Data processing: measuring – calibrating – or testing – Measurement system in a specific environment – Biological or biochemical
Reexamination Certificate
2006-12-28
2010-12-07
Brusca, John S (Department: 1631)
Data processing: measuring, calibrating, or testing
Measurement system in a specific environment
Biological or biochemical
C435S091200
Reexamination Certificate
active
07848892
ABSTRACT:
Disclosed are systems and methods for identifying and quantitating the presence of one or more DNA species in a sample population through PCR amplification. DNA species quantitation includes a determination of a threshold fluorescence value used in the assessment of the PCR amplification reaction. Various embodiments of the present invention incorporate an enhancement function useful in selecting appropriate threshold fluorescence values and facilitate the determination of DNA concentrations by quantitative PCR based methodologies.
REFERENCES:
patent: 6174670 (2001-01-01), Wittwer et al.
patent: 6303305 (2001-10-01), Wittwer et al.
patent: 6783934 (2004-08-01), McMillan et al.
patent: 7188030 (2007-03-01), Ward et al.
patent: 2003/0148332 (2003-08-01), Taylor et al.
Lie et al. Advances in quantitative PCR technology: 5′ nuclease assays Current Opinion in Biotechnology vol. 9, pp. 43-48 (1998).
Woundenberg et al.,Quantitative PCR by Real Time Detection, SPIE vol. 2680, pp. 306-315 (1996).
Lie et al., Advances in Quantitative PCR Technology: 5′ Nuclease Assays,Analytical Biotechnology, pp. 43-48 (1998).
Peccoud et al.,Statistical Estimations of PCR Amplification Rates, pp. 1-17.
Rasmussen et al.,Quantitative PCR by Continuous Fluorescence Monitoring of a Double Strand DNA Specific Binding Dye, Biochemica, No. 2, pp. 8-11, (1998).
Nitsche et al.,Different Real-Time PCR Formats Compared for the Quantitative Detection of Human Cytomegalovirus DNA, Clinical Chemistry, 45:11, (1932-1937, 1999).
Grove,Quantitative Real-Time Polymerase Chain Reaction for the Core Facility Using TaqMan and the Perkin-Elmer/Applied Biosystems Division 7700 Sequence Detector, ABRF, pp. 1-11, (1999).
Roche Molecular Biochemicals Technical Note No. LV 11/2000,Absolute Quantification with External Standards, Roche, pp. 1-20.
Giulietti et al.,An Overview of Real-Time Quantitative PCR: Applications to Quantify Cytokine Gene Expression, Methods, vol. 25, pp. 386-401, Elsevier Science (USA) (2001).
Applied Biosystems,User Bulletin #2, ABI Prism 7700 Sequence Detection System, pp. 1-36, (Dec. 11, 1997).
Yajima et al.,Quantitative Reverse Transcription-PCR Assay of the RNA Component of Human Telomerase Using the TaqMan Fluorogenic Detection System, Clinical Chemistry 44:12, pp. 2441-2445, (1998).
Winer et al.,Development and Validation of Real-Time Quantitative Reverse Transcriptase-Polymerase Chain Reaction for Monitoring Gene Expression in Cardiac Myocytesin Vitro , Analytical Biochemistry, vol. 270, No. 1, pp. 41-49(9),(May 1999).
Freeman et al.,Quantitative RT-PCR: Pitfalls and Potential, BioTechniques, vol. 26, No. 1, 112-125, (1999).
Bustin,Absolute Quantification of mRNA Using Real-Time Reverse Transcription Polymerase Chain Reaction Assays, Journal of Molecular Endocrinology, vol. 25, pp. 169-193, (2000).
Saraswathy et al.,Human Immunodeficiency Virus Type 1 Subtypes Among Malaysian Intravenous Drug Users, Southeast Asian J. Trop Med. Public Health, (Abstract), vol. 31, No. 2, pp. 283-286, (2000).
Rostaing et al.,Changes in Hepatitis C Virus RNA Viremia Concentrations in Long-Term Renal Transplant Patients after Introduction of Mycophenolate Mofetil, Transplantation, vol. 15, No. 69(5), pp. 991-994, (Abstract), (Mar. 15, 2000).
Roche Applied Science Technical Note No. LC 13/2001,Relative Quantification, pp. 1-28.
Morin et al.,Laboratory for Conservation Genetics, Leipzig, Molecular Ecology, vol. 10, pp. 1835-1844, as reproduced at www.rareDNA.com, (2001).
Alexandersen et al.,The Early Pathogenesis of Foot-and-Mouth Disease in Pigs Infected by Contact: A Quantitative Time-Course Study Using TaqMan RT-PCR, Gen Virol, vol. 82, (pt 4), pp. 747-755, (Abstract), (2001).
Levis et al.,Strategy for the Maximization of Clinically Relevant Information from Hepatitis C Virus, RT-PCT Quantification, J. Clin. Virol, vol. 20, No. 3, pp. 163-171, (2001).
Pfaffl,A New Mathematical Model for relative Quantification in Real-Time RT-PCR, Nucleic Acids. Research, vol. 29, No. 9, p. e45 (2001).
Livak et al.,Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2-ΔΔCTMethod, Methods, vol. 25, pp. 402-408, (2001).
Bustin,Quantification of mRNA Using Real-Time Reverse Transcription PCR(RT-PCR):Trends and Problems, Journal of Molecular Endocrinology, vol. 29, pp. 23-39, (2002).
Ginzinger,Gene Quantification Using Real-Time Quantitative PCR: An Emerging Technology Hits the Mainstream, Elsevier Science Inc., Experimental Hematology, vol. 30, pp. 503-512, (2002).
Morrison et al.,Nanoliter High throughput Quantitative PCR, Nucleic Acids Research, vol. 34, No. 18, pp. 1-9 and e 123 (2006).
Applied Biosystems,Data Analysis on the ABI PRISM®7700 Sequence Detection System: Setting Baseline and Thresholds, pp. 1-12, (2002).
“LightCycler Relative Quanitification Software”, Roche Molecular Biochemicals, Version 1.0, Mar. 2001.
“LightCycler Absolute Quanitification with External Standards”, Roche Molecular Biochemicals, Technical Note No. LC 11/2000.
Peccoud et al.,Statistical Estimations of PCR Amplification Rates, pp. 1-17, In Ferre, F. Ed. Gene Quantification Birkhauser, Boston (1998).
Jensen Adrian
Lyon Justin
McLeman Cameron
Tysinger Bryan
Ward Lesley
Applied Biosystems LLC
Brusca John S
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