Locked nucleic acids can enhance the analytical performance of quantitative methylation-specific polymerase chain reaction

Journal of Molecular Diagnostics

Volumn 10, Issue 1, 2008, Pages 33-42

  Gustafson, Karen S ^a,b  

^a JOHNS HOPKINS UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b DEPARTMENT OF PATHOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FLUORESCENT DYE; GENOMIC DNA; NUCLEIC ACID; OLIGONUCLEOTIDE; PRIMER DNA;

ALLELE; ARTICLE; CANCER CELL CULTURE; CONTROLLED STUDY; DNA DETERMINATION; DNA METHYLATION; DNA MODIFICATION; DNA PROBE; FEMALE; GENE AMPLIFICATION; HUMAN; HUMAN CELL; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PROMOTER REGION; QUANTITATIVE ANALYSIS; RELIABILITY; SIGNAL TRANSDUCTION;

EID: 38749084584     PISSN: 15251578     EISSN: None     Source Type: Journal    
DOI: 10.2353/jmoldx.2008.070076     Document Type: Article

References (20)

1. Esteller M, Herman JG: Cancer as an epigenetic disease: DNA methylation and chromatin alterations in human tumours. J Pathol 2002, 196:1-7
2. Esteller M, Corn PG, Baylin SB, Herman JG: A gene hypermethylation profile of human cancer. Cancer Res 2001, 61:3225-3229
3. Matsubayashi H, Canto M, Sato N, Klein A, Abe T, Yamashita K, Yeo CJ, Kalloo A, Hruban R, Goggins M: DNA methylation alterations in the pancreatic juice of patients with suspected pancreatic disease. Cancer Res 2006, 66:1208-1217
4. Fackler MJ, McVeigh M, Mehrotra J, Blum MA, Lange J, Lapides A, Garrett E, Argani P, Sukumar S: Quantitative multiplex methylation-specific PCR assay for the detection of promoter hypermethylation in multiple genes in breast cancer. Cancer Res 2004, 64:4442-4452
5. Gustafson KS, Furth EE, Heitjan DF, Fansler ZB, Clark DP: DNA methylation profiling of cervical squamous intraepithelial lesions using liquid-based cytology specimens: an approach that utilizes receiver-operating characteristic analysis. Cancer 2004, 102:259-268
6. Jerónimo C, Usadel H, Henrique R, Oliveira J, Lopes C, Nelson WG, Sidransky D: Quantitation of GSTP1 methylation in non-neoplastic prostatic tissue and organ-confined prostate adenocarcinoma. J Natl Cancer Inst 2001, 93:1747-1752
7. Belinsky SA, Liechty KC, Gentry FD, Wolf HJ, Rogers J, Vu K, Haney J, Kennedy TC, Hirsch FR, Miller Y, Franklin WA, Herman JG, Baylin SB, Bunn PA, Byers T: Promoter hypermethylation of multiple genes in sputum precedes lung cancer incidence in a high-risk cohort. Cancer Res 2006, 66:3338-3344
8. Wang RY, Gehrke CW, Ehrlich M: Comparison of bisulfite modification of 5-methyldeoxycytidine and deoxycytidine residues. Nucleic Acids Res 1980, 8:4777-4790
9. Herman JG, Graff JR, Myohanen S, Nelkin BD, Baylin SB: Methylationspecific PCR: a novel PCR assay for methylation status of CpG islands. Proc Natl Acad Sci USA 1996, 93:9821-9826
10. Eads CA, Danenberg KD, Kawakami K, Saltz LB, Blake C, Shibata D, Danenberg PV, Laird PW: MethyLight: a high-throughput assay to measure DNA methylation. Nucleic Acids Res 2000, 28:e32
11. Chan MW, Chu ES, To KF, Leung WK: Quantitative detection of methylated SOCS-1, a tumor suppressor gene, by a modified protocol of quantitative real time methylation-specific PCR using SYBR green and its use in early gastric cancer detection. Biotechnol Lett 2004, 26:1289-1293
12. Petersen M, Wengel J: LNA: a versatile tool for therapeutics and genomics. Trends Biotechnol 2003, 21:74-81
13. Vester B, Wengel J: LNA (locked nucleic acid): high-affinity targeting of complementary RNA and DNA. Biochemistry 2004, 43:13233-13241
14. Latorra D, Campbell K, Wolter A, Hurley JM: Enhanced allele-specific PCR discrimination in SNP genotyping using 3′ locked nucleic acid (LNA) primers. Hum Mutat 2003, 22:79-85
15. Ugozzoli LA, Latorra D, Puckett R, Arar K, Hamby K: Real-time genotyping with oligonucleotide probes containing locked nucleic acids. Anal Biochem 2004, 324:143-152
16. Li J, Zhang Z, Bidder M, Funk MC, Nguyen L, Goodfellow PJ, Rader JS: IGSF4 promoter methylation and expression silencing in human cervical cancer. Gynecol Oncol 2005, 96:150-158
17. Li LC, Dahiya R: MethPrimer: designing primers for methylation PCRs. Bioinformatics 2002, 18:1427-1431
18. Trinh BN, Long TI, Laird PW: DNA methylation analysis by MethyLight technology. Methods 2001, 25:456-462
19. Thomassin H, Kress C, Grange T: MethylQuant: a sensitive method for quantifying methylation of specific cytosines within the genome. Nucleic Acids Res 2004, 32:e168
20. Latorra D, Arar K, Hurley JM: Design considerations and effects of LNA in PCR primers. Mol Cell Probes 2003, 17:253-259