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Identification of the regulatory proteins in human pancreatic cancers treated with Trichostatin A by 2D-PAGE maps and multivariate statistical analysis

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Abstract

In this paper, principal component analysis (PCA) is applied to a spot quantity dataset comprising 435 spots detected in 18 samples belonging to two different cell lines (Paca44 and T3M4) of control (untreated) and drug-treated pancreatic ductal carcinoma cells. The aim of the study was the identification of the differences occurring between the proteomic patterns of the two investigated cell lines and the evaluation of the effect of the drug Trichostatin A on the protein content of the cells. PCA turned out to be a successful tool for the identification of the classes of samples present in the dataset. Moreover, the loadings analysis allowed the identification of the differentially expressed spots, which characterise each group of samples. The treatment of both the cell lines with Trichostatin A therefore showed an appreciable effect on the proteomic pattern of the treated samples. Identification of some of the most relevant spots was also performed by mass spectrometry.

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Acknowledgements

Supported by grants from AIRC (Associazione Italiana Ricerca sul Cancro, Milano, Italy), FIRB 2001 (No. RBNF01KJHT), MIUR (Ministero dell’Istruzione, dell’Università e della Ricerca, Rome, Italy; COFIN 2003), Fondazione Cassa di Risparmio di Verona and the European Community, Grant No. QLG2-CT-2001-01903 and No. QLG-CT-2002-01196.

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Authors and Affiliations

  1. Department of Environmental and Life Sciences, University of Eastern Piedmont, Spalto Marengo 33, 15100, Alessandria, Italy

    Emilio Marengo & Elisa Robotti

  2. Department of Industrial Biotechnologies, University of Verona, Strada le Grazie 15, 37134, Verona, Italy

    Daniela Cecconi & Pier Giorgio Righetti

  3. Computational, Analytical and Structural Sciences, GlaxoSmithKline, Via Fleming 4, 37135, Verona, Italy

    Mahmoud Hamdan

  4. Department of Pathology, Section of Anatomical Pathology, University of Verona, 37134, Verona, Italy

    Aldo Scarpa

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  1. Emilio Marengo
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  2. Elisa Robotti
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  3. Daniela Cecconi
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  4. Mahmoud Hamdan
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  5. Aldo Scarpa
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  6. Pier Giorgio Righetti
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Correspondence to Emilio Marengo.

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Marengo, E., Robotti, E., Cecconi, D. et al. Identification of the regulatory proteins in human pancreatic cancers treated with Trichostatin A by 2D-PAGE maps and multivariate statistical analysis. Anal Bioanal Chem 379, 992–1003 (2004). https://doi.org/10.1007/s00216-004-2707-x

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  • DOI: https://doi.org/10.1007/s00216-004-2707-x

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