WO2008070328A3 - Systems and methods for baselining and real-time pcr data analysis - Google Patents

Systems and methods for baselining and real-time pcr data analysis Download PDF

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Publication number
WO2008070328A3
WO2008070328A3 PCT/US2007/082458 US2007082458W WO2008070328A3 WO 2008070328 A3 WO2008070328 A3 WO 2008070328A3 US 2007082458 W US2007082458 W US 2007082458W WO 2008070328 A3 WO2008070328 A3 WO 2008070328A3
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WO
WIPO (PCT)
Prior art keywords
analysis
time series
systems
noise
difference time
Prior art date
Application number
PCT/US2007/082458
Other languages
French (fr)
Other versions
WO2008070328A2 (en
Inventor
Harrison Leong
Original Assignee
Applera Corp
Harrison Leong
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Applera Corp, Harrison Leong filed Critical Applera Corp
Publication of WO2008070328A2 publication Critical patent/WO2008070328A2/en
Publication of WO2008070328A3 publication Critical patent/WO2008070328A3/en

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6851—Quantitative amplification
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING OR COUNTING
    • G06F—ELECTRIC DIGITAL DATA PROCESSING
    • G06F2218/00—Aspects of pattern recognition specially adapted for signal processing
    • G06F2218/08—Feature extraction

Abstract

Systems and methods according to embodiments of the present teachings incorporate a set of possible signal transforms that can be used to examine the baseline region of an amplification profile for noise. In embodiments, a difference time series analysis can be performed to determine deviations of detected fluorescent or other signal intensity in the early cycles of a PCR or other reaction over a median difference time series magnitude. In embodiments, difference time series analysis or other detection techniques can be performed over different hop sizes producing a multi-resolution analysis. In embodiments, the amplification profile can be transmitted to a set of noise detectors whose individual results or decisions are polled or weighted to determine the presence of noise in the baseline or other region. In embodiments, a second derivative analysis on the baseline region can be performed.
PCT/US2007/082458 2006-10-24 2007-10-24 Systems and methods for baselining and real-time pcr data analysis WO2008070328A2 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US86272906P 2006-10-24 2006-10-24
US60/862,729 2006-10-24

Publications (2)

Publication Number Publication Date
WO2008070328A2 WO2008070328A2 (en) 2008-06-12
WO2008070328A3 true WO2008070328A3 (en) 2008-11-13

Family

ID=39492934

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2007/082458 WO2008070328A2 (en) 2006-10-24 2007-10-24 Systems and methods for baselining and real-time pcr data analysis

Country Status (1)

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WO (1) WO2008070328A2 (en)

Families Citing this family (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9607128B2 (en) * 2013-12-30 2017-03-28 Roche Molecular Systems, Inc. Detection and correction of jumps in real-time PCR signals
US20190239753A1 (en) * 2018-02-06 2019-08-08 Kendall Research Systems, LLC Interleaved photon detection array for optically measuring a physical sample
US20230341832A1 (en) * 2022-04-26 2023-10-26 Hitachi, Ltd. Versatile anomaly detection system for industrial systems

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20020031768A1 (en) * 2000-05-01 2002-03-14 Cepheid Method for quantitative analysis of a nucleic acid amplification reaction
US20030104438A1 (en) * 2001-08-31 2003-06-05 Eyre David J. Real-time gene quantification with internal standards
US20030148302A1 (en) * 2002-02-07 2003-08-07 David Woo Automatic threshold setting and baseline determination for real-time PCR

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20020031768A1 (en) * 2000-05-01 2002-03-14 Cepheid Method for quantitative analysis of a nucleic acid amplification reaction
US20030104438A1 (en) * 2001-08-31 2003-06-05 Eyre David J. Real-time gene quantification with internal standards
US20030148302A1 (en) * 2002-02-07 2003-08-07 David Woo Automatic threshold setting and baseline determination for real-time PCR

Also Published As

Publication number Publication date
WO2008070328A2 (en) 2008-06-12

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