Data processing: measuring – calibrating – or testing – Measurement system in a specific environment – Biological or biochemical
Reexamination Certificate
2011-08-02
2011-08-02
Lin, Jerry (Department: 1631)
Data processing: measuring, calibrating, or testing
Measurement system in a specific environment
Biological or biochemical
Reexamination Certificate
active
07991562
ABSTRACT:
Systems and methods for determining characteristic transition values such as elbow values in sigmoid or growth-type curves, such as the cycle threshold (Ct) value in PCR amplification curves. A double sigmoid function with parameters determined by a Levenberg-Marquardt (LM) regression process is used to find an approximation to a curve that fits a PCR dataset. Once the parameters have been determined, the curve can be normalized using one or more of the determined parameters. After normalization, the normalized curve is processed to determine the curvature of the curve at some or all points along the curve, e.g., to produce a dataset or plot representing the curvature v. the cycle number. The cycle number at which the maximum curvature occurs corresponds to the Ct value. The Ct value is then returned and may be displayed or otherwise used for further processing.
REFERENCES:
patent: 2007/0143385 (2007-06-01), Kurnik et al.
patent: 2008/0033701 (2008-02-01), Kurnik
patent: WO 97/46707 (1997-12-01), None
patent: WO 97/46707 (1997-12-01), None
patent: WO 97/46712 (1997-12-01), None
patent: WO 97/46712 (1997-12-01), None
patent: WO 97/46714 (1997-12-01), None
Biéche, I. et al., “Quantitation ofMYCGene Expression in Sporadic Breast Tumors With a Real-Time Reverse Transcription-PCR Assay,”Cancer Research, Jun. 15, 1999, vol. 59, pp. 2759-2765.
Gibson, U.E.M. et al., “A Novel Method for Real Time Quantitative RT-PCR,”Genome Research, 1996, vol. 6, pp. 995-1001.
Wang, S-S. et al., “Homogenous Real-Time Detection of Single-Nucleotide Polymorphisms by Strand Displacement Amplification on the BD ProbeTec ET System,”Clinical Chemistry, 2003, vol. 49, No. 10, pp. 1599-1607.
Weusten, J.J.A.M. et al., “Principles of Quantitation of Viral Loads Using Nucleic Acid Sequence-Based Amplification in Combination With Homogeneous Detection Using Molecular Beacons,”Nucleic Acids Research, 2002, vol. 30, No. 6, e26, seven pages.
Kurnik, R.T. et al., “Application of the Mixtures of Experts Algorithm for Signal Processing in a Noninvasive Glucose Monitoring System,”Sensors and Actuators B, 1999, vol. 60, pp. 19-26.
Lourakis, M.I.A., “A Brief Description of the Levenberg-Marquardt Algorithm Implemened by Ievmar,” Feb. 11, 2005, pp. 1-6.
McLauchlan, P., “Robust Observations,” located at <http://gandalf-library.sourceforge.net/tutorial/report
ode131.html>, Mar. 17, 2006, last visited on Jan. 25, 2008, two pages.
Motulsky, H. et al.,Fitting Models to Biological Data Using Linear and Nonlinear Regression, Version 4.0, GraphPad Software, Inc., 2003, pp. 3-11 (Table of Contents Only).
Motulsky, H.,Statistics Guide Statistical Analyses for Laboratory and Clinical Researchers, Version 4.0, GraphPad Software, Inc., Feb. 2005, six pages (Table of Contents Only).
Weisstein, E., “Cubic Spline,” located at <http://mathwolrd.wolfram.com/CubicSpine.html>, 1999, last visited on Jan. 25, 2008, four pages.
Cambridge University Press, “Root Finding and Nonlinear Sets of Equations,” Chapter 9 inNumerical Recipes in C: The Art of scientific Computing, 1988-1992, pp. 347-369.
Tichopad et al., Improving Quantitative Real-Time RT-PCR Reproducibility by Boosting Primer-Linked Amplification Efficiency, Biotechnology Letters 2002, pp. 2053-2056, vol. 24, Kluwer Academic Publishers, The Netherlands.
Kacena et al., Bacterial Growth in Space Flight: Logistic Growth Curve Parameters forExcherichia coliandBacillus subtilis, Applied Microbiology and Biotechnology, 1999, pp. 2- 7, vol. 51, Issue 2, Springer-Verlag.
Bassukas, Use of the Recursion Formula of the Gompertz Survival Function to Evaluate Life-Table Data, Mechanisms of Aging and Development, 1996, pp. 155-163, vol. 89, Elsevier Science, Ireland.
Kurnik Ronald T.
Wang Jianmei
Gray Gerald T.
Kilpatrick Townsend and Stockton LLP
Lin Jerry
Roche Molecular Systems Inc.
LandOfFree
PCR elbow determination using curvature analysis of a double... 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 elbow determination using curvature analysis of a double..., we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and PCR elbow determination using curvature analysis of a double... will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-2742003