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Nonlinear Sparse Component Analysis with a Reference: Variable Selection in Genomics and Proteomics (CROSBI ID 626549)

Prilog sa skupa u zborniku | izvorni znanstveni rad | međunarodna recenzija

Kopriva, Ivica ; Kapitanović, Sanja ; Čačev, Tamara Nonlinear Sparse Component Analysis with a Reference: Variable Selection in Genomics and Proteomics // 12th International Conference, LVA/ICA 2015, Liberec, Czech Republic, August 25-28, 2015, Proceedings / Vincent, Emanuel ; Yeredor, Ari ; Kolodovsky, Zbinyek et al. (ur.). Heidelberg: Springer, 2015. str. 168-175

Podaci o odgovornosti

Kopriva, Ivica ; Kapitanović, Sanja ; Čačev, Tamara

engleski

Nonlinear Sparse Component Analysis with a Reference: Variable Selection in Genomics and Proteomics

Many scenarios occurring in genomics and proteomics involve small number of labeled data and large number of variables. To create prediction models robust to overfitting variable selection is necessary. We propose variable selection method using nonlinear sparse component analysis with a reference representing either negative (healthy) or positive (cancer) class. Thereby, component comprised of cancer related variables is automatically inferred from the geometry of nonlinear mixture model with a reference. Proposed method is compared with 3 supervised and 2 unsupervised variable selection methods on two-class problems using 2 genomic and 2 proteomic datasets. Obtained results, which include analysis of biological relevance of selected genes, are comparable with those achieved by supervised methods. Thus, proposed method can possibly perform better on unseen data of the same cancer type.

Variable selection;  Nonlinear mixture model;  Empirical kernel maps; Sparse component analysis

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Podaci o prilogu

168-175.

2015.

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objavljeno

978-3-319-22482-4

Podaci o matičnoj publikaciji

12th International Conference, LVA/ICA 2015, Liberec, Czech Republic, August 25-28, 2015, Proceedings

Vincent, Emanuel ; Yeredor, Ari ; Kolodovsky, Zbinyek ; Tichavsky, Petr

Heidelberg: Springer

Podaci o skupu

12th International Conference on Latent Variable Analysis and Signal Separation LVA/ICA 2015

pozvano predavanje

25.08.2015-28.08.2015

Liberec, Češka Republika

Povezanost rada

Računarstvo, Temeljne medicinske znanosti, Matematika

Poveznice