Publications

Authors:

Marengo, E.; Robotti, E.; Antonucci, Francesca; Cecconi, Daniela; Campostrini, Natascia; Righetti, Piergiorgio

Title:

“Numerical approaches for quantitative analysis of 2D map: a review of commercial software and of “home-made” systems”

Year:

2005

Type of item:

Articolo in Rivista

Tipologia ANVUR:

Articolo su rivista

Language:

Inglese

Referee:

Sì

Name of journal:

Proteomics

ISSN of journal:

1615-9853

N° Volume:

5

:

Wiley VCH

Page numbers:

654-666

Keyword:

quantitative analysis; 2D map; softwares

Short description of contents:

The present review attempts to cover a number of methods that have appeared in the last few years for performing quantitative proteome analysis. However, due to the large number of methods described for both electrophoretic and chromatographic approaches, we have limited this review to conventional two-dimensional (2-D) map analysis which couples orthogonally a charge-based step (isoelectric focusing) to a size-based separation step (sodium dodecyl sulfate-electrophoresis). The first and oldest method applied to 2-D map data reduction is based on statistical analysis performed on sets of gels via powerful software packages, such as Melanie, PDQuest, Z3 and Z4000, Phoretix and Progenesis. This method calls for separately running a number of replicas for control and treated samples. The two sets of data are then merged and compared via a number of software packages which we describe. In addition to commercially-available systems, a number of home made approaches for 2-D map comparison have been recently described and are also reviewed. They are based on fuzzyfication of the digitized 2-D gel image coupled to linear discriminant analysis, three-way principal component analysis or a combination of principal component analysis and soft-independent modeling of class analogy. These statistical tools appear to perform well in differential proteomic studies.

Web page:

http://onlinelibrary.wiley.com/doi/10.1002/pmic.200401015/abstract

Product ID:

33698

Handle IRIS:

11562/301073

Deposited On:

April 19, 2012

Last Modified:

November 11, 2022

Bibliographic citation:

Marengo, E.; Robotti, E.; Antonucci, Francesca; Cecconi, Daniela; Campostrini, Natascia; Righetti, Piergiorgio, “Numerical approaches for quantitative analysis of 2D map: a review of commercial software and of “home-made” systems” «Proteomics» , vol. 5 , 2005 , pp. 654-666

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