Publications

1. Luigina Romani, Pathogen-induced immune regulation in transplantation (2010) Bone Marrow Transplantation Across Genetic Barriers, to be published by World Scientific Publishing Co Pte Ltd.

2. Rizzetto L, Kuka M, De Filippo C, Cambi A, Netea MG, Beltrame L, Napolitani G, Torcia MG, D'Oro U, Cavalieri D. (2010) Differential IL-17 production and mannan recognition contribute to fungal pathogenicity and commensalism. J Immunol. 184(8):4258-68.

3. M. Kapushesky (May 2010) Tackling drug resistance in fungal pathogens. British publishers. Projects, p. 64-65.

4. de Luca A, Bozza S, Zelante T, Zagarella S, D'Angelo C, Perruccio K, Vacca C, Carvalho A, Cunha C, Aversa F, Romani L. (2010) Non-hematopoietic cells contribute to protective tolerance to Aspergillus fumigatus via a TRIF pathway converging on IDOCellular & Molecular Immunology 7, 459-470. 

5. Cunha C, Di Ianni M, Bozza S, Giovannini G, Zagarella S, Zelante T, D'Angelo C, Pierini A, Pitzurra L, Falzetti F, Carotti A, Perruccio K, Latgé JP, Rodrigues F, Velardi A, Aversa F, Romani L, Carvalho A. (2010) Dectin-1 Y238X polymorphism associates with susceptibility to invasive aspergillosis in hematopoietic transplantation through impairment of both recipient- and donor-dependent mechanisms of antifungal immunity. Blood.

6. Cunha C, Rodrigues F, Zelante T, Aversa F, Romani L, Carvalho A. (2010) Genetic susceptibility to aspergillosis in allogeneic stem-cell transplantation. Med Mycol.

7. De Luca A, Zelante T, D'Angelo C, Zagarella S, Fallarino F, Spreca A, Iannitti RG, Bonifazi P, Renauld JC, Bistoni F, Puccetti P, Romani L. (2010) IL-22 defines a novel immune pathway of antifungal resistance. Mucosal Immunol.

8. Cavalieri, Duccio, Damariz Rivero, Luca Beltrame, Sonja I Buschow, Enrica Calura, Lisa Rizzetto, Sandra Gessani, et al. (2010) DC-ATLAS: a systems biology resource to dissect receptor specific signal transduction in dendritic cells. Immunome Research 6: 10.

9. Rizzetto L, Cavalieri D. (2010) A systems biology approach to the mutual interaction between yeast and the immune system. Immunobiology 215(9-10):762-9. 

10. Goncalves ATikhonov ABrazma AKapushesky M. (2011) A pipeline for RNA-seq data processing and quality assessment.Bioinformatics.

11. Duclos S.Clavarino GRousserie GGoyette GBoulais JCamossetto VGatti ELaboissière SPierre PDesjardins M. (2011) The endosomal proteome of macrophage and dendritic cells. Proteomics 11(5):854-64.

12. Carreto L, Eiriz MF, Domingues I, Schuller D, Moura GR, Santos MA (2011) Expression variability of co-regulated genes differentiates Saccharomyces cerevisiae strains. BMC Genomics 12(1):201.

13. Beltrame L, Calura E, Popovici RR, Rizzetto L, Guedez DR, Donato M, Romualdi C, Draghici S, Cavalieri D. (2011) The Biological Connection Markup Language: a SBGN compliant format for visualization, filtering and analysis of biological pathways. Bioinformatics.

14. Rizzetto L, Cavalieri D. (2011) Friend or foe: using systems biology to elucidate interactions between fungi and their hosts.Trends Microbiol.

15. Santamaría R, Rizzetto L, Bromley M, Zelante T, Lee W, Cavalieri D, Romani L, Miller B, Gut I, Santos M, Pierre P, Bowyer P, Kapushesky M. (2011) Systems biology of infectious diseases: a focus on fungal infections. Immunobiology

16. Cunha C, Giovannini G, Pierini A, Bell AS, Sorci G, Riuzzi F, Donato R, Rodrigues F, Velardi A, Aversa F, Romani L, Carvalho A (2011) Genetically-determined hyperfunction of the S100B/RAGE axis is a risk factor for aspergillosis in stem cell transplant recipients.PLoS One. 2011;6(11):e27962.

17. Carvalho A, Cunha C,Romani L (2011) Immunity and tolerance to infections in experimental hematopoietic transplantation. Best Pract Res Clin Haematol. 24(3):435-42.

18. Cunha C, Aversa F, Bistoni G, Casagrande A, Rodrigues F, Romani L, Carvalho A. (2011) Immunogenetic profiling to predict risk of invasive fungal diseases: where are we now? Immunol Invest. 40(7-8):723-34.

19. Ramazzotti M, Berná L, Stefanini I, Cavalieri D. (2012) A computational pipeline to discover highly phylogenetically informative genes in sequenced genomes: application to Saccharomyces cerevisiae natural strains.Nucleic Acids Res. PMID: 22266652.

20. Misha Kapushesky, Tomasz Adamusiak, Tony Burdett, Aedin Culhane, Anna Farne, Alexey Filippov, Ele Holloway, Andrey Klebanov, Nataliya Kryvych, Natalja Kurbatova, Pavel Kurnosov, James Malone, Olga Melnichuk, Robert Petryszak, Nikolay Pultsin, Gabriella Rustici, Andrew Tikhonov, Ravensara S. Travillian, Eleanor Williams, Andrey Zorin, Helen Parkinson, and Alvis Brazma (2012) Gene Expression Atlas update—a value-added database of microarray and sequencing-based functional genomics experiments. Nucl. Acids Res. 40(D1): D1077-D1081.