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Supplementary Information

Identification of genes associated with chemotherapy cross-resistance and treatment response in childhood acute lymphoblastic leukemia.

Supplemental Table 8: Overlap in genes discriminating multiple-drug cross-resistance and genes discriminating PRD-, VCR-, ASP- and DNR single-drug resistance.

Summary of the overlapping gene probe sets with corresponding gene symbol (GS), map location (ML) and ratio of the median log-transformed expression signal in cross-resistant versus cross-sensitive ALL for multiple-drug cross-resistance (Ratio). A gene probe set with a ratio of >1 is over-expressed and with a ratio of <1 is under-expressed probe sets in cross-resistant ALL compared to cross-sensitive ALL. The probe sets in overlap between multiple-drug cross-resistance and single-drug resistance to PRD (A), ASP (B) and DNR (C) alone are shown, highlighted in orange and yellow are genes that are in common, no overlap was found with VCR alone. (D) Rows indicate the overlapping genes (n) for single-drug resistance PRD, VCR, ASP, DNR; and columns overlapping genes (n) and percentages for cross-resistance (CR) and VCR-ASP discordant resistance (VA). Overlap occurs in cases the total is not matching the sum of the genes. (1) shows the numbers and the percentages if the significant set of genes identified were compared and (2) shows the results if the analysis is done using the same number of genes for multiple-drug resistance versus single-drug resistance.

A
Probe Set ID Gene Name GS ML R/S ratio
213061_s_at N-terminal asparagine amidase NTAN1 16p13.13 0.60
203274_at coagulation factor VIII-associated (intronic transcript) F8A xq28 0.60
202521_at CCCTC-binding factor (zinc finger protein) CTCF 16q21-q22.3 0.66
218438_s_at endothelial-derived gene 1 EG1 4p16 0.67
219679_s_at WW domain containing adaptor with coiled-coil WAC 10p12.1 0.67
208739_x_at SMT3 suppressor of mif two 3 homolog 2 (yeast) SUMO2 17q25 0.69
221547_at PRP18 pre-mRNA processing factor 18 homolog PRPF18 10p14 0.77
208620_at poly(rC) binding protein 1 PCBP1 2p13-p12 0.81
217729_s_at amino-terminal enhancer of split AES 19p13.3 0.82
205193_at v-maf musculoaponeurotic fibrosarcoma oncogene MAFF 22q13.1 1.76
209795_at CD69 antigen (p60, early T-cell activation antigen) CD69 12p13-p12 2.14
36711_at v-maf musculoaponeurotic fibrosarcoma oncogene MAFF 22q13.1 2.25
218589_at purinergic receptor P2Y, G-protein coupled, 5 P2RY5 13q14 2.69
B
Probe Set ID Gene Name GS ML Ratio
203274_at coagulation factor VIII-associated (intronic transcript) F8A xq28 0.60
201140_s_at RAB5C, member RAS oncogene family RAB5C 17q21.2 0.63
201156_s_at RAB5C, member RAS oncogene family RAB5C 17q21.2 0.76
209604_s_at GATA binding protein 3 GATA3 10p15 3.38
C
Probe Set ID Gene Name GS ML Ratio
213061_s_at N-terminal asparagine amidase NTAN1 16p13.13 0.60
202777_at soc-2 suppressor of clear homolog (C. elegans) SHOC2 10q25 0.61
202521_at CCCTC-binding factor (zinc finger protein) CTCF 16q21-q22.3 0.66
218438_s_at endothelial-derived gene 1 EG1 4p16 0.67
200059_s_at ras homolog gene family, member A RHOA 3p21.3 0.82
D
1) multiple resistance
Overlap CR (51) VA (200) % of CR % of VA
single resistance PRD (42) 13 0 25% 0%
VCR (59) 0 15 0% 8%
ASP (54) 4 36 8% 18%
DNR (22) 5 0 10% 0%
Total (146) 18 51 35% 26%
2) multiple resistance
Overlap CR (100) VA (100) % of CR % of VA
single resistance PRD (100) 21 0 21% 0%
VCR (100) 1 10 1% 10%
ASP (100) 14 36 14% 36%
DNR (100) 19 1 19% 1%
Total (382) 45 46 45% 47%

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