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A novel strategy for molecular signature discovery based on independent component analysis
by Hang-Phuong Pham; Nicolas Dérian; Wahiba Chaara; Bertrand Bellier; David Klatzmann; Adrien Six
International Journal of Data Mining and Bioinformatics (IJDMB), Vol. 9, No. 3, 2014


Abstract: Microarray analysis often leads to either too large or too small numbers of gene candidates to allow meaningful identification of functional signatures. We aimed at overcoming this hurdle by combining two algorithms: i) Independent Component Analysis to extract statistically-based potential signatures. ii) Gene Set Enrichment Analysis to produce a score of enrichment with statistical significance of each potential signature. We have applied this strategy to identify regulatory T cell (Treg) molecular signatures from two experiments in mice, with cross-validation. These signatures can detect the ∼1% Treg in whole spleen. These findings demonstrate the relevance of our approach as a signature discovery tool.

Online publication date: Mon, 07-Oct-2013


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