PCR method

Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid

Reexamination Certificate

Rate now

  [ 0.00 ] – not rated yet Voters 0   Comments 0

Details

C435S091200

Reexamination Certificate

active

07101663

ABSTRACT:
A method for balancing multiplexed PCR methods is provided. In the method, two or more sequential temporal PCR stages are used to effectively separate two or more PCR reactions in a single tube as an alternative to primer limiting to modulate the relative rate of production of a first amplicon by a first primer set and a second amplicon by a second primer set during the first and second amplification stages. Also provided are rapid RT-PCR methods that find particular use in intraoperative diagnoses and prognoses, for instance in diagnosing malignant esophageal adenocarcenoma by determining expression levels of carcinoembryonic antigen (CEA) in sentinel lymph nodes.

REFERENCES:
patent: 5314809 (1994-05-01), Erlich et al.
patent: 5814491 (1998-09-01), Vijg et al.
patent: 5837442 (1998-11-01), Tsang
patent: 5843761 (1998-12-01), Barnett et al.
patent: 5882856 (1999-03-01), Shuber
patent: 5965710 (1999-10-01), Bodmer et al.
patent: 5985552 (1999-11-01), Howell et al.
patent: 6033854 (2000-03-01), Kurnit et al.
patent: 6057105 (2000-05-01), Hoon et al.
patent: 6168948 (2001-01-01), Anderson et al.
patent: 6355422 (2002-03-01), Liu et al.
patent: WO 98/08970 (1998-03-01), None
patent: WO 99/13104 (1999-03-01), None
Boehringer Mannheim (PCR Applications Manual, Boehringer Mannheim Gmbh, Germany, 1995.
Durmaz et al. Journal of Microbiological Methods. vol. 29, pp. 69-75, 1997.
Takano et al. The Journal of Clinical endocrinology and Metabolism, vol. 84, No. 3, pp. 951-955, 1999.
Gerhard et al. Journal of Clinical oncology, vol. 12, No. 4, pp. 725-729, Apr. 1994.
Brown et al. Surgery, vol. 117, No. 1, pp. 96-101, 1995.
Nakanishi et al., Int. J. Caner 89, 411-417 (2000).
GenBank Accession No. XM—012777 (SEQ ID No.: 1).
TaqMan One-Step RT-PCR Master Mix Reagents Kit, Protocol,PE Biosystems1999.
Raja, S., Luketich, J.D., Ruff, D.W. and Godfrey, T.E., “Increased Sensitivity of One-Tube, Quantitative RT-PCR,”Bio Techniquesvol. 29, No. 4:702-706 (Oct. 2000).
ABI PRISM 7700 Sequence Detection System, User Bulletin #2, “Relative Quantitation of Gene Expression,”Applied Biosystems(1997/updated Oct. 2001).
ABI PRISM 7700 Sequence Detection System, User Bulletin #5, “Multiplex PCR with TaqMan VIC Probes,”Applied Biosystems(1998/updated Jan. 2001).
DeLong, E.R., DeLong, D.M. and Clarke-Pearson, D.L., “Comparing the areas under two or more correlated receiver operating characteristic curves: a nonparametric approach,”Biometrics44(3):837-845, 1988.
Gibson, U.E., Heid, C.A. and Williams, P.M. A novel method for real time quantitative RT-PCR,Genome Res, 6:995-1001, 1996.
Heid, C.A., Stevens, J., Livak, K.J. and Williams, P.M., “Real time quantitative PCR,”Genome Res, 6:986-994, 1996.
Davidson, A.C. and Hinkley, D.V., “Bootstrap Methods and Their Application,” Cambridge, United Kingdom:Cambridge University Press, 1997.
Battaglia, M., Pedrazzoli, P., Palermo, B., Lanza, A., Bertonlini, F., Gibelli, N., Da Prada, G.A., Zambelli, A., et al. “Epithelial tumour cell detection and the unsolved problems of nested RT-PCR: a new sensitive one step method without false positive results,”Bone Marrow Transplant22:693-698, 1998.
Collins, C., Rommens, J.M., Kowbel, D., Godfrey, T., Tanner, M., Hwang, S-I., Polikoff, D., Nonet, G., et al. Positional cloning of ZNF217 and NABC1: Genes amplified at 20q13.2 and overexpressed in breast carcinoma.Proc. Natl. Acad Sci. USA95:8703-8708, 1998.
Fitzgerald RC, Triadafilopoulos G. “Recent Developments in the Molecular Characterization of Barrett's Esophagus.”Dig. Dis. 16:63-80, 1998.
Liefers, G-J., Cleton-Jansen, A.M., Corneli, J.H., et al., R.A. “Micrometastases and survival in stage II colorectal cancer” [see comments].N. Engl. J. Med., 339: 223-228, 1998.
Shivers, S.C., Wang, X., Li, W., Joseph, E., Messina, J., Glass, L.F., DeConti, R., Cruse, C.W., Berman, C., Fenske, N.A., Lyman, G.H. and Reintgen, D.S., “Molecular Staging of Malignant Melanoma: Correlation with Clinical Outcome,”JAMA, 280: 1410-1415, 1998.
Bostick, P.J., Morton, D.L., Turner, R.R., Huynh, K.T., Wang, H.J., Elashoff, R., Essner, R. and Hoon, D.S., “Prognostic Significance of Occult Metastases Detected by Sentinel Lymphadenectomy and Reverse Transcriptase-Polymerase Chain Reaction in Early-Stage Melanoma Patients,”J. Clin. Oncol., 17: 3238-3244, 1999.
Godfrey, T.E., Kim, S.-H., Chavira, M., Ruff, D.W., Warren, R.S., Gray, J.W. and Jensen, R.H. “Quantitative mRNA expression analysis from formalin-fixed, paraffin-embedded tissues using 5′ nuclease quantitative RT-PCR,”J. Mol. Diagn., 2:84-91, 2000.
Heagerty, P.J., Lumley, T. and Pepe, M.S., “Time-Dependent ROC Curves for Censored Survival Data and a Diagnostic Marker,”Biometrics, 56(2):337-845, 2000.
Tassone, F., Hagerman, R.J., Taylor A.K., Gene, L.W., Godfrey, T.E., and Hagerman, P.J., “Elevated Levels of FMR1 mRNA in carrier males: a new mechanism of involvement in the fragile-X syndrome,”Am. J. Hum. Genet., 66:6-15, 2000.
Weiser MR, Montgomery LL, Susnik B, Tan LK, Borgen PI, Cody HS. “Is routine intraoperative frozen-section examination of sentinel lymph nodes in breast cancer worthwhile?”Ann Surg Oncol.; 7:651-655, 2000.
Godfrey TE. Raja S. Finkelstein SD, Kelly LA, Gooding W, Luketich JD. “Quantitative RT-PCR Predicts Disease Recurrence in lymph Node-Negative Esophagus Cancer Patients.”Proceedings from the 2001 Annual Meeting of the American Association of Cancer Researchers42. Mar. 1, 2001.
Miyake, Y., Fujiwara, Y., Ohue, M., Yamamoto, H., Suita, Y., Tomita, N., Sekimoto, M., Shiozaki, H. and Monden, M. “Quantification of micrometastases in lymph nodes of colorectal cancer using real-time fluorescence polymerase chain reaction,”Int. J. Oncol. 16(2):289-293 2000.
Bercovich D et al. Quantitative ratio of primer pairs and annealing temperature affecting PCR products in duplex amplification. Biotechniques. Oct. 1999;27(4):762-4, 766-8, 770.
Dessau RB et al. Coronaviruses in spinal fluid of patients with acute monosymptomatic optic neuritis. Acta Neurol Scand. Aug. 1999;100(2):88-91.
Harris E at al. Typing of dengue viruses in clinical specimens and mosquitoes by single-tube multiplex reverse transcriptase PCR. J Clin Microbiol. Sep. 1998;36(9):2634-9.
Oshima A, et al. Cloning, sequencing, and expression of cDNA for human beta-glucuronidase, Proc Natl Acad Sci U S A. Feb. 1987;84(3):685-9.
Viehmann S et al. Multiplex PCR—a rapid screening method for detection of gene rearrangements in childhood acute lymphoblastic leukemia. Ann Hematol. Apr. 1999;78(4):157-62.
Wu DY et al. The effect of temperature and oligonucleotide primer length on the specificity and efficiency of amplification . . . DNA Cell Biol. Apr. 1991;10(3):233-8.
Ylitalo N et al. Detection of genital human papillomavirus by single-tube nested PCR and type-specific oligonucleotide hybridization. J Clin Microbiol. Jul. 1995;33(7):1822-8.

LandOfFree

Say what you really think

Search LandOfFree.com for the USA inventors and patents. Rate them and share your experience with other people.

Rating

PCR method does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with PCR method, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and PCR method will most certainly appreciate the feedback.

Rate now

     

Profile ID: LFUS-PAI-O-3565452

  Search
All data on this website is collected from public sources. Our data reflects the most accurate information available at the time of publication.