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Items: 1 to 20 of 44

1.

Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms.

Bianco L, Riccadonna S, Lavezzo E, Falda M, Formentin E, Cavalieri D, Toppo S, Fontana P.

Bioinformatics. 2017 Feb 1;33(3):453-455. doi: 10.1093/bioinformatics/btw636. No abstract available.

PMID:
28158604
2.

Reprogramming Methods Do Not Affect Gene Expression Profile of Human Induced Pluripotent Stem Cells.

Trevisan M, Desole G, Costanzi G, Lavezzo E, Palù G, Barzon L.

Int J Mol Sci. 2017 Jan 20;18(1). pii: E206. doi: 10.3390/ijms18010206.

3.

Identification of novel X-linked gain-of-function RPGR-ORF15 mutation in Italian family with retinitis pigmentosa and pathologic myopia.

Parmeggiani F, Barbaro V, De Nadai K, Lavezzo E, Toppo S, Chizzolini M, Palù G, Parolin C, Di Iorio E.

Sci Rep. 2016 Dec 20;6:39179. doi: 10.1038/srep39179.

4.

Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms.

Bianco L, Riccadonna S, Lavezzo E, Falda M, Formentin E, Cavalieri D, Toppo S, Fontana P.

Bioinformatics. 2016 Oct 6. pii: btw636. [Epub ahead of print]

PMID:
27795226
5.

An expanded evaluation of protein function prediction methods shows an improvement in accuracy.

Jiang Y, Oron TR, Clark WT, Bankapur AR, D'Andrea D, Lepore R, Funk CS, Kahanda I, Verspoor KM, Ben-Hur A, Koo da CE, Penfold-Brown D, Shasha D, Youngs N, Bonneau R, Lin A, Sahraeian SM, Martelli PL, Profiti G, Casadio R, Cao R, Zhong Z, Cheng J, Altenhoff A, Skunca N, Dessimoz C, Dogan T, Hakala K, Kaewphan S, Mehryary F, Salakoski T, Ginter F, Fang H, Smithers B, Oates M, Gough J, Törönen P, Koskinen P, Holm L, Chen CT, Hsu WL, Bryson K, Cozzetto D, Minneci F, Jones DT, Chapman S, Bkc D, Khan IK, Kihara D, Ofer D, Rappoport N, Stern A, Cibrian-Uhalte E, Denny P, Foulger RE, Hieta R, Legge D, Lovering RC, Magrane M, Melidoni AN, Mutowo-Meullenet P, Pichler K, Shypitsyna A, Li B, Zakeri P, ElShal S, Tranchevent LC, Das S, Dawson NL, Lee D, Lees JG, Sillitoe I, Bhat P, Nepusz T, Romero AE, Sasidharan R, Yang H, Paccanaro A, Gillis J, Sedeño-Cortés AE, Pavlidis P, Feng S, Cejuela JM, Goldberg T, Hamp T, Richter L, Salamov A, Gabaldon T, Marcet-Houben M, Supek F, Gong Q, Ning W, Zhou Y, Tian W, Falda M, Fontana P, Lavezzo E, Toppo S, Ferrari C, Giollo M, Piovesan D, Tosatto SC, Del Pozo A, Fernández JM, Maietta P, Valencia A, Tress ML, Benso A, Di Carlo S, Politano G, Savino A, Rehman HU, Re M, Mesiti M, Valentini G, Bargsten JW, van Dijk AD, Gemovic B, Glisic S, Perovic V, Veljkovic V, Veljkovic N, Almeida-E-Silva DC, Vencio RZ, Sharan M, Vogel J, Kansakar L, Zhang S, Vucetic S, Wang Z, Sternberg MJ, Wass MN, Huntley RP, Martin MJ, O'Donovan C, Robinson PN, Moreau Y, Tramontano A, Babbitt PC, Brenner SE, Linial M, Orengo CA, Rost B, Greene CS, Mooney SD, Friedberg I, Radivojac P.

Genome Biol. 2016 Sep 7;17(1):184. doi: 10.1186/s13059-016-1037-6.

6.

Zika virus: from pathogenesis to disease control.

Barzon L, Trevisan M, Sinigaglia A, Lavezzo E, Palù G.

FEMS Microbiol Lett. 2016 Sep;363(18). pii: fnw202. Epub 2016 Aug 21. Review.

PMID:
27549304
7.

Infection dynamics in a traveller with persistent shedding of Zika virus RNA in semen for six months after returning from Haiti to Italy, January 2016.

Barzon L, Pacenti M, Franchin E, Lavezzo E, Trevisan M, Sgarabotto D, Palù G.

Euro Surveill. 2016 Aug 11;21(32). doi: 10.2807/1560-7917.ES.2016.21.32.30316.

8.

Eliciting the Functional Taxonomy from protein annotations and taxa.

Falda M, Lavezzo E, Fontana P, Bianco L, Berselli M, Formentin E, Toppo S.

Sci Rep. 2016 Aug 18;6:31971. doi: 10.1038/srep31971.

9.

Third generation sequencing technologies applied to diagnostic microbiology: benefits and challenges in applications and data analysis.

Lavezzo E, Barzon L, Toppo S, Palù G.

Expert Rev Mol Diagn. 2016 Sep;16(9):1011-23. doi: 10.1080/14737159.2016.1217158. Epub 2016 Jul 31.

PMID:
27453996
10.

Fatal Case of West Nile Neuroinvasive Disease in Bulgaria.

Baymakova M, Trifonova I, Panayotova E, Dakova S, Pacenti M, Barzon L, Lavezzo E, Hristov Y, Ramshev K, Plochev K, Palu G, Christova I.

Emerg Infect Dis. 2016 Dec;22(12):2203-2204. doi: 10.3201/eid2212.151968. Epub 2016 Dec 15. No abstract available.

11.

Isolation of infectious Zika virus from saliva and prolonged viral RNA shedding in a traveller returning from the Dominican Republic to Italy, January 2016.

Barzon L, Pacenti M, Berto A, Sinigaglia A, Franchin E, Lavezzo E, Brugnaro P, Palù G.

Euro Surveill. 2016;21(10):30159. doi: 10.2807/1560-7917.ES.2016.21.10.30159.

12.

Characterization of Intra-Type Variants of Oncogenic Human Papillomaviruses by Next-Generation Deep Sequencing of the E6/E7 Region.

Lavezzo E, Masi G, Toppo S, Franchin E, Gazzola V, Sinigaglia A, Masiero S, Trevisan M, Pagni S, Palù G, Barzon L.

Viruses. 2016 Mar 14;8(3):79. doi: 10.3390/v8030079.

13.

Full Genome Sequence-Based Comparative Study of Wild-Type and Vaccine Strains of Infectious Laryngotracheitis Virus from Italy.

Piccirillo A, Lavezzo E, Niero G, Moreno A, Massi P, Franchin E, Toppo S, Salata C, Palù G.

PLoS One. 2016 Feb 18;11(2):e0149529. doi: 10.1371/journal.pone.0149529. eCollection 2016.

14.

Enhancing protein function prediction with taxonomic constraints--The Argot2.5 web server.

Lavezzo E, Falda M, Fontana P, Bianco L, Toppo S.

Methods. 2016 Jan 15;93:15-23. doi: 10.1016/j.ymeth.2015.08.021. Epub 2015 Aug 28.

PMID:
26318087
15.

Phylogenetic characterization of Central/Southern European lineage 2 West Nile virus: analysis of human outbreaks in Italy and Greece, 2013-2014.

Barzon L, Papa A, Lavezzo E, Franchin E, Pacenti M, Sinigaglia A, Masi G, Trevisan M, Squarzon L, Toppo S, Papadopoulou E, Nowotny N, Ulbert S, Piralla A, Rovida F, Baldanti F, Percivalle E, Palù G.

Clin Microbiol Infect. 2015 Dec;21(12):1122.e1-10. doi: 10.1016/j.cmi.2015.07.018. Epub 2015 Jul 31.

16.

Changes in microRNA expression during disease progression in patients with chronic viral hepatitis.

Sinigaglia A, Lavezzo E, Trevisan M, Sanavia T, Di Camillo B, Peta E, Scarpa M, Castagliuolo I, Guido M, Sarcognato S, Cappellesso R, Fassina A, Cardin R, Farinati F, Palù G, Barzon L.

Liver Int. 2015 Apr;35(4):1324-33. doi: 10.1111/liv.12737. Epub 2015 Jan 13.

PMID:
25417901
17.

keeSeek: searching distant non-existing words in genomes for PCR-based applications.

Falda M, Fontana P, Barzon L, Toppo S, Lavezzo E.

Bioinformatics. 2014 Sep 15;30(18):2662-4. doi: 10.1093/bioinformatics/btu312. Epub 2014 May 27.

PMID:
24867942
18.

Four year longitudinal study of Mycobacterium tuberculosis complex isolates in a region of North-Eastern Italy.

Fallico L, Couvin D, Peracchi M, Pascarella M, Franchin E, Lavezzo E, Rassu M, Manganelli R, Rastogi N, Palù G.

Infect Genet Evol. 2014 Aug;26:58-64. doi: 10.1016/j.meegid.2014.05.004. Epub 2014 May 10.

PMID:
24820340
19.

Oxidative damage in the progression of chronic liver disease to hepatocellular carcinoma: an intricate pathway.

Cardin R, Piciocchi M, Bortolami M, Kotsafti A, Barzon L, Lavezzo E, Sinigaglia A, Rodriguez-Castro KI, Rugge M, Farinati F.

World J Gastroenterol. 2014 Mar 28;20(12):3078-86. doi: 10.3748/wjg.v20.i12.3078. Review.

20.

Reducing bias in RNA sequencing data: a novel approach to compute counts.

Finotello F, Lavezzo E, Bianco L, Barzon L, Mazzon P, Fontana P, Toppo S, Di Camillo B.

BMC Bioinformatics. 2014;15 Suppl 1:S7. doi: 10.1186/1471-2105-15-S1-S7. Epub 2014 Jan 10.

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