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BMC Genomics. 2009 Jan 20;10:32. doi: 10.1186/1471-2164-10-32.

Simultaneous analysis of distinct Omics data sets with integration of biological knowledge: Multiple Factor Analysis approach.

Author information

1
CNRS UMR 6061, Université de Rennes 1, IFR 140, Faculté de Médecine, CS 34317, 35043 Rennes, France. marie.de-tayrac@univ-rennes1.fr

Abstract

BACKGROUND:

Genomic analysis will greatly benefit from considering in a global way various sources of molecular data with the related biological knowledge. It is thus of great importance to provide useful integrative approaches dedicated to ease the interpretation of microarray data.

RESULTS:

Here, we introduce a data-mining approach, Multiple Factor Analysis (MFA), to combine multiple data sets and to add formalized knowledge. MFA is used to jointly analyse the structure emerging from genomic and transcriptomic data sets. The common structures are underlined and graphical outputs are provided such that biological meaning becomes easily retrievable. Gene Ontology terms are used to build gene modules that are superimposed on the experimentally interpreted plots. Functional interpretations are then supported by a step-by-step sequence of graphical representations.

CONCLUSION:

When applied to genomic and transcriptomic data and associated Gene Ontology annotations, our method prioritize the biological processes linked to the experimental settings. Furthermore, it reduces the time and effort to analyze large amounts of 'Omics' data.

PMID:
19154582
PMCID:
PMC2636827
DOI:
10.1186/1471-2164-10-32
[Indexed for MEDLINE]
Free PMC Article

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