SELECTED PUBLICATIONS
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Coppe A, Nogara L, Pizzuto MS, Cani A, Cesaro S, Masetti R, Locatelli F, Te Kronnie G, Basso G, Bortoluzzi S, Bresolin S.
Somatic mutations activating Wiskott-Aldrich syndrome protein concomitant with RAS pathway mutations in juvenile myelomonocytic leukemia patients.
Hum Mutat. 2018 Apr.
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Davoli R, Gaffo E, Zappaterra M, Bortoluzzi S, Zambonelli P.
Identification of differentially expressed small RNAs and prediction of target genes in Italian Large White pigs with divergent backfat deposition.
Anim Genet. 2018 Mar 23.
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Salvoro C, Bortoluzzi S, Coppe A, Valle G, Feltrin E, Mostacciuolo ML, Vazza G.
Rare Risk Variants Identification by Identity-by-Descent Mapping and Whole-Exome Sequencing Implicates Neuronal Development Pathways in Schizophrenia and Bipolar Disorder.
Mol Neurobiol. 2018 Feb 6.
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Bortolomeazzi M, Gaffo E, Bortoluzzi S.
A survey of software tools for microRNA discovery and characterization using RNA-seq.
Brief Bioinform. 2017 Nov 6
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Andersson EI, Coppe A, Bortoluzzi S.
A guilt-by-association mutation network in LGL leukemia.
Oncotarget. 2017 Oct 9.
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Bortoluzzi S, Lovisa F, Gaffo E, Mussolin L.
Small RNAs in Circulating Exosomes of Cancer Patients: A Minireview.
High Throughput. 2017 Oct 6.
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Coppe A, Andersson EI, Binatti A, Gasparini VR, Bortoluzzi S, Clemente M, Herling M, Maciejewski J, Mustjoki S, Bortoluzzi S.
Genomic landscape characterization of large granular lymphocyte leukemia with a systems genetics approach.
Leukemia. 2017 Feb 7.
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Gaffo E., Bonizzato A, te Kronnie G., Bortoluzzi S.
CirComPara: a multi-method comparative bioinformatics pipeline to detect and study circRNAs from RNA-seq data.
Non-Coding RNA. Special Issue: Bioinformatics Softwares and Databases for Non-Coding RNA Research. 2017, 3(1), 8.
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Andersson EI, Tanahashi T, Sekiguchi N, Gasparini VR, Bortoluzzi S, Kawakami T, Matsuda K, Mitsui T, Eldfors S, Bortoluzzi S, Coppe A, Binatti A, Lagström S, Ellonen P, Fukushima N, Nishina S, Senoo N, Sakai H, Nakazawa H, Kwong YL, Loughran TP, Maciejewski JP, Mustjoki S, Ishida F.
High incidence of activating STAT5B mutations in CD4-positive T-cell large granular lymphocyte leukemia.
Blood. 2016 Nov 17;128(20):2465-2468.
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Bonizzato A, Gaffo E, Te Kronnie G, Bortoluzzi S.
CircRNAs in hematopoiesis and hematological malignancies.
Blood Cancer J. 2016 Oct 14;6(10):e483.
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Montorsi L, Guizzetti F, Alecci C, Caporali A, Martello A, Atene CG, Parenti S, Pizzini S, Zanovello P, Bortoluzzi S, Ferrari S, Grande A, Zanocco-Marani T.
Loss of ZFP36 expression in colorectal cancer correlates to wnt/ ß-catenin activity and enhances epithelial-to-mesenchymal transition through upregulation of ZEB1, SOX9 and MACC1.
Oncotarget. Oncotarget.
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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.
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Zambonelli, P.*, Gaffo, E.*, Bortoluzzi, S. and Davoli, R.
Transcriptional profiling of subcutaneous adipose tissue in Italian Large White pigs divergent for backfat thickness.
Animal Genetics. doi: 10.1111/age.12413. *First co-authors
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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.
PlosONE. 2015 Oct 15;10(10):e0140445. doi: 10.1371/journal.pone.0140445. eCollection 2015.
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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. 2015 Oct 19. doi: 10.18632/oncotarget.6151.
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1: Perilli L, Pizzini S, Bisognin A, Mandruzzato S, Biasiolo M, Facciolli A, Rossi E, Esposito G, Rugge M, Pilati P, Mocellin S, Nitti D, Bortoluzzi S, Zanovello P.
Human miRNome profiling in colorectal cancer and liver metastasis development.
Genom Data. 2014 Jun 27;2:184-8. doi: 10.1016/j.gdata.2014.06.017. eCollection 2014 Dec.
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Occhi G, Barollo S, Regazzo D, Bertazza L, Galuppini F, Guzzardo V, Jaffrain-Rea ML, Vianello F, Ciato D, Ceccato F, Watutantrige-Fernando S, Bisognin A, Bortoluzzi S, Pennelli G, Boscaro M, Scaroni C, Mian C.
A constitutive active MAPK/ERK pathway due to BRAFV600E positively regulates AHR pathway in PTC
Oncotarget. 2015 Oct 13;6(31):32104-14. doi: 10.18632/oncotarget.5194.
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Agostini M, Janssen KP, Kim LJ, D'Angelo E, Pizzini S, Zangrando A, Zanon C, Pastrello C, Maretto I, Digito M, Bedin C, Jurisica I, Rizzolio F, Giordano A, Bortoluzzi S, Nitti D, Pucciarelli S.
An integrative approach for the identification of prognostic and predictive biomarkers in rectal cancer.
Oncotarget. 2015 Oct 20;6(32):32561-74. doi: 10.18632/oncotarget.4935.
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Biamonte F, Zolea F, Bisognin A, Di Sanzo M, Saccoman C, Scumaci D, Aversa I, Panebianco M, Faniello MC, Bortoluzzi S, Cuda G, Costanzo F.
H-ferritin-regulated microRNAs modulate gene expression in K562 cells.
PLoS One. 2015 Mar 27;10(3):e0122105. doi: 10.1371/journal.pone.0122105. eCollection 2015.
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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 Aug 30;5(16):6611-9.
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Gaffo E, Zambonelli P, Bisognin A, Bortoluzzi S, Davoli R.
miRNome of Italian Large White pig subcutaneous fat tissue: new miRNAs, isomiRs and moRNAs.
Anim. Genet. 2014 Jul 16. doi: 10.1111/age.12192.
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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.
miRNA-mRNA integrative
analysis in primary myelofibrosis CD34+ cells unveils the role of miR-155/JARID2
axis in abnormal megakaryopoiesis.
Blood. 2014 Aug 5. 2014 Aug 5. pii: blood-2013-12-544197.
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Losi L, Benhattar J, Pizzini S, Bisognin A, Parenti S, Montorsi L, Gemelli C, Zanocco-Marani T, Zanovello P, Ferrarini F, Ferrari S, Bortoluzzi S and Grande A.
Characterization of Clinical and Molecular Features Related to the Downregulated Expression of μ-Protocadherin in Colorectal Cancer.
Journal of Carcinogenesis & Mutagenesis. 5:154. doi: 10.4172/2157-2518.1000155.
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Bisognin A, Pizzini S, Perilli L, Esposito G, Mocellin S, Nitti D, Zanovello P, Bortoluzzi S, Mandruzzato S.
An integrative framework identifies alternative splicing events in colorectal cancer development.
Mol Oncol. 2014 Feb;8(1):129-41.
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Leite RB, Milan M, Coppe A, Bortoluzzi S, dos Anjos A, Reinhardt R, Saavedra C, Patarnello T, Cancela ML, Bargelloni L.
mRNA-Seq and microarray development for the Grooved Carpet shell clam, Ruditapes decussatus: a functional approach to unravel host-parasite interaction.
BMC Genomics. 2013 Oct 29;14:741.
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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 Aug 29;14(1):589.
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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 Jun 27;38(6):1236-49.
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Vidotto M, Grapputo A, Boscari E, Barbisan F, Coppe A, Grandi G, Kumar A, Congiu L.
Transcriptome sequencing and de novo annotation of the critically endangered Adriatic sturgeon.
BMC Genomics 2013 Jun 18;14:407.
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Coppe A, Bortoluzzi S, Murari G, Marino IA, Zane L, Papetti C.
Sequencing and characterization of striped venus transcriptome expand resources for clam fishery genetics.
PLoS One 2012;7(9):e44185. doi: 10.1371/journal.pone.0044185. Epub 2012 Sep 18.
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Pujolar JM, Marino IA, Milan M, Coppe A, Maes GE, Capoccioni F, Ciccotti E, Bervoets L, Covaci A, Belpaire C, Cramb G, Patarnello T, Bargelloni L, Bortoluzzi S, Zane L.
Surviving in a toxic world: transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel.
BMC Genomics 2012 Sep 25;13(1):507.
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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
NAR 2012 Jul;40(Web Server issue):W13-21
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Bortoluzzi S, Bisognin A, Biasolo M, Guglielmelli P, Biamonte F, Norfo R, Manfredini R, Vannucchi AM.
Characterisation and discovery of novel miRNAs and moRNAs in JAK2V617F mutated SET2 cells
Blood 2012 Jan 5. [Epub ahead of print]
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Bortoluzzi S, Biasiolo M, Bisognin A.
microRNA-offset RNAs (moRNAs): by-product spectators or functional players?
Trends In Molecular Medicine. 2011 Sep;17(9):473-4. Epub 2011 Jun 21.
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Biasiolo M, Sales G, Lionetti M, Agnelli L, Todoerti K, Bisognin A, Coppe A, Romualdi C, Neri A, Bortoluzzi S.
Impact of host genes and strand selection on miRNA and miRNA* expression.
PLoS One. 2011;6(8):e23854. Epub 2011 Aug 31. Epub 2011 Jun 21.
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Milan M, Coppe A, Reinhardt R, Cancela LM, Leite RB, Saavedra C, Ciofi C, Chelazzi G, Patarnello T, Bortoluzzi S, Bargelloni L.
Transcriptome sequencing and microarray development for the Manila clam, Ruditapes philippinarum: genomic tools for environmental monitoring.
BMC Genomics.. 2011 May 12;12:234.
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Lenzi L, Facchin F, Piva F, Giulietti M, Pelleri MC, Frabetti F, Vitale L, Casadei R, Canaider S, Bortoluzzi S, Coppe A, Danieli GA, Principato G, Ferrari S, Strippoli P.
TRAM (Transcriptome Mapper): database-driven creation and analysis of transcriptome maps from multiple sources.
BMC Genomics.. 2011 Feb 18;12(1):121.
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Coppe A*, Pujolar JM*, Maes GE, Larsen PF, Hansen MM, Bernatchez L, Zane L, Bortoluzzi S. (2010)
Sequencing, de novo annotation and analysis of the first Anguilla anguilla transcriptome: EeelBase opens new perspectives for the study of the critically endangered European eel.
BMC Genomics.. Nov 16;11(1):635.. *Equally contributing first author
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Sales G*, Coppe A*, Bisognin A, Biasiolo M, Bortoluzzi S, Romualdi C (2010).
MAGIA, a web-based tool for MiRNA and Genes Integrated Analysis.
Nucleic Acids Res. Jul 1;38 Suppl:W352-9.. *Equally contributing first author
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Sales G, Coppe A, Bicciato S, Bortoluzzi S, Romualdi C.
Impact of probe annotation on the integration of miRNA-mRNA expression profiles for miRNA target detection.
Nucleic Acids Res. 38(7):e97. Epub 2010 Jan 13.
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Biasiolo M*, Forcato M*, Possamai L, Ferrari F, Agnelli L, Lionetti M, Todoerti K, Marchiori M, Bortoluzzi S, Bicciato S. (2010)
Critical Analysis of Transcriptional and Post-Transcriptional Regulatory Networks in Multiple Myeloma.
PACIFIC SYMPOSIUM ON BIOCOMPUTING. 2010:397-408. *Equally contributing first author
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Lionetti M*, Biasiolo M*, Agnelli L, Todoerti K, Mosca L, Fabris S, Sales G, Lambertenghi Deliliers G, Bicciato S, Lombardi L, Bortoluzzi S, Neri A. (2009)
Identification of microRNA expression patterns and definition of a microRNA/mRNA regulatory network in distinct molecular groups of multiple myeloma.
Blood. 114:20-26. *Equally contributing first author.
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Bisognin A, Coppe A, Ferrari F, Risso D, Romualdi C, Bicciato S and Bortoluzzi S. (2009)
A-MADMAN: Annotation-based MicroArray Data Meta-ANalysis tool.
BMC Bioinformatics. 10:201
- Coppe A, Ferrari F, Bisognin A, Danieli GA, Ferrari S, Bicciato S and Bortoluzzi S. (2009)
Motif discovery in promoters of genes co-localized and co-expressed during myeloid cells differentiation.
Nucleic Acids Res.. 37:533.
- Ferrari F, Bortoluzzi S, Coppe A, Sirota A, Safran M, Shmoish M, Ferrari S, Lancet D, Danieli GA and Bicciato S. (2007)
Novel definition files for human GeneChips based on GeneAnnot.
BMC BIOINFORMATICS. 8:446.
- Ferrari F, Bortoluzzi S., Coppe A, Basso D, Bicciato S, Zini R, Gemelli C, Danieli Ga, Ferrari S. (2007).
Genomic expression during human myelopoiesis.
BMC GENOMICS. 8: 1471-2164.
- Coppe A, Danieli GA, Bortoluzzi S (2006)
REEF: searching REgionally Enriched Features in genomes.
BMC BIOINFORMATICS. 7: 453.
- Romualdi C, De Pittà C, Tombolan L, Bortoluzzi S, Sartori F, Rosolen A, Lanfranchi G (2006)
Defining the gene expression signature of rhabdomyosarcoma by meta-analysis.
BMC Genomics. 7:287
- Bortoluzzi S, Scannapieco P, Cestaro A, Danieli GA, Schiaffino S. (2006)
Computational reconstruction of the human skeletal muscle secretome.
PROTEINS. 62: 776-792
- Pizzi C, Bortoluzzi S, Bisognin A, Coppe A, Danieli GA.
Detecting seeded motifs in DNA sequences.
NUCLEIC ACIDS RES. 2005; 33(15): e135
- Bortoluzzi S, Coppe A, Bisognin A, Pizzi C, Danieli GA.
A Multistep Bioinformatic Approach Detects Putative Regulatory Elements In Gene Promoters.
BMC BIOINFORMATICS. 2005; 6(1): 121
- Bortoluzzi S, Bisognin A, Romualdi C, Danieli GA.
Novel genes, possibly relevant for molecular diagnosis or therapy of human rhabdomyosarcoma, detected by genomic expression profiling.
Gene. 348:65-71.
- Bisognin A, Bortoluzzi S, Danieli GA.
Detection of chromosomal regions showing differential gene expression in human skeletal muscle and in alveolar rhabdomyosarcoma.
BMC BIOINFORMATICS. 2004; 5(1): 68.
- Bortoluzzi S, Romualdi C, Bisognin A, Danieli GA.
Disease-genes and intracellular protein networks.
PHYSIOL GENOMICS. 2003; 15: 223-227
- Romualdi C, Bortoluzzi S, D'alessi F, Danieli GA.
IDEG6: a web tool for detection of differentially expressed genes in multiple tag sampling experiments.
PHYSIOL GENOMICS. 2003; 12(2): 159-62
- Gabellini N, Bortoluzzi S, Danieli GA, Carafoli E.
Control of the Na+/Ca2+ exchanger 3 promoter by cyclic adenosine monophosphate and Ca2+ in differentiating neurons.
J NEUROCHEM. 2003; 84(2): 282-93
- Gabellini N, Bortoluzzi S, Danieli GA, Carafoli E.
The human SLC8A3 gene and the tissue-specific Na+/Ca2+ exchanger 3 isoforms.
GENE. 2002; 298(1): 1-7
- Gabellini N, Bortoluzzi S, Danieli GA, Carafoli E.
The gene promoter of human Na+/Ca2+ exchanger isoform 3 (SLC8A3) is controlled by cAMP and calcium.
ANN NY ACAD SCI. 2002; 976: 282-4
- Romualdi C, Bortoluzzi S, Danieli GA.
Detecting differentially expressed genes in multiple tag sampling experiments: comparative evaluation of statistical tests.
HUM MOL GENET. 2001; 10(19): 2133-41
- Bortoluzzi S, D'alessi F, Romualdi C, Danieli GA.
Differential expression of genes coding for ribosomal proteins in different human tissues.
BIOINFORMATICS. 2001; 17(12): 1152-7
- Rampazzo A, Pivotto F, Occhi G, Tiso N, Bortoluzzi S, Rowen L, Hood L, Nava A, Danieli GA.
Characterization of C14orf4, a novel intronless human gene containing a polyglutamine repeat, mapped to the ARVD1 critical region.
BIOCHEM BIOPH RES CO. 2000; 278(3): 766-74
- Bortoluzzi S, D'alessi F, Danieli GA.
A computational reconstruction of the adult human heart transcriptional profile.
J MOL CELL CARDIOL. 2000; 32(11): 1931-8
- Bortoluzzi S, D'alessi F, Danieli GA.
A novel resource for the study of genes expressed in the adult human retina.
INVEST OPHTH VIS SCI. 2000; 41(11): 3305-8
- Bortoluzzi S, D'alessi F, Romualdi C, Danieli GA.
The human adult skeletal muscle transcriptional profile reconstructed by a novel computational approach.
GENOME RES. 2000; 10(3): 344-9
- Bortoluzzi S, Danieli GA.
Towards an in silico analysis of transcription patterns.
TRENDS GENET. 1999; 15(3): 118-9
- Bortoluzzi S, Rampoldi L, Simionati B, Zimbello R, Barbon A, D'alessi F, Tiso N, Pallavicini A, Toppo S, Cannata N, Valle G, Lanfranchi G, Danieli GA.
A comprehensive, high-resolution genomic transcript map of human skeletal muscle.
GENOME RES. 1998; 8(8): 817-25
- Rampoldi L, Zimbello R, Bortoluzzi S, Tiso N, Valle G, Lanfranchi G, Danieli GA.
Chromosomal localization of four MAPK signaling cascade genes: MEK1, MEK3, MEK4 and MEKK5.
CYTOGENET CELL GENET. 1997; 78(3-4): 301-3
- Pallavicini A, Zimbello R, Tiso N, Muraro T, Rampoldi L, Bortoluzzi S, Valle G, Lanfranchi G, Danieli GA.
The preliminary transcript map of a human skeletal muscle.
HUM MOL GENET. 1997; 6(9): 1445-50
