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Null Results in Brief |
Department of Epidemiology, School of Public Health and Lineberger Comprehensive Cancer Center, School of Medicine, University of North Carolina, Chapel Hill, North Carolina
Requests for reprints: Robert Millikan, Department of Epidemiology, CB 7435 School of Public Health, University of North Carolina, Chapel Hill, NC 27599-7435. Phone: 215-440-9300; Fax: 215-440-9337. E-mail: millikan{at}email.unc.edu
| Introduction |
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| Materials and Methods |
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MDM2 Genotyping
Genotyping was conducted on germ line DNA using a Minor Groove Binding Eclipse assay developed by Nanogen, Inc. (Bothell, WA). The (G) allele probe was labeled on the 3' end with the FAM reporter dye (nucleotide sequence, 5'-CCCGCGCCGcAG-3', variant site in lower case) and the (T) allele probe was labeled on the 3' end with the TET reporter dye (5'-CCCGCGCCGaA*G-3'). The asterisk denotes a Superbase. Superbases are modified nucleotides that permit highly specific binding to GC-rich DNA templates. The forward PCR primer was 5'-ACCTGCGATCATCCGGACCT-3' and the reverse primer was 5'-TGCGG*GGCCGCT-3'. Probes and primers were designed for the complementary DNA strand. PCR amplification was done on a GenAmp 9700 thermocycler (Perkin-Elmer, Wellesley, MA) under the following conditions: 1 cycle of 50.0°C for 2 minutes, 1 cycle of 95.0°C for 2 minutes, followed by 50 cycles of 95.0°C for 5 seconds (denature), 28.0°C for 20 seconds (anneal/detection), and 76.0°C for 30 seconds (extension). Post-PCR melt curve analysis was done on the ABI Prism 7700, and data was analyzed using the Minor Groove Binding Eclipse Melt Macro for Microsoft Excel (EclipseMeltMacro_v2.332_050519.xls) provided by Nanogen. Further details are available from the authors upon request.
Genomic DNA samples obtained from the Coriell Cell Repositories (Camden, NJ) were sequenced to determine MDM2 309 genotype status and used as positive controls. Positive controls were Coriell sample number NA12749 for G/G (FAM) and NA11587 for T/T (TET). DNA samples that did not amplify or could not be scored were repeated. Samples that did not amplify on the third PCR run were designated as "missing" (n = 8). A randomly selected 10% of samples were repeated, and all results matched the initial analysis.
Statistical Analysis
Genotype frequencies were compared using the Cochran Armitage test for trend (9), and allele frequencies were compared using
2 tests. Odds ratios (OR) and 95% confidence intervals were calculated using SAS (SAS Institute, Cary, NC) and incorporated offset terms to account for sampling probabilities for cases and controls. Among cases, age at onset of breast cancer was compared across strata defined by MDM2 genotype using ANOVA for means and the Kruskal-Wallis test for medians.
| Results |
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| Discussion |
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1.4 for MDM2 309 G/G genotype in Whites, and 90% power to detect an OR of
2.6 in African-Americans. We conclude that the MDM2 309 genotype is not associated with breast cancer risk in Whites and does not exhibit a strong association in African-Americans. MDM2 genotype may be associated with a slightly earlier age at onset of breast tumors containing somatic mutations in p53. Additional studies of breast cancer and other cancers are warranted. The search for functional polymorphisms such as MDM2 309 that alter transcriptional regulation in biological pathways that influence tumorigenesis is an important research endeavor (10). | Footnotes |
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The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked advertisement in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.
Received 9/ 8/05; revised 10/19/05; accepted 11/ 9/05.
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