Data set name: GSE468


Original data set (GSE468)
Data set for Orange
Brief description:
Our class prediction model for the medulloblastoma data set (GSE468) was built with gene expression profiles of primary medulloblastomas clinically designated as either metastatic (Met) or non-metastatic (NonMet).

Platform: Affymetrix GeneChip Human Cancer Array HC-G110

Diagnostic classes:
- metastatic medulloblastoma (Met): 10 examples (43.5%)
- non-metastatic medulloblastoma (NonMet): 13 examples (56.5%)
Number of genes: 1465
Number of samples: 23
Note: From the originally measured 2059 probe sets we removed genes that were not present (P) in at least one sample
Predictive accuracy with 10-fold cross validation (classifying using the best projection with eight attributes):
Classification accuracy: 51.67%
Area under curve (AUC): 0.600
Following are the three best-ranked visualization with eight, six and four attributes in respect to the visualization score, that is, visualizations where examples from different diagnostic classes are best separated:

Score: 99.86%
Genes:
1818_at
1007_s_at: discoidin domain receptor family, member 1, DDR1
1771_s_at: platelet-derived growth factor receptor, beta polypeptide, PDGFRB
829_s_at: glutathione S-transferase pi, GSTP1
714_at
1380_at: fibroblast growth factor 7 (keratinocyte growth factor), FGF7
1012_at: p300/CBP-associated factor, PCAF
1600_at: TXK tyrosine kinase, TXK
Score: 99.41%
Genes:
1104_s_at: heat shock 70kDa protein 1A /// heat shock 70kDa protein 1B, HSPA1A /// HSPA1B
1818_at
671_at: secreted protein, acidic, cysteine-rich (osteonectin), SPARC
322_at: phosphoinositide-3-kinase, regulatory subunit 3 (p55, gamma), PIK3R3
358_at: purinergic receptor P2Y, G-protein coupled, 10, P2RY10
1380_at: fibroblast growth factor 7 (keratinocyte growth factor), FGF7
Score: 97.48%
Genes:
829_s_at: glutathione S-transferase pi, GSTP1
671_at: secreted protein, acidic, cysteine-rich (osteonectin), SPARC
358_at: purinergic receptor P2Y, G-protein coupled, 10, P2RY10
1600_at: TXK tyrosine kinase, TXK

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:
1380_at: fibroblast growth factor 7 (keratinocyte growth factor), FGF7
1818_at
322_at: phosphoinositide-3-kinase, regulatory subunit 3 (p55, gamma), PIK3R3
671_at: secreted protein, acidic, cysteine-rich (osteonectin), SPARC
358_at: purinergic receptor P2Y, G-protein coupled, 10, P2RY10
2062_at: insulin-like growth factor binding protein 7, IGFBP7
205_g_at: homeo box A4, HOXA4
714_at
1600_at: TXK tyrosine kinase, TXK
1693_s_at: tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor), TIMP1
1173_g_at
1104_s_at: heat shock 70kDa protein 1A /// heat shock 70kDa protein 1B, HSPA1A /// HSPA1B
829_s_at: glutathione S-transferase pi, GSTP1
1012_at: p300/CBP-associated factor, PCAF
1127_at: ribosomal protein S6 kinase, 90kDa, polypeptide 1, RPS6KA1
1007_s_at: discoidin domain receptor family, member 1, DDR1
1182_at: phospholipase C-like 1, PLCL1
1771_s_at: platelet-derived growth factor receptor, beta polypeptide, PDGFRB
709_at: tubulin, beta polypeptide, TUBB
1637_at: mitogen-activated protein kinase-activated protein kinase 3, MAPKAPK3