Novel genetic and epigenetic alterations in ... - Ous-research.no

concomitant absence of transcript and proteinoccurs in small patches of crypt cells in unaffectedmucosa from sporadic colorectal carcinoma. DiagnMol Pathol 2006, 15:17-23.64. Ide T, Kitajima Y, Ohtaka K, Mitsuno M, Nakafusa Y,Miyazaki K: Expression of the hMLH1 gene is apossible predictor for the clinical response to 5-fluorouracil after a surgical resection in colorectalcancer. Oncol Rep 2008, 19:1571-1576.65. Hitchins MP, Lin VA, Buckle A, Cheong K, Halani N, KuS, Kwok CT, Packham D, Suter CM, Meagher A et al.:Epigenetic inactivation of a cluster of genesflanking MLH1 in microsatellite-unstable colorectalcancer. Cancer Res 2007, 67:9107-9116.66. Leung WK, To KF, Man EP, Chan MW, Bai AH, Hui AJ,Chan FK, Sung JJ: Quantitative detection ofpromoter hypermethylation in multiple genes in theserum of patients with colorectal cancer. Am JGastroenterol 2005, 100:2274-2279.67. Xiong Z, Wu AH, Bender CM, Tsao JL, Blake C,Shibata D, Jones PA, Yu MC, Ross RK, Laird PW:Mismatch repair deficiency and CpG islandhypermethylation in sporadic colonadenocarcinomas. Cancer Epidemiol Biomarkers Prev2001, 10:799-803.68. Muller HM, Oberwalder M, Fiegl H, Morandell M,Goebel G, Zitt M, Muhlthaler M, Ofner D, Margreiter R,Widschwendter M: Methylation changes in faecalDNA: a marker for colorectal cancer screening?Lancet 2004, 363:1283-1285.69. Chen WD, Han ZJ, Skoletsky J, Olson J, Sah J, MyeroffL, Platzer P, Lu S, Dawson D, Willis J et al.: Detectionin fecal DNA of colon cancer-specific methylationof the nonexpressed vimentin gene. J Natl CancerInst 2005, 97:1124-1132.70. Giovannucci E, Ogino S: DNA methylation, fieldeffects, and colorectal cancer. J Natl Cancer Inst2005, 97:1317-1319.71. Feinberg AP, Ohlsson R, Henikoff S: The epigeneticprogenitor origin of human cancer. Nat Rev Genet2006, 7:21-33.Additional materialAdditional file 1:File format: DOCTitle: Supplementary informationDescription: Methodological details which are not crucial forthe understanding of the work, as well as Additional figurelegends.Additional file 2:File format: JPGTitle: Titration of methylated DNA template illustrates thescoring thresholds for the methylation-specific polymerasechain reaction.Description: Determination of scoring thresholds is visualizedby a titration series of the RUNX3 gene.Additional file 3:File format: XLSTitle: PCR primers used for methylation-specific PCR andmicrosatellite instability analyses.Description: Information on primers and PCR detailsAdditional file 4:File format: XLSTitle: Genetic and epigenetic raw data.Description: Raw data from all analyses are listed for eachtumor included.Additional file 5:File format: XLSTitle: Summarized methylation raw data.Description: Methylation frequencies are presented for eachof the eleven analyzed genes in the 4 different sample typesaccording to what methylation level they exhibited (strong,weak or no methylation).Additional file 6:File format: JPGTitle: Comparison between MSP and quantitative MSP innormal mucosa samples.Description: Hypermethylation of was analyzed with bothnon-quantitative- and quantitative MSP. Here the results fromeach method are presented.Additional file 7:File format: XLSTitle: Correlation between methylated genes.Description: A correlation table including all analyzed forpromoter hypermethylation shown that genes commonlymethylated in MSI tumors are highly correlated.Additional file 8:File format: JPGTitle: Widespread methylation among normal colorectalsamples, adenomas, and carcinomas.Description: A histogram showing the total number ofmethylated genes per sample in non-cancerous normalmucosa, normal mucosa taken in distance from a primarytumor, adenomas, and carcinomas stratified according toMSI status.10