A new algorithm for the simulation of sodium dodecil sulfate two-dimensional polyacrylamide gel electrophoresis data sets

Emilio Marengo, Marco Demartini, Elisa Robotti, Marco Bobba

Research output: Contribution to journalArticlepeer-review

Abstract

A new algorithm for generating simulated sodium dodecil sulfate two-dimensional polyacrylamide gel electrophoresis (SDS 2D-PAGE) map images was developed. To choose the simulation strategy able to provide realistic 2D-PAGE maps, several parameters that characterize the statistical features of the images and data sets of images were taken into account, such as the distribution of size, intensity, and volume of the spots and their changes of position and volume along different replications of the same 2D-PAGE map. In this way, also the low reproducibility of replications of the same SDS 2D-PAGE maps was taken into account. The present algorithm can be usefully employed for the development of new classification and/or image analysis algorithms applied to bidimensional electrophoretic data sets, given the usually small number of experimental replications available.

Original languageEnglish
Pages (from-to)1864-1872
Number of pages9
JournalJournal of Proteome Research
Volume9
Issue number4
DOIs
Publication statusPublished - 5 Apr 2010

Keywords

  • SDS 2D-PAGE
  • Simulation
  • Statistical distributions

Fingerprint

Dive into the research topics of 'A new algorithm for the simulation of sodium dodecil sulfate two-dimensional polyacrylamide gel electrophoresis data sets'. Together they form a unique fingerprint.

Cite this