Title :
Disjoint PCA models for marker identification and classification of cancer types using gene expression data
Author :
Bicciato, S. ; Luchini, A. ; Bello, C. Di
Author_Institution :
Dept. of Chem. Process Eng., Padova Univ., Italy
Abstract :
The parallel monitoring of the expression profiles of thousands of genes seems particularly promising for a deeper understanding of cancer biology and to identify molecular signatures supporting the histological classification schemes of neoplastic specimens. A computational procedure for feature extraction and classification of gene expression data through the application of principal component analysis and of the soft independent modeling of class analogy approach (SIMCA) is described. The identified features contain critical information about gene-phenotype relationships observed during changes in cell physiology. They represent a rational and dimensionally reduced base for understanding the basic biology of the onset of diseases, defining targets of therapeutic intervention, and developing diagnostic tools for the identification and classification of pathological states. The proposed method has been tested on the childhood round blue cell tumors study presented by Khan et al. [2001]. The analysis of the SIMCA model allows the identification of specific phenotype markers and provides the assignment to multiple classes for previously unseen instances.
Keywords :
cancer; cellular biophysics; feature extraction; genetics; principal component analysis; cancer biology understanding; cancer types classification; cell physiology; childhood round blue cell tumors study; class analogy approach; computational procedure; critical information; disjoint PCA models; gene-phenotype relationships; marker identification; pathological states classification; soft independent modeling; Biological system modeling; Biology computing; Cancer; Cells (biology); Diseases; Feature extraction; Gene expression; Monitoring; Physiology; Principal component analysis;
Conference_Titel :
Molecular, Cellular and Tissue Engineering, 2002. Proceedings of the IEEE-EMBS Special Topic Conference on
Print_ISBN :
0-7803-7557-2
DOI :
10.1109/MCTE.2002.1175023