DISSEMINATION

Selected Publications

• Calura E, Pizzini S, Bisognin A, Coppe A, Sales G, Gaffo E, Fanelli T, Mannarelli C, Zini R, Norfo R, Pennucci V, Manfredini R, Romualdi C, Guglielmelli P, Vannucchi AM, Bortoluzzi S. A data-driven network model of primary myelofibrosis: transcriptional and post-transcriptional alterations in CD34+ cells Blood Cancer Journal. In Press.
Coppe A, Bresolin S, Binatti A, Salvoro C, Vazza C, te Kronnie G, Bortoluzzi S. Response to Exome sequencing identifies an MLL3 gene germ line mutation in a pedigree of colorectal cancer and acute myeloid leukemia. [Blood e-letter], www.bloodjournal.org/content/121/8/1478.e-letters.
• Salati S, Zini R, Nuzzo S, Guglielmelli P, Pennucci V, Prudente Z, Ruberti S, Rontauroli S, Norfo R, Bianchi E, Bogani C, Rotunno G, Fanelli T, Mannarelli C, Rosti V, Salmoiraghi S, Pietra D, Ferrari S, Barosi G, Rambaldi A, Cazzola M, Bicciato S, Tagliafico E, Vannucchi AM, Manfredini R; AGIMM (AIRC Gruppo Italiano Malattie Mieloproliferative) investigators. Integrative analysis of copy number and gene expression data suggests novel pathogenetic mechanisms in primary myelofibrosis. Int J Cancer. 2016 Apr 1;138(7):1657-69. Doi: 10.1002/ijc.29920. Epub 2015 Nov 25. PubMed PMID: 26547506.
• Calura E, Bisognin A, Manzoni M, Todoerti K, Taiana E, Sales G, Morgan GJ, Tonon G, Amodio N, Tassone P, Neri A, Agnelli L, Romualdi C, Bortoluzzi S. Disentangling the microRNA regulatory milieu in multiple myeloma: integrative genomics analysis outlines mixed miRNA-TF circuits and pathway-derived networks modulated in t(4;14) patients. Oncotarget. 2016 Jan 19;7(3):2367-78. Doi: 10.18632/oncotarget.6151. PubMed PMID: 26496024.
• Godfrey AL, Chen E, Massie CE, Silber Y, Pagano F, Bellosillo B, Guglielmelli P, Harrison CN, Reilly JT, Stegelmann F, Bijou F, Lippert E, Boiron JM, Döhner K, Vannucchi AM, Besses C, Green AR. STAT1 activation in association with JAK2 exon 12 mutations. Haematologica. 2016 Jan;101(1):e15-9. Doi: 10.3324/haematol.2015.128546. Epub 2015 Dec 3. PubMed PMID: 26635038; PubMed Central PMCID: PMC4697901.
• Guglielmelli P, Rotunno G, Pacilli A, Vannucchi AM. What Do Molecular Tests Add to Prognostic Stratification in MF: Is It Time to Add These to Our Clinical Practice? Curr Hematol Malig Rep. 2015 Dec;10(4):380-7. Doi: 10.1007/s11899-015- 0285-y. PubMed PMID: 26431835.
• Tapper W, Jones AV, Kralovics R, Harutyunyan AS, Zoi K, Leung W, Godfrey AL, Guglielmelli P, Callaway A, Ward D, Aranaz P, White HE, Waghorn K, Lin F, Chase A, Baxter EJ, Maclean C, Nangalia J, Chen E, Evans P, Short M, Jack A, Wallis L, Oscier D, Duncombe AS, Schuh A, Mead AJ, Griffiths M, Ewing J, Gale RE, Schnittger S, Haferlach T, Stegelmann F, Döhner K, Grallert H, Strauch K, Tanaka T, Bandinelli S, Giannopoulos A, Pieri L, Mannarelli C, Gisslinger H, Barosi G, Cazzola M, Reiter A, Harrison C, Campbell P, Green AR, Vannucchi A, Cross NC. Genetic variation at MECOM, TERT, JAK2 and HBS1L-MYB predisposes to myeloproliferative neoplasms. Nat Commun. 2015 Apr 7;6:6691. Doi: 10.1038/ncomms7691. PubMed PMID: 25849990; PubMed Central PMCID: PMC4396373.
• Guglielmelli P, Rotunno G, Fanelli T, Pacilli A, Brogi G, Calabresi L, Pancrazzi A, Vannucchi AM. Validation of the differential prognostic impact of type 1/type 1-like versus type 2/type 2- like CALR mutations in myelofibrosis. Blood Cancer J. 2015 Oct 16;5:e360. Doi: 10.1038/bcj.2015.90. PubMed PMID: 26473532; PubMed Central PMCID: PMC4635198.
• Djordjilović V, Chiogna M, Massa MS, Romualdi C. Graphical modeling for gene set analysis: A critical appraisal. Biom J. 2015 Sep;57(5):852-66. Doi: 10.1002/bimj.201300287. Epub 2015 Jul 7. PubMed PMID: 26149206.
• Martinaud C, Desterke C, Konopacki J, Vannucchi AM, Pieri L, Guglielmelli P, Dupriez B, Ianotto JC, Boutin L, Lataillade JJ, Le Bousse-Kerdilès MC. Transcriptome analysis of bone marrow mesenchymal stromal cells from patients with primary myelofibrosis. Genom Data. 2015 Apr 29;5:1-2. Doi: 10.1016/j.gdata.2015.04.017. eCollection 2015 Sep. PubMed PMID: 26484208; PubMed Central PMCID: PMC4583614.
• Guglielmelli P, Rotunno G, Bogani C, Mannarelli C, Giunti L, Provenzano A, Giglio S, Squires M, Stalbovskaya V, Gopalakrishna P, Vannucchi AM; COMFORT-II Investigators. Ruxolitinib is an effective treatment for CALR-positive patients with myelofibrosis. Br J Haematol. 2015 Aug 25. Doi: 10.1111/bjh.13644. [Epub ahead of print] PubMed PMID: 26303809.
• Adimari G, Chiogna M. Nearest-Neighbor Estimation for ROC Analysis under Verification Bias. Int J Biostat. 2015 May;11(1):109-24. Doi: 10.1515/ijb-2014- 0014. PubMed PMID: 25781712.
• Finazzi MC, Carobbio A, Cervantes F, Isola IM, Vannucchi AM, Guglielmelli P, Rambaldi A, Finazzi G, Barosi G, Barbui T. CALR mutation, MPL mutation and triple negativity identify patients with the lowest vascular risk in primary myelofibrosis. Leukemia. 2015 May;29(5):1209- 10. Doi: 10.1038/leu.2014.343. Epub 2014 Dec 8. PubMed PMID: 25482134.
• Guglielmelli P, Bisognin A, Saccoman C, Mannarelli C, Coppe A, Vannucchi AM, Bortoluzzi S. Small RNA Sequencing Uncovers New miRNAs and moRNAs Differentially Expressed in Normal and Primary Myelofibrosis CD34+ Cells. PloS One. 2015 Oct 15;10(10):e0140445. Doi: 10.1371/journal.pone.0140445. eCollection 2015. PubMed PMID: 26468945; PubMed Central PMCID: PMC4607157.
• Norfo R, Zini R, Pennucci V, Bianchi E, Salati S, Guglielmelli P, Bogani C, Fanelli T, Mannarelli C, Rosti V, Pietra D, Salmoiraghi S, Bisognin A, Ruberti S, Rontauroli S, Sacchi G, Prudente Z, Barosi G, Cazzola M, Rambaldi A, Bortoluzzi S, Ferrari S, Tagliafico E, Vannucchi AM, Manfredini R; Associazione Italiana per la Ricerca sul Cancro Gruppo Italiano Malattie Mieloproliferative Investigators. miRNA-mRNA integrative analysis in primary myelofibrosis CD34+ cells: role of miR-155/JARID2 axis in abnormal megakaryopoiesis. Blood. 2014; 124(13):e21-32. doi: 10.1182/blood-2013-12-544197
• Martini, P., Sales, G., Calura, E., Cagnin, S., Chiogna, M., Romualdi, C. TimeClip: pathway analysis for time course data without replicates. BMC Bioinformatics. 2014; 15(Suppl 5)S3. DOI:10.1186/1471-2105-15-S5-S3
• Calura E, Martini P, Sales G, Beltrame L, Chiorino G, D'Incalci M, Marchini S, Romualdi C. Wiring miRNAs to pathways: a topological approach to integrate miRNA and mRNA expression profiles. Nucleic Acids Res. 2014;42(11):e96. doi:10.1093/nar/gku354.
• Bisognin A, Pizzini S, Perilli L, Esposito G, Mocellin S, Nitti D, ZanovelloP, Bortoluzzi S, Mandruzzato S. An integrative framework identifies alternative splicing events in colorectal cancer development. Mol Oncol. 2014 8(1):129-41. doi: 10.1016/j.molonc.2013.10.004.
• Pennucci V, Zini R, Norfo R, Guglielmelli P, Bianchi E, Salati S, Sacchi G, Prudente Z, Tenedini E, Ruberti S, Paoli C, Fanelli T, Mannarelli C, Tagliafico E, Ferrari S, Vannucchi AM, Manfredini R; on behalf of Associazione Italiana per la Ricerca sul Cancro Gruppo Italiano Malattie Mieloproliferative (AGIMM) Investigators. Abnormal expression patterns of WT1-as, MEG3 and ANRIL long non-coding RNAs in CD34+ cells from patients with primary myelofibrosis and their clinical correlations. Leuk Lymphoma. 2014 Jun 16:1-5.
• Rumi E, Pietra D, Pascutto C, Guglielmelli P, Martínez-Trillos A, Casetti I, Colomer D, Pieri L, Pratcorona M, Rotunno G, Sant'Antonio E, Bellini M, Cavalloni C, Mannarelli C, Milanesi C, Boveri E, Ferretti V, Astori C, Rosti V, Cervantes F, Barosi G, Vannucchi AM, Cazzola M; Associazione Italiana per la Ricerca sul Cancro Gruppo Italiano Malattie Mieloproliferative Investigators (including Bortoluzzi S, Bisognin A, Coppe A, and Saccoman C) Clinical effect of driver mutations of JAK2, CALR, or MPL in primary myelofibrosis. Blood. 2014; 124(7):1062-9. doi: 10.1182/blood-2014-05-578435.
• Perilli L, Vicentini C, Agostini M, Pizzini S, Pizzi M, D'Angelo E, Bortoluzzi S, Mandruzzato S, Mammano E, Rugge M, Nitti D, Scarpa A, Fassan M, Zanovello P. Circulating miR-182 is a biomarker of colorectal adenocarcinoma progression. Oncotarget. 2014; 5(16):6611-9.
• Mussolin L, Holmes AB, Romualdi C, Sales G, D'Amore ES, Ghisi M, Pillon M, Rosolen A, Basso K. An aberrant microRNA signature in childhood T-cell lymphoblastic lymphoma affecting CDKN1B expression, NOTCH1 and growth factor signaling pathways. Leukemia. 2014 Sep;28(9):1909-12. doi: 10.1038/leu.2014.134.
• Sales G, Calura E, Martini P, Romualdi C. Graphite Web: Web tool for gene set analysis exploiting pathway topology. Nucleic Acids Res. 2013 41(Web Server issue):W89-97.
• Martini P, Sales G, Massa MS, Chiogna M, Romualdi C. Along signal paths: an empirical gene set approach exploiting pathway topology. Nucleic Acids Res. 2013. 41(1):e19.
• Vannucchi AM, Lasho TL, Guglielmelli P, Biamonte F, Pardanani A, Pereira A, Finke C, Score J, Gangat N, Mannarelli C, Ketterling RP, Rotunno G, Knudson RA, Susini MC, Laborde RR, Spolverini A, Pancrazzi A, Pieri L, Manfredini R, Tagliafico E, Zini R, Jones A, Zoi K, Reiter A, Duncombe A, Pietra D, Rumi E, Cervantes F, Barosi G, Cazzola M, Cross NC, Tefferi A. Mutations and prognosis in primary myelofibrosis. Leukemia 2013 27(9):1861-9.
• Tenedini E, Bernardis I, Artusi V, Artuso L, Roncaglia E, Guglielmelli P, Pieri L, Bogani C, Biamonte F, Rotunno G, Mannarelli C, Bianchi E, Pancrazzi A, Fanelli T, Tagliazucchi GM, Ferrari S, Manfredini R, Vannucchi AM, Tagliafico E. Targeted cancer exome sequencing reveals recurrent mutations in myeloproliferative neoplasms. Leukemia. 2013 In press.
• Bisognin A, Pizzini S, Perilli E, Esposito G, Mocellin S, Nitti D, Zanovello P, Bortoluzzi S*, Mandruzzato S. An integrative framework identifies alternative splicing events in colorectal cancer development. Molecular Oncology. In press.
• Pizzini S, Bisognin A, Mandruzzato S, Biasiolo M, Facciolli A, Perilli L, Rossi E, Esposito G, Rugge M, Pilati P, Mocellin S, Nitti D, Bortoluzzi S*, Zanovello P. Impact of microRNAs on regulatory networks and pathways in human colorectal carcinogenesis and development of metastasis. BMC Genomics. 2013 14(1):589.
• Sonda N, Simonato F, Peranzoni E, Calì B, Bortoluzzi S, Bisognin A, Wang E, Marincola FM, Naldini L, Gentner B, Trautwein C, Sackett SD, Zanovello P, Molon B, Bronte V. miR-142-3p prevents macrophage differentiation during cancer-induced myelopoiesis. Immunity 2013 38(6):1236-49.
• Rumi E, Pietra D, Guglielmelli P, Bordoni R, Casetti I, Milanesi C, Sant'Antonio E, Ferretti V, Pancrazzi A, Rotunno G, Severgnini M, Pietrelli A, Astori C, Fugazza E, Pascutto C, Boveri E, Passamonti F, De Bellis G, Vannucchi A, Cazzola M; Associazione Italiana per la Ricerca sul Cancro Gruppo Italiano Malattie Mieloproliferative. Acquired copy-neutral loss of heterozygosity of chromosome 1p as a molecular event associated with marrow fibrosis in MPL-mutated myeloproliferative neoplasms. Blood. 2013 121(21):4388-9
• Calura E, Fruscio R, Paracchini L, Bignotti E, Ravaggi A, Martini P, Sales G, Beltrame L, Clivio L, Ceppi L, Di Marino M, Fuso Nerini I, Zanotti L, Cavalieri D, Cattoretti G, Perego P, Milani R, Katsaros D, Tognon G, Sartori E, Pecorelli S, Mangioni C, D'Incalci M, Romualdi C*, Marchini S*. miRNA landscape in stage I epithelial ovarian cancer defines the histotype specificities. Clin Cancer Res. 2013. 19(15):4114-23.
• Bisognin A, Sales G, Coppe A, Bortoluzzi S*, Romualdi C. MAGIA²: from miRNA and genes expression data integrative analysis to microRNA-transcription factor mixed regulatory circuits (2012 update). Nucleic Acids Res. 2012 40(Web Server issue):W13-21.
• Norfo R, Zini R, Pennucci V, Bianchi E, Salati, S, Guglielmelli P, Bisognin A, Rosti V, Pietra D, Ricci C, Fanelli T, Salmoiraghi S, Sacchi G, Ruberti S, Barosi G, Cazzola M, Bortoluzzi S, Ferrari S, Tagliafico E, Vannucchi AM, Manfredini R. Regulatory mRNA/microRNA Networks in CD34+Cells From Primary Myelofibrosis. BLOOD. 13. 2012. 120 (21) ASH Meeting Abstract: 2854.

Results Presented At International Or National Meetings

• ASH abstract (Bortoluzzi/Guglielmelli) “Integrative Analysis Of mRNA/miRNA Expression Profiles Identified JARID2 As a Shared Target Of Deregulated Mirnas In Primary Myelofibrosis.” 55th Annual Meeting of the American-Society-of-Hematology Location: New Orleans, LA Date: DEC 07-10, 2013. Sponsor(s): Amer Soc Hematol. BLOOD Volume: 122 Issue: 21 Meeting Abstract: 1600.
• Talk (Bortoluzzi) "A data driven picture of paths and circuits deregulated in PMF" Modena: AGIMM meeting (May 19th, 2014)
• Abstract P075 SIES 2014 (Bortoluzzi/Guglielmelli) "L'analisi integrata mRNA-miRNA in Cellule CD34+ di mielofibrosi primaria evidenzia il ruolo della coppia miR-155/JARID2 nell'alterazione della megacariocitopoiesi." Rimini (15-17 ottobre 2014)
• Invited talk (Romualdi) "Recent Advances in genomic studies" Cagliari: SIS2014 (11-13 giugno 2014).
• Selected talk (Calura) "Wiring miRNAs to pathways: a topological approach to integrate miRNA and mRNA expression profiles" Strasburgo ECCB2014 (7-10 Settembre 2014)
• Selected talk (Calura) "miRNA and gene regulatory pathway of stage I epithelial ovarian cancer: reconstructing cancer circuits" Ferrara SIC 2014 (11-13 Settembre 2014)
• Selected Talk (Calura) "miRNA and gene regulatory pathway of stage I epithelial ovarian cancer: reconstructing cancer circuits Capri FEBS Workshop - Translating the epigenomes into function: a next-generation challenge for human disease." Capri (13-16 Ottobre 2014)
• Chair sessione specializzata (Chiogna) "Recent advances in biostatistics" Cagliari: SIS2014 (11-13 giugno 2014)
• Talk SIS2014 L.Maragoni, M.Chiogna "A Quantile-based Test for Detecting Differential Expression in Microarray Data" Cagliari (11-13 giugno 2014).
• Invited talk (Chiogna) "Graphical modelling for gene set analysis" Cambridge (UK): CIBB2014 (26-28 giugno 2014).
• Talk: V. Djirdjlovic, M. Chiogna, M.S.Massa e C.Romualdi "Simulating gene silencing through intervention analysis" Firenze: IBC2014 (6-11 luglio 2014)
• Talk: V. Djirdjlovic, M. Chiogna, M.S.Massa e C.Romualdi "Refining the structure of a pathway with a view to prediction of gene silencing effects" Goettingen (D): IWSM2014 (14-18 luglio 2014).
• Bisognin Invited lecture “New tools for the study of miRNA role in cancer” February 1 2013 Istituto Tumori, Milan.
• S. Bortoluzzi Invited lecture “microRNA in cancer: a computational genomics approach” CIBIO, Università di Trento, March 8 2013, Trento.
• S. Bortoluzzi Keynote lecture “Transcriptome Sequencing” at the plenary special session “Next generation Sequencing for Research and Diagnostic” at the XXI4 meeting of the International BFM Study Group on leukemias and lymphomas, May 18 2013, Kiel, Germany.
• P. Martini Invited lecture “TimeClip: viewing the pathway along time” Bioinformatics Italian Society (BITS) Annual Meeting 2013 May 21–23, Udine.
• G. Sales Invited lecture “The microRNA regulatory network - Challenges in mapping a new layer of gene regulation” 6th Workshop on Computation of Biochemical Pathways and Genetic Networks. Heidelberg, 16-17 September 2013.

Invited Speakers From Abroad

• Prof. Nikolaus Rajewsky, Max Delbrück Center for Molecular Medicine (MDC), Berlin. Regulatory RNAsRegulatory RNAs. Friday October 18th 2013, Centro Interdipartimentale Vallisneri Viale G. Colombo, 3 Aula B piano terra.
• Prof. Peter K. Rogan, Canada Research Chair in Genome Bioinformatics University of Western Ontario and Cytognomix INC. London (Canada) Deciphering variants of unknown significance that affect gene expression in inherited and somatic breast cancer. Thursday October 3th 2013, Centro Interdipartimentale Vallisneri Viale G. Colombo, 3 Aula L piano rialzato