Direct functional assessment of the composite phenotype through multivariate projection strategies
We present a novel approach for the analysis of transcriptomics data that integrates functional annotation of gene sets with expression values in a multivariate fashion, and directly assesses the relation of functional features to a multivariate space of response phenotypical variables. Multivariate...
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| Veröffentlicht in: | Genomics (San Diego, Calif.) Calif.), 2008-12, Vol.92 (6), p.373-383 |
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| container_title | Genomics (San Diego, Calif.) |
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| creator | Conesa, Ana Bro, Rasmus García-García, Francisco Prats, José Manuel Götz, Stefan Kjeldahl, Karin Montaner, David Dopazo, Joaquín |
| description | We present a novel approach for the analysis of transcriptomics data that integrates functional annotation of gene sets with expression values in a multivariate fashion, and directly assesses the relation of functional features to a multivariate space of response phenotypical variables. Multivariate projection methods are used to obtain new correlated variables for a set of genes that share a given function. These new functional variables are then related to the response variables of interest. The analysis of the principal directions of the multivariate regression allows for the identification of gene function features correlated with the phenotype. Two different transcriptomics studies are used to illustrate the statistical and interpretative aspects of the methodology. We demonstrate the superiority of the proposed method over equivalent approaches. |
| doi_str_mv | 10.1016/j.ygeno.2008.05.015 |
| format | Article |
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| source | MEDLINE; Elsevier ScienceDirect Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals |
| subjects | Breast Neoplasms - genetics Computational Biology - methods Data integration Databases, Genetic Female Functional genomics Gene annotation Gene Expression Profiling - statistics & numerical data Gene ontology Humans Mathematical Computing Multivariate Analysis Multivariate regression Partial least squares Phenotype Principal component analysis |
| title | Direct functional assessment of the composite phenotype through multivariate projection strategies |
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