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Data set name: GSE3726


Original data set (GSE3726)
Data set for Orange
Brief description:
Frozen samples from the original dataset were used to distinguish between colon and breast cancer patients based on gene expression values.

Platform: Affymetrix GeneChip Human Genome U133 Array Set HG-U133A

Diagnostic classes:
- breast cancer (breast): 31 examples (59.6%)
- colon cancer (colon): 21 examples (40.4%)
Number of genes: 22283
Number of samples: 52
Predictive accuracy with 10-fold cross validation (classifying using the best projection with eight attributes):
Classification accuracy: 94.00%
Area under curve (AUC): 0.933
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: 99.96%
Genes:
209602_s_at: GATA binding protein 3, GATA3
205225_at: estrogen receptor 1, ESR1
221869_at: KIAA1196 protein, GM632
209604_s_at: GATA binding protein 3, GATA3
219508_at: glucosaminyl (N-acetyl) transferase 3, mucin type, GCNT3
208383_s_at: phosphoenolpyruvate carboxykinase 1 (soluble), PCK1
202669_s_at: ephrin-B2, EFNB2
213509_x_at: carboxylesterase 2 (intestine, liver), CES2
Score: 99.92%
Genes:
203928_x_at: microtubule-associated protein tau, MAPT
221869_at: KIAA1196 protein, GM632
205225_at: estrogen receptor 1, ESR1
213953_at: keratin 20, KRT20
202669_s_at: ephrin-B2, EFNB2
208383_s_at: phosphoenolpyruvate carboxykinase 1 (soluble), PCK1
Score: 99.86%
Genes:
213441_x_at: SAM pointed domain containing ets transcription factor, SPDEF
209603_at: GATA binding protein 3, GATA3
213953_at: keratin 20, KRT20
219508_at: glucosaminyl (N-acetyl) transferase 3, mucin type, GCNT3

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:
202669_s_at: ephrin-B2, EFNB2
204653_at: transcription factor AP-2 alpha (activating enhancer binding protein 2 alpha), TFAP2A
219508_at: glucosaminyl (N-acetyl) transferase 3, mucin type, GCNT3
213953_at: keratin 20, KRT20
205225_at: estrogen receptor 1, ESR1
209602_s_at: GATA binding protein 3, GATA3
221869_at: KIAA1196 protein, GM632
209604_s_at: GATA binding protein 3, GATA3
210239_at: iroquois homeobox protein 5, IRX5
209603_at: GATA binding protein 3, GATA3
214404_x_at: SAM pointed domain containing ets transcription factor, SPDEF
211357_s_at: aldolase B, fructose-bisphosphate, ALDOB
208383_s_at: phosphoenolpyruvate carboxykinase 1 (soluble), PCK1
213509_x_at: carboxylesterase 2 (intestine, liver), CES2
218687_s_at: mucin 13, epithelial transmembrane, MUC13
209309_at: alpha-2-glycoprotein 1, zinc, AZGP1
202575_at: cellular retinoic acid binding protein 2, CRABP2
213441_x_at: SAM pointed domain containing ets transcription factor, SPDEF
203928_x_at: microtubule-associated protein tau, MAPT
202831_at: glutathione peroxidase 2 (gastrointestinal), GPX2