Eu.Gene Analyzer a tool for integrating gene expression data with pathway databases

Duccio Cavalieri, Cinzia Castagnini, Simona Toti, Karolina Maciag, Thomas Kelder, Luca Gambineri, Samuele Angioli, Piero Dolara

Research output: Contribution to journalArticle

Abstract

Motivation: Eu.Gene Analyzer is an easy-to-use, stand-alone application that allows rapid and powerful microarray data analysis in the context of biological pathways. Its intuitive graphical user interface makes it an easy and flexible tool, even for the first-time user. Eu.Gene supports a variety of array platforms, organisms and pathway ontologies, transparently deals with multiple nomenclature systems and seamlessly integrates data from different sources. Two different statistical methods, the Fisher Exact Test and the Gene Set Enrichment Analysis (GSEA), are implemented to identify biological pathways transcriptionally affected under experimental conditions. A suite of tools is offered to define, visualize and share custom non-redundant pathway sets. In conclusion, Eu.Gene Analyzer is a new software application that takes advantage of information from multiple pathway databases to build a comprehensive interpretation of experimental results in a simple, intuitive environment.

Original languageEnglish (US)
Pages (from-to)2631-2632
Number of pages2
JournalBioinformatics
Volume23
Issue number19
DOIs
Publication statusPublished - Oct 1 2007
Externally publishedYes

    Fingerprint

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this

Cavalieri, D., Castagnini, C., Toti, S., Maciag, K., Kelder, T., Gambineri, L., ... Dolara, P. (2007). Eu.Gene Analyzer a tool for integrating gene expression data with pathway databases. Bioinformatics, 23(19), 2631-2632. https://doi.org/10.1093/bioinformatics/btm333