Data set name: glioblastoma

Brief description:

Malignant gliomas and oligodendrogliomas can be histologically divided into 2 subgroups, the classic and nonclassic type. Tumors in the nonclassic subgroup are diagnostically especially challenging, generating considerable interobserver variability and limited diagnostic reproducibility when the classification is done by histological features. The model shown distinguishes between 4 diagnostic classes (classic and nonclassic gliomas and oligodendrogliomas) on the basis of DNA gene expression signatures.

Platform: Affymetrix Human Genome U95Av2 Array

Diagnostic classes:

- classic glioblastoma (CG): 14 examples (28.0%)

- classic oligodendroglioma (CO): 7 examples (14.0%)

- nonclassic glioblastoma (NG): 14 examples (28.0%)

- nonclassic oligodendroglioma (NO): 15 examples (30.0%)

Predictive accuracy with 10-fold cross validation (classifying using the best projection with eight attributes):

Classification accuracy: 70.00%

Area under curve (AUC): 0.891

	Score: 95.03% Genes: 630_at: dCMP deaminase, DCTD 446_at: "casein kinase 1, gamma 2", CSNK1G2 38609_at: "sarcoglycan, alpha (50kDa dystrophin-associated glycoprotein)", SGCA 37807_at: "glucokinase (hexokinase 4, maturity onset diabetes of the young 2)", GCK AFFX-BioC-3_st: ---, --- 31569_at: "solute carrier family 1 (glutamate transporter), member 7", SLC1A7 41269_r_at: apoptosis inhibitor 5, API5 36164_at: "pyruvate dehydrogenase complex, component X", PDHX
	Score: 90.44% Genes: 35195_at: RNA terminal phosphate cyclase domain 1, RTCD1 1367_f_at: ubiquitin C, UBC 347_s_at: ribosomal protein S23, RPS23 36164_at: "pyruvate dehydrogenase complex, component X", PDHX 1961_f_at: nitric oxide synthase 3 (endothelial cell), NOS3 38609_at: "sarcoglycan, alpha (50kDa dystrophin-associated glycoprotein)", SGCA
	Score: 86.32% Genes: 1367_f_at: ubiquitin C, UBC 38609_at: "sarcoglycan, alpha (50kDa dystrophin-associated glycoprotein)", SGCA 33468_at: desmoglein 2, DSG2 36164_at: "pyruvate dehydrogenase complex, component X", PDHX

Attribute ranking

Following is the histogram of genes showing how often are they present in one of the top 100 radviz visualizations with 8 attributes.

Genes: 38609_at: "sarcoglycan, alpha (50kDa dystrophin-associated glycoprotein)", SGCA 36164_at: "pyruvate dehydrogenase complex, component X", PDHX 446_at: "casein kinase 1, gamma 2", CSNK1G2 33619_at: ribosomal protein S13, RPS13 493_at: "casein kinase 1, delta", CSNK1D 40055_s_at: matrix metallopeptidase 19, MMP19 33468_at: desmoglein 2, DSG2 37807_at: "glucokinase (hexokinase 4, maturity onset diabetes of the young 2)", GCK 347_s_at: ribosomal protein S23, RPS23 1961_f_at: nitric oxide synthase 3 (endothelial cell), NOS3 AFFX-BioC-3_st: ---, --- 35567_at: Chromosome 20 open reading frame 194, C20orf194 35905_s_at: glyceraldehyde-3-phosphate dehydrogenase, GAPDH 41846_at: Cone-rod homeobox, CRX 41269_r_at: apoptosis inhibitor 5, API5 35276_at: claudin 4, CLDN4 32690_s_at: prostaglandin E receptor 3 (subtype EP3), PTGER3 AFFX-HUMGAPDH/M33197_3_at: glyceraldehyde-3-phosphate dehydrogenase, GAPDH 38421_at: taxilin alpha, TXLNA 37613_at: parvalbumin, PVALB