx5 [2Fe-2S] cluster optical spectra and transfer chemistry”. J. Biol. Inorg. Chem., doi:10.1007/s00775-017-1525-5.
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  • Vhrovsek U., Guella G., Gasperotti M., Pojer E., Zancato M., Mattivi F., "Clarifying the identity of the main Ellagitannin in the fruit of the strawberry, Fragaria vesca and Fragaria ananassa Duch." Journal of Agricultural and Food Chemistry, 2012, 60, 10, pp. 2507-2516 (DOI: 10.1021/jf2052256) 
  • Vanzo A., Scholz M., Gasperotti M., Tramer F., Passamonti S., Vhrovsek U., Mattivi F., "Metabolomic investigation of rat tissues following intravenous administration of cyanidin 3-glucoside at a physiologically relevant dose", Metabolomics, 2012 (DOI: 10.1007/s11306-012-0430-8) 
  • Forlin M., Lentini R., Mansy S.S., "Cellular Imitations". 2012, Curr Opin Chem Biol, 16,586-592 link 
  • C. Potrich, L. Lunelli, L. Pasquardini, D. Sonn, D. Vozzi, R. Dallapiccola, L. Marocchi, I. Ferrante, O. Rossotto, C. Pederzolli. "One-shot genetic analysis in monolithic Silicon/Pyrex microdevices". Biomedical Microdevices 2012 Dec;14(6):1103-13. doi: 10.1007/s10544-012-9676-1.  link
  • Vidalino L., Monti L., Haase A., Moro A., Acquati F., Taramelli R., Macchi P. "Intracellular trakkicking of RNASET2, a novel component of P-bodies". Biol Cell. 2012 Jan;104(1):13-21. doi: 10.1111/boc.201100092. Epub 2011 Dec 1.. link 
  • Janjua Ha, N. Segata, P. Bernabò, S. Tamburini, A. Ellen, O. Jousson, "Clinical populations of Pseudomonas aeruginosa isolated from acute infections show a high virulence range partially correlated with population structure and virulence gene expression" in Microbiology, v. 158, (2012), p. 2089-2098   link 
  • Provenzano G., Zunino G., Genovesi S., Sgadò P., Bozzi Y., Mutant mouse models of autism spectrum disorders, Dis Markers. 2012 Jan 1;33(5):225-39. doi: 10.3233/DMA-2012-0917. link
  • Vajir Tamboli, Andrea Defant, Ines Mancini, Paolo Tosi, "A study of resveratrol-copper complexes by electrospray ionization mass spectrometry and density functional theory calculations"  in Rapid Communications in Mass Spectrometry, v. 25, (2011), p. 526-532. - DOI: 10.1002/rcm.4883 
  • I.Mancini, A. Defant, T. Mesaric, F. Potocnik, U. Batista, G. Guella, T. Turk, K. Sepcic, "Fatty acid composition of common barbel ( Barbusbarbus) roe and evaluation of its haemolytic and cytotoxic activities" in TOXICON, v. 2011/57, n. 7 (2011), p. 1017-1022. - DOI: 10.1016/j.toxicon.2011.04.004
  • A. Defant, I.Mancini, L. Raspor, G. Guella, T. Turk, K. Sepcic, "New structural insights into saraines A, B and C, macrocyclic alkaloids from the mediterranean sponge Reniera (Haliclona) sarai" in EUROPEAN JOURNAL OF ORGANIC CHEMISTRY, v. 2011/20,21, (2011), p. 3761-3767. - DOI: 10.1002/ejoc.201100434. - Special Issue: Women in Chemistry 
  • P. Franceschi, Y. Dong, K. Strupat, U. Vhrovsek, F. Mattivi, "Combining intensity correlation analysis and MALDI imaging to study the distribution of flavonoid glycosides in Golden Delicious apples". J. Exp Bot (2011), doi: 10.1093/jxb/err327 
  • Andreotti V, Ciribilli Y, Monti P, Bisio A, Lion M, et al. 2011. "p53 Transactivation and the Impact of Mutations, Cofactors and Small Molecules Using a Simplified Yeast-Based Screening System". PLoS ONE 6(6): e20643. doi:10.1371/journal.pone.0020643 link
  • L. Pasquardini, L. Lunelli, C. Potrich, L. Marocchi, S. Fiorilli, D. Vozzi, L. Vanzetti, P. Gasparini, M. Anderle, C. Pederzolli, "Organo-silane coated substrates for DNA purification". Applied Surface Science 257 (2011), pp. 10821-10827  link
  • Laura Martini and Sheref Mansy, "Cell-like systems with riboswitch controlled gene expression". Chem. Commun., 2011, 47, 10734-10736link 
  • Tremaroli V, Fedi S, Tamburini S, Viti C, Tatti E, Ceri H, Turner RJ, Zannoni D. "A histidine-kinase cheA gene of Pseudomonas pseudoalcaligens KF707 not only has a key role in chemotaxis but also affects biofilm formation and cell metabolism". Biofouling. 2011 Jan;27(1):33-46.
  • A. Defant, I.Mancini, C. Torri, D. Malferrari, D. Fabbri, "An efficient route towards a new branched tetrahydrofurane delta-sugar amino acid from a pyrolysis product of cellulose" in Amino Acids, v. 2010, (2010), p. 1-8. - DOI: 10.1007/s00726
  • A. Defant, B. Rossi, G. Viliani, G. Guella, I. Mancini, "Metal-assisted regioselectivity in nucleophilic substitutions: a study by Raman spectroscopy and density functional theory calculations" in Journal of Raman Spectroscopy, v. 2010, (2010), p. 1-6. - DOI: 10.1002/jrs.2631 
  • Foladori P., Tamburini S., Bruni L. (2010) "Bacterial permeabilisation and disruption caused by sludge reduction technologies evaluated by flow cytometry". Water Res. 2010 Sep;44(17):4888-99. Epub 2010 Jul 16.
  • Foladori P., Bruni L., Tamburini S., Ziglio G. (2010) "Direct quantification of bacterial biomass in influent, effluent and activated sludge of  wastewater treatment plants by usingflow cytometry". Water Res. 2010 Jul;44(13):3807-18. Epub 2010 Apr 29.

 

BOOK CHAPTERS

  • Čejková J., Holler S., Nguyenová T.Q., Kerrigan C., Štěpánek F., Hanczyc, M. M. “Chemotaxis and chemokinesis of living and non-living objects”, in Advances in Unconventional Computing, Volume 2: Prototypes, Models and Algorithms, (Adamatzky A., ed.) Springer, pp. 245-260, 2017
  • Cecchi D. and Mansy S. S. "Xenobiotic life" Chapter 10 of the book Synthetic Biology pp.337-237 Springer International Publishing 2015 (ISBN 978-3-319-22708-5, doi: 10.1007/978-3-319-22708-5_10)
  • A. Barla, G. Jurman, R. Visintainer, M. Squillario, M. Filosi, S. Riccadonna, C. Furlanello, "A Machine Learning Pipeline for Discriminant Pathway Identification", Springer Handbook of Bio-and Neuroscience, LNBI/LNCS Series, Springer, 2012, pp 36-48, DOI 10.1007/978-3-642-35686-5_4 
  • I. Mancini and A.DefantBioactive poly(arsenic) compounds, contribution after invite to I.M. for the "Progress in Molecular and Subcellular Biology "book series, editor H. C. Schröder, Springer Verlag. In press

 

ABSTRACTS 

  • L. Pezzè, F. Alessandrini, Y. Ciribilli, "ETV7 drives doxorubicin-resistance in breast cancer cells via modulation of DNAJC15 expression", EACR-AACR-SIC Special Conference on The Challenges of Optimising Immuno and Targeted Therapies from Cancer Biology to the Clinic, EACR-AACR-SIC, Florence (Italy), June 24-27, 2017
  • L. Pezzè, F. Alessandrini, Y. Ciribilli, "ETV7 drives doxorubicin-resistance in breast cancer cells via modulation of DNAJC15 expression", Genes and Cancer Annual Meeting 2017, Robinson College, Cambridge (UK), April 10-12, 2017
  • Dario Rizzotto, Bartolomeo Bosco, “The role of DHX30 in p53-dependent apoptosis”, Post-transcriptional gene regulation 3rd edition, Institut Curie, Paris (France), 27th-31st March 2017
  • D. Rizzotto, S. Zaccara, E. Dassi, M.D. Galbraith, Z. Andrysik, B. Bosco, A. Quattrone, J. Espinosa, A. Inga, “Translational repression of pro-apoptotic mRNAs by DHX30 inhibits p53-dependent apoptosis”
    2nd special conference: The Challenges of Optimising Immuno and Targeted Therapies From Cancer Biology to the Clinic, EACR-AACR-SIC, Florence (Italy), 24th-27th June 2017
  • Andrea Messina, Maria Elena Castellini, Enrico Pontello, Alessandra Speccher, Xuwen Zhang and Simona Casarosa, “Autosomal recessive Retinitis Pigmentosa: targeting IMPG2”, - 1ST ITALIAN ZEBRAFISH MEETING -.Padua (Italy), 2nd-3rd Febuary 2017
  • Andrea Messina, Maria Elena Castellini, Enrico Pontello, Alessandra Speccher, Xuwen Zhang and Simona Casarosa, “Autosomal recessive Retinitis Pigmentosa: targeting IMPG2” 63° convegno Gruppo Embriologico Italiano –Rome (Italy),  12nd-15th June 2017
  • Nicola Casiraghi, Alessandro Romanel, Gerhardt Attard, Francesca Demichelis, "Combined strategy to detect somatic point mutations from circulating DNA by targeted sequencing", 23rd Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) and 14th European Conference on Computational Biology (ECCB), International Society for Computational Biology (ISCB), Dublin, July 10-14 2015 
  • Cornella N., Rossi A., Macchi P, "The double-face of the RNA-binding protein RALY: from RNA to DNA interaction", EMBO conference on RNA localization and local transistion, Hersonisson, Greece, 28 June-3 July 2015
  • Hong P.T., Casonato S., Lory S., Jousson O.,  "Conjugative tipe IVb pilus recognizes lipopolysaccharide structure of recipient cells to initiate PAPI-1 pathogenicity island transfer in Pseudomonas Aeruginosa" 6th Congress of European Microbiologists, Maastricht, the Netherlands, June 7-11 2015
  • Hong P.T., Casonato S., Lory S., Jousson O. "PAPI-1 pathogenicity island transfer in Pseudomonas Aeruginosa starts with the recognition of lipopolysaccharide structure of recipient cells". Microbiology 2015, Ravenna, Italy, September 23-26 2015
  • Iyer A., Bellon A., Sarkies P, Miska E., Cei AG., Holt C., Baduet ML., "Axonal miRNA miR-181 family: role in axon guidance in vivo", EMBO conference on RNA localization and local transistion, Hersonisson, Greece, 28 June-3 July 2015
  • P. Knap, P. Bernabò, T. Tebaldi, M. Dalla Serra, G. Viero, "Early ribosome stalling and long non-coding RNA changes in host cells upon infection with Listeria monocytogenes", Protein synthesis and translational control, Heidelberg, 9-13 September 2015
  • Rosa A, Ziglio S., Chande A., De Sanctis v., Bertorelli R., Goh S.L., Luban J., Santoni F., Pizzato M., "Identification of an host factor that inhibits retrovirion infectivity and is counteracted by NEF and GLYCOGAG", Cold Spring Harbor meeting on Retroviruses, May 18-23 2015
  • Rosa A, Chande A., Pizzato M., "A Novel, sensitive assay to detect and quantify retrovirus fusion to target cells", Cold Spring Harbor meeting on Retroviruses, May 18-23 2015
  • Denise Sighel, Bartolomeo Bosco, Andrea Defant, Simona Casarosa, Ines Mancini, "Design and synthesis of reversine-like molecules as Aurora B kinase inhibitors", The Sigma Aldrich Young Chemists Symposium, Rimini (Italy), 27-29 October 2015
  • Thongon N., Castiglioni I, Zucal C., Latorre E., D'Agostino V., Bauer I., Ballestrero A., Nencioni A., Feldmann G., Provenzani A., "Down.regulation of YAP expression reduces clonogenicity of Pancreatic ductal adenocarcinoma", Challenging roadblocks to cancer cure, Trento, Italy, June 18-20 2015
  • Thongon N., Castiglioni I, Zucal C., Latorre E., D'Agostino V., Bauer I., Ballestrero A., Nencioni A., Feldmann G., Provenzani A., "A small molecule inhibitor of protein kinase C inhibits pancreatic cancer cell transformed growth through modulation of the Hippo pathway", 78th Harden Conference: Protein Kinases in health and disease, Winchester, UK, September 15-18 2015
  • S. Sulis Sato, P. Artoni, A. I. Idilli, S. Landi, S. Luin, R. Parra, J. Szczurkiwska, F. Trovato, D. Arosio, F. Beltram, L. Cancedda, G. Ratto, "In vivo measurement of intracellular Chloride and pH during neuronal development by means of 2-photon spectroscopy", Neuroscience 2014, Whashington DC (USA), 15-19 November 2014
  • Simone Scintilla, Claudia Bonfio, Luca Belmonte, Michele Forlin, Sheref S. Mansy, "A 3 Amino Acid Peptide Stabilizes an Fe-S Cluster in Aqueous Solution", 2014 SCOL Annual Meeting, Simons Foundation, New York (USA), 14-17 April 2014
  • Angela Bozza, Emily E. Coates, Tania Incitti, Kimberly M. Ferlin, Andrea Messina, Elisabetta Menna, Yuri Bozzi, John P. Fischer and Simona Casarosa, "Efficient neuronal differentiation of pluripotent cells in three-dimensional cultures", 60° convegno Gruppo Embriologico Italiano (GEI), Trento (Italy) 15-18 June 2014
  • A. Casini, A. Cereseto, "Identification of nucleoporins involved in HIV-1 integration site selection and provirus localization", SIBBM 2014, Trento (Italy) 11-13 June 2014
  • Fabio Chizzolini, Michele Forlin, Sheref S. Mansy, "Protein production in non-living systems: design rules for genetically encoded cell-free activity", Giovanni Armenise-Harvard Foundation 15th Symposium “Mechanisms to Molecules”, Riva Del Garda (Italy), 22-24 June 2014
  • N. Cornella, L. Vidalino, A. Rossi, S. Battisoni, C. Musio, P. Macchi, "Interfacing biological systems with memristive surfaces to study hybrid neuromorphic functionalities",  Joint National PhD Meeting, Pesaro (Italy), 23-25 October 2014
  • L. Vidalino, F. Rocca, JM. Paredes, A. Moro, N. Cornella, A. Provenzani, D. Arosio, P. Macchi, "Dynamic association with the nucleoli of C14orf21, a novel PUF-containing RNA-binding protein in mammals", IRB PhD Retreat, Barcelona (Spain), 13-16 November 2014
  • Ruggero Ferrazza, Mirco Toccafondi, Stefano Benini, Graziano Guella, "Kinetic characterization of the UGPase enzyme through Nuclear Magnetic Resonance Spectroscopy (NMR) measurements", Workshop on Molecular Basis of Fire Blight, Bozen (Italy), 15 October 2014
  • Ruggero Ferrazza, Nicoletta Plotegher, Luigi Bubacco, Graziano Guella, "A targeted lipidomics analysis to study neurodegenerative disorders", Metabolomic Approaches: Advanced Analytical Tools, Padova (Italy), 10-11 November 2014
  • S.J. Findlay-Wilson, A. Francis, A. Cereseto, "Development of a fluorescent imaging model for determining the cellular and viral factos influencing HIV-1 infectivity", SIBBM 204, Trento (Italy) , 11-13 June 2014
  • S.J. Findlay-Wilson, A. Francis, A. Cereseto, "Development of a fluorescent imaging model for studying HIV-1 capsid uncoating",  Italian experience in biomedical research: young minds at work, Desenzano del Garda (Italy), 24-25 October 2014
  • Manoj. S. Ghaste, Valdimir Shulaev, Fulvio Mattivi, "Atmospheric pressure gas chromatography-mass spectrometric profiòing of VOCSin fruits", 38th ISCC and 11th GCxGC Symphosium, Riva del Garda (Italy), 18-23 May 2014
  • M. Ghaste, L. Narduzzi, S. Carlin, U. Vrhovsek, V. Shulaev, F. Mattivi, "Improving the annotation of unknown metabolites via integration of GCMS and LCMS metabolomics: a close look into the complexity of grapevine glycosides", Gracious, the bilateral Israel-Italy grapevine symposium: physiology, genetics & genomics, Boquer (Israel), 29-31 October 2014
  • Vladimir Shulaev, Ghaste Manoj, Steven Lai, Carolina Salazar, Nobuhiro Suzuki, Janna Crossley, Ron Mittler, James Langridge, Giuseppe Astarita, Fulvio Mattivi, "Metabolomics profiling using atmospheric pressure gas chromatography-MS", ASMS Conference on Mass Spectrometry and Allied Topics, Baltimore (USA), 15-19 June 2014
  • Narduzzi L., Ghaste M., Mattivi F, "Fusion of GC/MS and LC/HRMS Data to improve unknown volatiles precursors identificationn and confirmation in Grape", MET-GR III workshop: Metabolic and Protein Network analysis in Systems Biology, Patras (Greece), 18-20 September 2014
  • Annachiara Rosa, Serena Ziglio, Veronica De Sanctis, Roberto Bertorelli, Federico Santoni and Massimo Pizzato, "Understanding the nature of the Nef requirement for HIV-1 infectivity", IRB PhD Retreat, Barcelona (Spain), 13-16 November 2014
  • C. Potrich, V. Vaghi, L. Lunelli, L. Pasquardini, G. C. Santini, C. Ottone, M. Quaglio, M. Cocuzza, C.F. Pirri, M. Ferracin, M. Negrini, P. Tiberio, V. De Sanctis, R. Bertorelli, C. Pederzolli, "OncomiR detection in extracellular fluids: a PDMS microdevice perspective", SIBBM meeting, Trento (Italy), 11-13 June 2014
  • C. Potrich, V. Vaghi, L. Lunelli, L. Pasquardini, G. C. Santini, C. Ottone, M. Quaglio, M. Cocuzza, C.F. Pirri, M. Ferracin, M. Negrini, P. Tiberio, V. De Sanctis, R.Bertorelli, C. Pederzolli, "Direct oncomiR detection in circulating body fluids on a PDMS microdevice" SIBPA XXII Congress,  Palermo (Italy) 21-24 September 2014
  • Strati F., Renzi D., Albanese D., Donati C., Jousson O., De Felice C., Hayek J,, Calabrò A., Cavalieri D. and De Filippo C., "Characterization of fungal and bacterial communities in Rett syndrome patients", XII Congress of the Italia Federation of Life Sciences (FISV), Pisa (Italy), 24-27 September 2014
  • Natthakan Thonghon, Chiara Zucal, Vito D'Agostino, Alessandro Provenzani, "The Nampt inhibitor (FK866) induces translation arrest in solid tumors with different efficacy", EMBO workshop on translational advance in cancer cell signaling and metabolism, Bilbao (Spain), 7-9 October 2014
  • Sara Zaccara, Toma Tebaldi, Chiara Pederiva, Yari ciribilli, Alessandra Bisio, Matthew d. Galbraith, Joaquin Espinosa, Alberto Inga, "P53-directed translational control can shape and expand the universe of p53 target genes", AACR Annual Meeting 2014, San Diego (USA), 5-9 April 2014; 16th International p53 Workshop, Stockholm (Sweden) 15-19 June, 2014;  Meeting on Translational Control, Cold Spring Harbor (USA), 2-6 September 2014
  • Alessandro Zandonà, Marco Chierici, Giuseppe Jurman, Cesare Furlanello, "A metagenomic pipeline integrating predictive profiling methods and complex networks for the analysis of NGS microbiome data", Workshop on Machine Learning in Computational Biology (MLCB), Montreal (Canada), 13 December 2014
  • C. Zucal, V.G. D’Agostino, A. Casini, T. Tebaldi, D. Soncini, I. Caffa, A. Ballestrero, A. Quattrone, A. Nencioni, A. Provenzani, "Implication of metabolic stress on translational re-programming induced by FK866 in leukemia cells”, Joint National Ph.D. Meeting, Pesaro (Italy), 23-25 October 2014
  • L. Avogaro, M. Grasso, E. D'Amato, F. Tessarolo, S. Sinelli, M. Masè, A. Graffigna, M. A. Denti, F. Ravelli, "Comparison of different methods to extract RNA from cardiac tissue for miRNA profiling by qRT-PCR"   9th European Biophysics Congress, Lisbona, 13-17 July 2013
  • N. Bacchi, G.C. Demontis, S. Casarosa, M.A. Denti. "CACNA2D4: a novel paradigm for the application of antisense-mediated gene therapy to the cure of retinal dystrophies". 18th Annual meeting of the RNA Society, Davos (Switzerland), 11-16 June 2013
  • Castiglioni Ilaria, "Identification of new potential drug candidate targeting the Yes Associated Protein, YAP, in pancreatic ductal adenocarcinoma". Keystone Symposia, Monterey (USA), 19-23 May 2013
  • M. Filosi, R. Visintainer, G. Jurman, S. Riccadonna, C. Furlanello, "Distances and Stability in biological network theory", Dynamics of biological networks: from node’s dynamics to network evolution, Edinburgh, 25-26 June 2013
  • G. Jurman, R. Visintainer, M. Filosi,  S. Riccadonna, C. Furlanello, "The HIM glocal metric for network comparison and classification" Frontiers of Network Analysis: Methods, Models, and Applications - NIPS 2013 Workshop, Lake Tahoe, Nevada, 9 December 2013
  • Fontana Francesca, Grasso Margherita, Del Vescovo Valerio, Covello Giuseppina, Denti Michela Alessandra. "Mechanisms of post-transcriptional regulation of gene expression in dementias". 18th Annual meeting of the RNA Society, Davos, Switzerland, 11-16 June 2013
  • Mattia Gasperotti, Domenico Masuero, Graziano Guella, Luisa Palmieri, Paolo Martinatti, Fulvio Mattivi, Urska Vrhovsek. Accurate identification and profiling of ellagitannins in strawberries and woodland strawberries: the influence of cultivar on the concentration and composition of ellagitannins". Incontri di Scienza delle Separazioni, Messina, 28-29 November 2013 and Second international congress of Translational Research in Human Nutrition, Clermont Ferrand, France, 8-9 March 2013
  • Urska Vrhovsek, Mattia Gasperotti, Elisabete Carvalho, Domenico Masuero, Fulvio Mattivi. "A versatile targeted metabolomics method for the rapid quantification of multiple classes of phenolics and their metabolites: its application in food metabolome and nutritional studies". Second international congress of Translational Research in Human Nutrition, Clermont Ferrand, France, 8-9 March 2013
  • Mattia Gasperotti, Domenico Masuero, Fulvio Mattivi, Urska Vrhovsek. "Targeted metabolomics methods for the separation and quantification of multiple classes of phenolics: application in food and nutritional studies". Incontri di Scienza delle Separazioni, Messina, 28-29 November 2013
  • Hong Phuoc Toan, "A candidate-gene approach and real-time qPCR assay for identifying regulators of PilS2, the major pilin subunit of the type IVb pilus", 14th International conference on Pseudomonas, Lausanne, Switzerland, 7-11 September 2013
  • Cristina Potrich, Gaia C. Santini, Lorenzo Lunelli, Laura Pasquardini, Marzia Quaglio, Matteo Cocuzza, Paola Tiberio, Roberto Bertorelli, Veronica De Sanctis, Cecilia Pederzolli, "Innovative solid-state purification of circulating microRNAs ", 19th Vacuum Congress, Paris (FRance). 9-13 September 2013
  • Giuseppina Covello, Kavitha Siva, Lara Mari, Elena Marchesi Marchesi, Perrone Daniela Perrone, Giuseppina Covello, Michela Alessandra Denti. "Antisense RNA-induced exon skipping for gene therapy of fronto temporal dementia and parkinsonism associated with chromosome 17 (FTDP-17), 18th annual meeting of the RNA society, DAvos, Switzerland, 11-16 June 2013
  • Kavitha Siva, Giuseppina Covello, Michela Alessandra Denti. "A RNA-i therapy for fronto temporal dementia and parkinsonism linked to chromosome 17". 18th annual meeting of the RNA society, DAvos, Switzerland, 11-16 June 2013
  • Tenzin N., Müller M., Hooived G., Morine MJ., Scotti M. "Linear and nonlinear transcriptomic response to dietary fat intake in PPI network communities". ISMB/ECCB 2013 Conference, Berlin, Germany, July 21, 2013
  • Clamer M, "Single molecule RNA detection through a chimeric nanopore" enGENEious 2012 conference, Christ Church, Oxford, 25-26 June 2012
  • Andrea Defant and Ines Mancini″ A study on the regioselectivity in N, C-acylation of β-enamino esters″ 16th International Electronic Conference on Synthetic Organic Chemistry. 1-30 November  2012
  • Andrea Defant and Ines Mancini “Numeric Simulation on Biological Macromolecules Applied to Drug Design: Molecular Docking in the Study of New Potential Anti-HIV Agents”. Andalo (Trento), Italy, March 18th - 22nd  2012
  • G. Jurman, M. Filosi, R. Visintainer, S. Riccadonna, C. Furlanello, "Stability Indicators i Network Reconstruction". 5th RECOMB Conference on Regulatory Genomics and System Biology, with DREAM challenge, San Francisco, USA, 12-15 november 2012
  • Georg J. Weingart, Bruno Fedrizzi, Silvia Carlin, Manoj Ghaste, Urska Vhrovsek, Pietro Franceschi, Matthias Scholz, Ron Wehrens, Fulvio Mattivi, "Establishing an GC-MS based metabolomics platform". 36th International Symposium on Capillary Chromatography, Riva del Garda, Italy, May 27-June 1, 2012
  • M. Marchioretto, V. Antonini, L. Lunelli, R. Dallapiccola, T. Praper, G. Anderluh, M. Dalla Serra, "Membrane composition affects pore structure of two cholesterol-dependent cytolysins". 2nd EBSA Biophysics Course, Bordeaux-Lacanau, 24-29 June, 2012
  • M. Marchioretto, V. Antonini, L. Lunelli, R. Dallapiccola, T. Praper, G. Anderluh, M. Dalla Serra, "Listeriolysin O pore-forming abilities on lipid membranes", XXI Congresso Nazional SIBPA, Ferrara, 17-20 settembre 2012
  • Moro A., Di Leva F., Macchi P. "Functional characterization of the RNA binding protein Raly". mRNA Fate 2012, Riva del Garda (Italy), 23-26 May, 2012
  • Narduzzi Luca, Arapitsas Panagiotis, Della Corte Anna, Angeli Andrea, and Mattivi Fulvio, "Hilic LC-MS:from targeted to untargeted", Workshop on Holistic analytical technologies for biomedical food and plant sciences, Athens, Greece, 9-11 November 2012
  • Covello G., Siva K., Denti M.A.,"Antisense RNA-induced Exon-skipping for the gene therapy of frontotemporal dementia and parkinsonism associated with chromosome 17 (FTDP-17)", Abstracts of the 22nd IUBMB & 37th FEBS congress, Seville, Spain, September 4-9, 2012. Published
  • Wei Sun, Tania Incitti, Claudio Migliaresi, Alessandro Quattrone, Simona Casarosa, Antonella Motta, "Differentiation of embryonic stem cells can be influenced by different processes of Gelatin/Silk Fibroin hydrogel", Stem cells conferences 2012
  • N. Bacchi, G. Covello, F. FontanaK. Siva, V. Del Vescovo, T. Incitti, A. Messina, S. Casarosa, M.A. Denti. "RNA-mediated gene therapy of retinal dystrophies and dysfunctions". Joint national PhD meeting, Gubbio (Italy), 20-22 October 2011
  • Bajpai A, Vaggi F, Jordan F, Csikasz-Nagy A, "Computational analysis of the cell growth regulatory network of fission teast cells". the European conference on Mathematical and Theoretical Biology, Krakow (Poland), June 28-July 2, 2011
  • Vaggi F, Bajpai A, Carazo-Salas RE, Sato M, Csikasz-Nagy A, "Finding key regulators of fission yeast polarized growth by network analysis", 2011
  • Clamer M, Tebaldi T, Dassi E, Dalla Serra M, Quattrone A and Viero G."Hijacking of gene expression by membrane-dependent translational tuning: a system perspective", EMBL ACT, Heidelberg, Germany, 7-11 September 2011
  • Dassi E, Tebaldi T, Zuccotti P, Riva P, Quattrone A. "A translational network of rna binding proteins derived from the identification of phylogenetic footprints in 3' untranslated regions" FEBS-SystemsX-SysBio2011: From Molecules To Function, Innsbruck, Austria, Feb 26-March 4 2011
  • Vajir Tamboli, Ines Mancini, Andrea Defant, PaoloTosi. "An ESI-MS/MS study on metal ion-catalyzed oxidative dimerization of resveratrol and its synthetic analogues". 29th IMMS, Fiera di Primiero, Italy, May 2011
  • A.Barla, M.Filosi, M. Squillario, S. Masecchia, S. Riccadonna, G.Jurman, C. Furlanello. "The impact of enrichment variability in pathway profiling", Machine Learning Computational Biology 2011, Granada, December 2011
  • C.Furlanello, M. Roncador, M. Chierici, M. Filosi, R. Visintainer, G.Jurman. "Developing pipelines for predictive biomarkers from metagenomics NGS data". International conference on Environmental Omics 2011, Guangzhou, November 2011
  • A.Barla, G.Jurman, R.Visintainer, M. Squillario, M.Filosi, S. Riccadonna and C. Furlanello. "A machine learning pipeline for discriminant pathways identification". Computational Intelligence methods for Bioinformatics and Biostatistics 2011, Gargnano sul Garda, June 2011
  • Fontana Francesca, Del Vescovo Valerio, Covello Giuseppina, Bacchi NiccolòSiva Kavitha, Denti Michela Alessandra. "Mechanisms of post-trascriptional regulation of gene expression in dementias". II Neuroscience meeting, Cavalese, 19-22 January 2011
  • Mattia Lion, Yari Ciribilli, Alessandra Bisio, Paola Monti, Virginia Andreotti, Gilberto Fronza, Paola Menichini, Michael A. Resnick and Alberto Inga "p53 Transactivation and the Impact of Mutations, Cofactors and Small Molecules Using a Simplified Yeast-based Screening System". 5th Mutant p53 Workshop, Ariccia-Rome, Italy, 22-25 May 2011
  • Mattia Lion, Alessandra Bisio, Veronica De Sanctis, Yari Ciribilli and Alberto Inga "p53 and estrogen receptors can interact in a synergistic transcriptional cooperation". The 3rd EMBO Meeting, Wien, 10-13 September 2011
  • M. Marchioretto, V. Antonini, L. Lunelli, R. Dallapiccola, T. Praper, G. Anderluh, M. Dalla Serra, "Membrane composition effects on pore-forming ability of two cholesterol-dependent cytolysins", 8th EBSA European Biophysics Congress, Budapest, Hungary, 23-27 August, 2011
  • Muppirisetty SH., Vaggi F., Inga A., Csikasz-Nagy A., "Revealing the regulation of p53 induced transcription by parameter estimation on p53 induction time-course experiments". 12th International Conference on Systems Biology, Heidelberg/Mannheim August 28 to September 1, 2011
  • Muppirisetty SH, Vaggi F, Ciribilli Y, Inga A, Csikasz-Nagy A, "Analysis of p53 transactivation on different Response Elements", 8th European conference on Mathematical and Theoretical Biology, Krakow Poland, June 28-July 2, 2011
  • Marina Scarpa, Elena Froner, Paolo Bettotti, Nikola Prtljaga, Eveline Rigo, Silvia Larcheri, Lorenzo Pavesi, Laura Pasquardini, Lorenzo Lunelli, Cristina Potrich, Prashant Pradhan, Cecilia Pederzolli, Adelio Rigo. "Nanostructured silicon-based systems for biomedical applications". Nanoforum, Rome, 14-15 September 2011
  • Covello Giuseppina, Siva Kavitha, Bacchi NiccolòFontana Francesca, Del Vescovo Valerio, Marchesi Elena, Mari Lara, Perrone Daniela, Denti Michela Alessandra. "Antisense RNA-induced Exon-skipping for the gene therapy of frontotemporal dementia and parkinsonism associated with chromosome 17 (FTDP-17)". XVI Convention Scientifica Telethon, Riva del Garda, 7-9 March, 2011
  • Sabrina Tamburini, Annalisa Ballarini, Giovanna Ferrentino, Olivier Jousson, Paola Foladori, Sara Spilimbergo, "Evaluation of cellular viability of food-borne bacterial pathogens after supercritical CO2 treatment", FEMS 2011. 4th Congress of European Microbiologist. Geneva, Switzerland, June 26-30 2011
  • Sabrina Tamburini, Paola Foladori, Laura Bruni, "Flow cytometry as a rapid tool to assess toxic effects on activated sludge in wastewater treatment plants", FEMS 2011. 4th Congress of European Microbiologist. Geneva, Switzerland, June 26-30 2011
  • Sabrina Tamburini, Annalisa Ballarini, Giovanna Ferrentino, Olivier Jousson, Paola Foladori, Sara Spilimbergo,"Supercritical CO2 treatment induces membrane permeabilization in food-borne bacterial pathogens", SIMGBM 29th National meeting Pisa, Centro Congressi CNR, September 21-23, 2011
  • S. Tamburini, P. Foladori, L. Bruni, V. Menapace, "Effects of ozonation on permeabilisation and disruption of bacteria in activated sludge evaluated by flow cytometry", SIMGBM 29th National meeting Pisa, Centro Congressi CNR, September 21-23, 2011
  • S. Tamburini, P. Foladori, L. Bruni, "Application of flow cytometry for the rapid quantification of viable bacteria and biomass in wastewaster and activated sludge", 15th Cytometry annual conference, Paris, 26-28 October 2011
  • Paola Torre, Sheref S. Mansy “Building division machinery for the synthesis of cell-like systems". Chemical Synthetic and Systems Biology: New Directions of Biochemistry in the 21st Century, Snowbird, UT, October 12-16, 2011
  • Clamer M., Dalla Serra M, Quattrone A. and Viero G. "Translational tuning by bacterial pore forming toxin on Neuroblastoma". National Congress of SIBPA (Italian Society of Pure and Applied Biophysics (Arcidosso, Grosseto, 2010)
  • Dassi E., Tebaldi T., Zuccotti P., Riva P., Quattrone A. "An extended translational network involving transcription factors and RNA binding proteins derived from the identification of phylogenetic footprints in 5’ and 3’ untranslated regions".  ECCB10, 9th European Conference on computational Biology (Ghent, Belgium, 2010)
  • Angela Re, Erik Dassi, Viktoryia Sidarovich, Toma Tebaldi, Paola Scaruffi, Gian Paolo Tonini, Alessandro Quattrone. "Identifying lesions in translational control of gene expression in neuroblastoma by mRNA polysomal profiling and information-intensive computational integration". ANR 2010 –Advances in Neuroblastoma Research (Stockholm, Sweden, 2010)
  • Vajir Tamboli, Ines Mancini, Andrea Defant, PaoloTosi. "An ESI-MS/MS study on copper complexes of resveratrol and its dihydrofuran dimmer". La Spettrometria di massa nello studio delle biomolecole, Bari, Italy, November 2010
  • Andrea DefantAlessandro Poli and Ines Mancini. "New antitumoral molecules and DNA interactions: a study by docking calculations supporting spectroscopic evidences and biological activities". E-WiSPOC- European Winter School on Physical Organic Chemistry 2010, Bressanone, Italy, 31 January-5 February 2010
  • Ciribilli Y, Lion M., Bisio A., De Sanctis V., Inga A. "Transcriptional and post-transcriptional control of the FLT1gene by p53 and estrogen receptor". RNA Dynamics Workshop, Ein Gedi, Israel, 15-18 November 2010
  • V. Antonini, M. Marchioretto, T. Praper, A. Bavdek, G. Anderluh, M. Dalla Serra. "Planar lipid membranes investigation of listeriolysin pore forming ability". XX congresso nazionale SIBPA 11-14 settembre 2010 Arcidosso Grosseto
  • L. Marocchi, L. Lunelli, C. Pederzolli, G. Viero, A. Quattrone. "Polysomes interaction with functionalized surfaces". XX congresso nazionale SIBPA 1-14 settembre 2010 Arcidosso Grosseto
  • L. Marocchi, L. Lunelli, G. Viero, F. Piras, N. Arseni, A. Provenzali, C. Pederzolli, A.Quattrone. "Polysomes interaction with Self-Assembled Monolayers". AVS 57th International Symposium & Exhibition 2010: Albuquerque, New Mexico, 19-21 October, 2010
  • Alessandro Poli, Andrea Defant, Graziano Guella and Ines Mancini. "DNA interaction with antitumoral molecules: a study by UV- spectroscopy, circular dichroism and docking calculations". XII International Workshop on Complex Systems, Andalo-Trento, Italy, 15-18 March 2010
  • Foladori P., Tamburini S., Bruni L. "Effect of sludge reduction techniques causing cell-lysis on bacteria viability and death evaluated by flow cytometry". The Water Research Conference, 11-14 April 2010, Marriott Lisbon, Portugal.
  • Foladori P., Bruni L., Tamburini S., Ziglio G. "Direct Quantification of bacterial biomass in influent, effluent and activated sludge of wastewater treatment plants by using flow cytometry". Bertinoro Meeting di Microbiologia Ambientale (BMMA 2010), Bertinoro (Forlì-Cesena) 21-22 maggio 2010.
Contacts 

Doctoral Programme in Biomolecular Sciences

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