Data set name: GSE1577


Original data set (GSE1577)
Data set for Orange
Brief description:
The malignant cells in T-cell acute lymphoblastic leukemia (T-ALL) and T-cell lymphoblastic lymphoma (T-LL) are morphologically indistinguishable, and they share the expression of common cell surface antigens and cytogenetic characteristics. However, despite these similarities, differences in the clinical behavior of T-ALL and T-LL are observed. The model was built with global gene expression profiles of malignant T-cell precursors of T-ALL and T-LL.

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

Diagnostic classes:
- T-cell lymphoblastic lymphoma (T-LL): 9 examples (47.4%)
- T-cell acute lymphoblastic leukemia (T-ALL): 10 examples (52.6%)
Number of genes: 15434
Number of samples: 19
Note: From the originally measured 22283 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: 95.00%
Area under curve (AUC): 1.000
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: 99.99%
Genes:
201163_s_at: insulin-like growth factor binding protein 7, IGFBP7
217757_at: alpha-2-macroglobulin, A2M
203382_s_at: apolipoprotein E, APOE
206702_at: TEK tyrosine kinase, endothelial (venous malformations, multiple cutaneous and mucosal), TEK
200732_s_at: protein tyrosine phosphatase type IVA, member 1, PTP4A1
222044_at
202168_at: TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa, TAF9
89948_at: chromosome 20 open reading frame 67, C20orf67
Score: 99.99%
Genes:
209290_s_at: nuclear factor I/B, NFIB
202112_at: von Willebrand factor, VWF
209289_at: Nuclear factor I/B, NFIB
89948_at: chromosome 20 open reading frame 67, C20orf67
200668_s_at: ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast), UBE2D3
222044_at
Score: 99.99%
Genes:
201163_s_at: insulin-like growth factor binding protein 7, IGFBP7
202112_at: von Willebrand factor, VWF
200732_s_at: protein tyrosine phosphatase type IVA, member 1, PTP4A1
202021_x_at: putative translation initiation factor, SUI1

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:
200668_s_at: ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast), UBE2D3
209120_at: nuclear receptor subfamily 2, group F, member 2, NR2F2
201163_s_at: insulin-like growth factor binding protein 7, IGFBP7
209290_s_at: nuclear factor I/B, NFIB
202168_at: TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa, TAF9
218462_at: brix domain containing 5, BXDC5
200732_s_at: protein tyrosine phosphatase type IVA, member 1, PTP4A1
202112_at: von Willebrand factor, VWF
206702_at: TEK tyrosine kinase, endothelial (venous malformations, multiple cutaneous and mucosal), TEK
218398_at: mitochondrial ribosomal protein S30, MRPS30
202021_x_at: putative translation initiation factor, SUI1
210639_s_at: APG5 autophagy 5-like (S. cerevisiae), APG5L
222044_at
217757_at: alpha-2-macroglobulin, A2M
218576_s_at: dual specificity phosphatase 12, DUSP12
202776_at: estrogen receptor binding protein, ERBP
203382_s_at: apolipoprotein E, APOE
89948_at: chromosome 20 open reading frame 67, C20orf67
209289_at: Nuclear factor I/B, NFIB