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## Supplementary Table 1

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**Supplementary Table 2 The results of screening stage**analysis of colorectal cancer SNPs were ranked according to their p Value in the screening stage of colorectal cancer. OR, Odds ratio; CI, confidence interval. ||Significance level for the departures from Hardy Weinberg equilibrium (HWE)in the control samples. †OR of minor allele from 2x2 allele frequency table. ‡p Values derived from Cochran-Armitage trend tests. Chromosomal positions are from NCBI build 36.**Supplementary Table 3 The results of screening stage**analysis of colon cancer SNPs were ranked according to their p Value in the screening stage of colon cancer. OR, Odds ratio; CI, confidence interval. ||Significance level for the departures from Hardy Weinberg equilibrium (HWE) in the control samples. †OR of minor allele from 2x2 allele frequency table. ‡ p Values derived from Cochran-Armitage trend tests. Chromosomal positions are from NCBI build 36.**Supplementary Table 4 The results of screening stage**analysis of proximal colon cancer SNPs were ranked according to their p Value in the screening stage of proximal colon cancer. OR, Odds ratio; CI, confidence interval. ||Significance level for the departures from Hardy Weinberg equilibrium (HWE) in the control samples. †OR of minor allele from 2x2 allele frequency table. ‡ p Values derived from Cochran-Armitage trend tests. Chromosomal positions are from NCBI build 36.**Supplementary Table 5 The results of screening stage**analysis of distal colon cancer SNPs were ranked according to their p Value in the screening stage of distal colon cancer. OR, Odds ratio; CI, confidence interval. ||Significance level for the departures from Hardy Weinberg equilibrium (HWE) in the control samples. †OR of minor allele from 2x2 allele frequency table. ‡p Values derived from Cochran-Armitage trend tests. Chromosomal positions are from NCBI build 36.**Supplementary Table 6 The results of screening stage**analysis of rectal cancer SNPs were ranked according to their p Value in the screening stage of rectal cancer. OR, Odds ratio; CI, confidence interval. ||Significance level for the departures from Hardy Weinberg equilibrium (HWE) in the control samples. †OR of minor allele from 2x2 allele frequency table. ‡p Values derived from Cochran-Armitage trend tests. Chromosomal positions are from NCBI build 36.**Supplementary Table 7 SNPs mapping to SLC22A3 along with p**Value obtained from Cochran-Armitage trend tests OR, Odds ratio; CI, confidence interval. †OR of minor allele from 2x2 allele frequency table. ‡p Values derived from Cochran-Armitage trend tests. Chromosomal positions are from NCBI build 36.**Supplementary Table 8 The results of previously reported**loci in screening stage OR, Odds ratio; CI, confidence interval. †OR of minor allele from 2x2 allele frequency table. ‡p Values derived from Cochran-Armitage trend tests. || Minor allele frequency of control samples in the screening stage.¶ Minor allele frequency of healthy control samples in the screening stage. Chromosomal positions are from NCBI build 36. Supplementary Table 9 List of primers used for SNP discovery List of optimal primer sequences as designed with Primer3.**Supplementary Table 10 Results of replication studies and**meta-analysis for colon cancerin Japanese OR, Odds ratio; CI, confidence interval. † OR of minor allele from 2 x 2 allele frequency table. ‡ p Values derived from Cochran-Armitage trend tests. § Result of Breslow-Day test. || Meta-analysis of all three studies. Odds ratio and p Values for independence test were calculated by Mantel-Haenzel method. Supplementary Table 11 Results of replication studies and meta-analysis for colorectal cancer in Japanese OR, Odds ratio; CI, confidence interval. † OR of minor allele from 2 x 2 allele frequency table. ‡ p Values derived from Cochran-Armitage trend tests. § Result of Breslow-Day test. || Meta-analysis of all three studies. Odds ratio and p Values for independence test were calculated by Mantel-Haenzel method.