Papers

Corteggiani Carpinelli E, Telatin A, Vitulo N, Forcato C, D’Angelo M, Schiavon
R, Vezzi A, Giacometti GM, Morosinotto T, Valle G. Chromosome scale genome
assembly and transcriptome profiling of Nannochloropsis gaditana in nitrogen depletion. Mol Plant. 2013 Aug 21. PubMed PMID: 23966634.

Pivato M, De Franceschi G, Tosatto L, Frare E, Kumar D, Aioanei D, Brucale M,
Tessari I, Bisaglia M, Samori B, de Laureto PP, Bubacco L. Covalent α-synuclein
dimers: chemico-physical and aggregation properties. PLoS One. 2012;7(12):e50027. PubMed PMID: 23272053;

Cagnin S, Cimetta E, Guiducci C, Martini P, Lanfranchi G. Overview of micro-
and nano-technology tools for stem cell applications: micropatterned and
microelectronic devices. Sensors (Basel). 2012 Nov 19;12(11):15947-82. PubMed PMID: 23202240;

Campagna D, Telatin A, Forcato C, Vitulo N, Valle G. PASS-bis: a bisulfite
aligner suitable for whole methylome analysis of Illumina and SOLiD reads.
Bioinformatics. 2013 Jan 15;29(2):268-70. PubMed PMID: 23162053.

Campanaro S, Pascale FD, Telatin A, Schiavon R, Bartlett DH, Valle G. The
transcriptional landscape of the deep-sea bacterium Photobacterium profundum in both a toxR mutant and its parental strain. BMC Genomics. 2012 Oct 29;13:567. PubMed PMID: 23107454;

Spolaore B, Raboni S, Ramos Molina A, Satwekar A, Damiano N, Fontana A. Local
unfolding is required for the site-specific protein modification by transglutaminase. Biochemistry. 2012 Oct 30;51(43):8679-89. PubMed PMID: 23083324.

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 Jan 7;41(1):e19. PubMed PMID:23002139;

Fontana A, de Laureto PP, Spolaore B, Frare E. Identifying disordered regions
in proteins by limited proteolysis. Methods Mol Biol. 2012;896:297-318. PubMed PMID: 22821533.

Cecchini P, De Franceschi G, Frare E, Fontana A, Polverino de Laureto P. The
role of tryptophan in protein fibrillogenesis: relevance of Trp7 and Trp14 to the amyloidogenic properties of myoglobin. Protein Eng Des Sel. 2012
Apr;25(4):199-203. PubMed PMID: 22301276.

Vitulo N, Albiero A, Forcato C, Campagna D, Dal Pero F, Bagnaresi P,
Colaiacovo M, Faccioli P, Lamontanara A, Šimková H, Kubaláková M, Perrotta G,
Facella P, Lopez L, Pietrella M, Gianese G, Doležel J, Giuliano G, Cattivelli L,
Valle G, Stanca AM. First survey of the wheat chromosome 5A composition through a next generation sequencing approach. PLoS One. 2011;6(10):e26421. PubMed PMID: 22028874;

Tombolan L, Orso F, Guzzardo V, Casara S, Zin A, Bonora M, Romualdi C, Giorgi
C, Bisogno G, Alaggio R, Pinton P, De Pittà C, Taverna D, Rosolen A, Lanfranchi
G. High IGFBP2 expression correlates with tumor severity in pediatric
rhabdomyosarcoma. Am J Pathol. 2011 Nov;179(5):2611-24. PubMed PMID: 1924226;

Martini P, Risso D, Sales G, Romualdi C, Lanfranchi G, Cagnin S. Statistical
Test of Expression Pattern (STEPath): a new strategy to integrate gene expression data with genomic information in individual and meta-analysis studies. BMC Bioinformatics. 2011 Apr 11;12:92. PubMed PMID: 21481242;

Chemello F, Bean C, Cancellara P, Laveder P, Reggiani C, Lanfranchi G. Microgenomic analysis in skeletal muscle: expression signatures of individual fast and slow myofibers. PLoS One. 2011 Feb 22;6(2):e16807. PubMed PMID: 21364935;

Campanaro S, Williams TJ, Burg DW, De Francisci D, Treu L, Lauro FM, Cavicchioli R. Temperature-dependent global gene expression in the Antarctic archaeon Methanococcoides burtonii. Environ Microbiol. 2011 Aug;13(8):2018-38. PubMed PMID: 21059163.

Spolaore B, Pinato O, Canton M, Zambonin M, Polverino de Laureto P, Fontana
A. α-Lactalbumin forms with oleic acid a high molecular weight complex displaying cytotoxic activity. Biochemistry. 2010 Oct 5;49(39):8658-67. PubMed PMID: 20804154.

Biscontin A, Casara S, Cagnin S, Tombolan L, Rosolen A, Lanfranchi G, De
Pittà C. New miRNA labeling method for bead-based quantification. BMC Mol Biol. 2010 Jun 16;11:44. PubMed PMID: 20553585;

Cavallarin N, Vicario M, Negro A. The role of phosphorylation in
synucleinopathies: focus on Parkinson’s disease. CNS Neurol Disord Drug Targets. 2010 Aug;9(4):471-81. Review. PubMed PMID: 20522010.

Maccagnan A, Riva M, Feltrin E, Simionati B, Vardanega T, Valle G, Cannata N.
Combining ontologies and workflows to design formal protocols for biological
laboratories. Autom Exp. 2010 Apr 23;2:3. doi: 10.1186/1759-4499-2-3. PubMed
PMID: 20416048; PubMed Central PMCID: PMC2873243.

Tolin S, De Franceschi G, Spolaore B, Frare E, Canton M, Polverino de Laureto
P, Fontana A. The oleic acid complexes of proteolytic fragments of
alpha-lactalbumin display apoptotic activity. FEBS J. 2010 Jan;277(1):163-73.
PubMed PMID: 19968717.

Picotti P, Dewilde S, Fago A, Hundahl C, De Filippis V, Moens L, Fontana A.
Unusual stability of human neuroglobin at low pH–molecular mechanisms and biological significance. FEBS J. 2009 Dec;276(23):7027-39. PubMed PMID: 19860834.

De Franceschi G, Frare E, Bubacco L, Mammi S, Fontana A, de Laureto PP.
Molecular insights into the interaction between alpha-synuclein and
docosahexaenoic acid. J Mol Biol. 2009 Nov 20;394(1):94-107. PubMed PMID: 19747490.

Romualdi C, Giuliani A, Millino C, Celegato B, Benigni R, Lanfranchi G.
Correlation between gene expression and clinical data through linear and
nonlinear principal components analyses: muscular dystrophies as case studies. OMICS. 2009 Jun;13(3):173-84. PubMed PMID: 19405797.

Tavano R, Franzoso S, Cecchini P, Cartocci E, Oriente F, Aricò B, Papini E.
The membrane expression of Neisseria meningitidis adhesin A (NadA) increases the proimmune effects of MenB OMVs on human macrophages, compared with NadA- OMVs, without further stimulating their proinflammatory activity on circulating
monocytes. J Leukoc Biol. 2009 Jul;86(1):143-53. doi: 10.1189/jlb.0109030. Epub
2009 Apr 28. PubMed PMID: 19401383.

Frare E, Mossuto MF, de Laureto PP, Tolin S, Menzer L, Dumoulin M, Dobson CM,
Fontana A. Characterization of oligomeric species on the aggregation pathway of human lysozyme. J Mol Biol. 2009 Mar 20;387(1):17-27. PubMed PMID: 19361437.

Millino C, Fanin M, Vettori A, Laveder P, Mostacciuolo ML, Angelini C,
Lanfranchi G. Different atrophy-hypertrophy transcription pathways in muscles affected by severe and mild spinal muscular atrophy. BMC Med. 2009 Apr 7;7:14. PubMed PMID: 19351384;

Campagna D, Albiero A, Bilardi A, Caniato E, Forcato C, Manavski S, Vitulo N,
Valle G. PASS: a program to align short sequences. Bioinformatics. 2009 Apr
1;25(7):967-8. PubMed PMID: 19218350.

Mero A, Spolaore B, Veronese FM, Fontana A. Transglutaminase-mediated PEGylation of proteins: direct identification of the sites of protein modification by mass spectrometry using a novel monodisperse PEG. Bioconjug Chem. 2009 Feb;20(2):384-9. PubMed PMID: 19186937.

Feltrin E, Campanaro S, Diehl AD, Ehler E, Faulkner G, Fordham J, Gardin C,
Harris M, Hill D, Knoell R, Laveder P, Mittempergher L, Nori A, Reggiani C,
Sorrentino V, Volpe P, Zara I, Valle G, Deegan J. Muscle Research and Gene
Ontology: New standards for improved data integration. BMC Med Genomics. 2009 Jan 29;2:6  PubMed PMID: 19178689;

Cagnin S, Biscuola M, Patuzzo C, Trabetti E, Pasquali A, Laveder P, Faggian
G, Iafrancesco M, Mazzucco A, Pignatti PF, Lanfranchi G. Reconstruction and
functional analysis of altered molecular pathways in human atherosclerotic
arteries. BMC Genomics. 2009 Jan 9;10:13. PubMed PMID: 19134193;

Cagnin S, Caraballo M, Guiducci C, Martini P, Ross M, Santaana M, Danley D, West T, Lanfranchi G. Overview of electrochemical DNA biosensors: new approaches to detect the expression of life. Sensors (Basel). 2009;9(4):3122-48.PubMed PMID: 22574066;

Campanaro S, Treu L, Valle G. Protein evolution in deep sea bacteria: an
analysis of amino acids substitution rates. BMC Evol Biol. 2008 Nov 13;8:313.
PubMed PMID: 19014525;

Tosatto SC, Bosello V, Fogolari F, Mauri P, Roveri A, Toppo S, Flohé L,
Ursini F, Maiorino M. The catalytic site of glutathione peroxidases. Antioxid
Redox Signal. 2008 Sep;10(9):1515-26. PubMed PMID: 18500926.

Cogoi S, Paramasivam M, Spolaore B, Xodo LE. Structural polymorphism within a
regulatory element of the human KRAS promoter: formation of G4-DNA recognized by nuclear proteins. Nucleic Acids Res. 2008 Jun;36(11):3765-80. PubMed PMID: 18490377;

Manavski SA, Valle G. CUDA compatible GPU cards as efficient hardware
accelerators for Smith-Waterman sequence alignment. BMC Bioinformatics. 2008 Mar 26;9 Suppl 2:S10. PubMed PMID: 18387198;