WO2011131490A3 - CURVE PROCESSOR ALGORITHM FOR THE QUALITY CONTROL OF (RT-)qPCR CURVES - Google Patents

CURVE PROCESSOR ALGORITHM FOR THE QUALITY CONTROL OF (RT-)qPCR CURVES Download PDF

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Publication number
WO2011131490A3
WO2011131490A3 PCT/EP2011/055406 EP2011055406W WO2011131490A3 WO 2011131490 A3 WO2011131490 A3 WO 2011131490A3 EP 2011055406 W EP2011055406 W EP 2011055406W WO 2011131490 A3 WO2011131490 A3 WO 2011131490A3
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WO
WIPO (PCT)
Prior art keywords
sample
fluorescence intensity
quality control
qpcr
phase
Prior art date
Application number
PCT/EP2011/055406
Other languages
French (fr)
Other versions
WO2011131490A2 (en
Inventor
Mareike Dartmann
Karsten Weber
Gabriela Altmann
Inke Sabine Feder
Tanja Ropers
Claudia Roth
Original Assignee
Siemens Healthcare Diagnostics Inc.
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 Siemens Healthcare Diagnostics Inc. filed Critical Siemens Healthcare Diagnostics Inc.
Priority to EP11714518A priority Critical patent/EP2561456A2/en
Priority to US13/642,358 priority patent/US20130189702A1/en
Publication of WO2011131490A2 publication Critical patent/WO2011131490A2/en
Publication of WO2011131490A3 publication Critical patent/WO2011131490A3/en

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    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/20—Polymerase chain reaction [PCR]; Primer or probe design; Probe optimisation
    • 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
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/10—Signal processing, e.g. from mass spectrometry [MS] or from PCR
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B99/00—Subject matter not provided for in other groups of this subclass

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  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Medical Informatics (AREA)
  • Chemical & Material Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Health & Medical Sciences (AREA)
  • Biotechnology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Evolutionary Biology (AREA)
  • Theoretical Computer Science (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biophysics (AREA)
  • Organic Chemistry (AREA)
  • Molecular Biology (AREA)
  • Artificial Intelligence (AREA)
  • Wood Science & Technology (AREA)
  • Genetics & Genomics (AREA)
  • Bioethics (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Data Mining & Analysis (AREA)
  • Databases & Information Systems (AREA)
  • Epidemiology (AREA)
  • Evolutionary Computation (AREA)
  • Public Health (AREA)
  • Software Systems (AREA)
  • Zoology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Microbiology (AREA)
  • Immunology (AREA)
  • Signal Processing (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

The invention is in the field of analytical technology and relates to an improved procedure for determining the concentration or activity of an analyte in a sample. Specifically the invention provides an automated algorithm for the quality control of (RT-)qPCR reactions. Plotting the fluorescence intensity of a reporter dye divided by the fluorescence intensity of a passive reference dye against the cycle number leads to a so-called sigmoid function which is characterized by a background phase, an exponential growth phase and a plateau phase. Since the fluorescence intensity as a function of cycles relates to the initial number of template molecules in the sample, qPCR curves can be used to quantify the amount of RNA or DNA fragments in the sample by determination of a so-called Cq value.
PCT/EP2011/055406 2010-04-21 2011-04-07 CURVE PROCESSOR ALGORITHM FOR THE QUALITY CONTROL OF (RT-)qPCR CURVES WO2011131490A2 (en)

Priority Applications (2)

Application Number Priority Date Filing Date Title
EP11714518A EP2561456A2 (en) 2010-04-21 2011-04-07 CURVE PROCESSOR ALGORITHM FOR THE QUALITY CONTROL OF (RT-)qPCR CURVES
US13/642,358 US20130189702A1 (en) 2010-04-21 2011-04-07 Curve Processor Algorithm for the Quality Control of (RT-) qPCR Curves

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
EP10160573 2010-04-21
EP10160573.1 2010-04-21

Publications (2)

Publication Number Publication Date
WO2011131490A2 WO2011131490A2 (en) 2011-10-27
WO2011131490A3 true WO2011131490A3 (en) 2012-01-05

Family

ID=44625828

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/EP2011/055406 WO2011131490A2 (en) 2010-04-21 2011-04-07 CURVE PROCESSOR ALGORITHM FOR THE QUALITY CONTROL OF (RT-)qPCR CURVES

Country Status (3)

Country Link
US (1) US20130189702A1 (en)
EP (1) EP2561456A2 (en)
WO (1) WO2011131490A2 (en)

Families Citing this family (10)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US10176293B2 (en) 2012-10-02 2019-01-08 Roche Molecular Systems, Inc. Universal method to determine real-time PCR cycle threshold values
CN104870982B (en) * 2012-12-20 2019-02-15 霍夫曼-拉罗奇有限公司 Method for assessing medical measurement curve
CN104854457B (en) * 2012-12-20 2016-09-14 霍夫曼-拉罗奇有限公司 Method for analysing body fluid sample
US11320164B2 (en) 2019-11-01 2022-05-03 Roth Technologies, LLC Continuous monitoring for early failure detection in climate control systems
US11248817B2 (en) * 2019-11-01 2022-02-15 Roth Technologies, LLC Continuous monitoring system for early failure detection in HVAC systems
DE102020202361A1 (en) * 2020-02-25 2021-08-26 Robert Bosch Gesellschaft mit beschränkter Haftung Method and device for evaluating a qPCR curve
CN111593098B (en) * 2020-05-29 2021-09-21 成都瀚辰光翼科技有限责任公司 QPCR real-time fluorescence data quantitative analysis method
CN112582026B (en) * 2020-12-07 2022-07-12 上海科源电子科技有限公司 High-robustness six-parameter global fitting method for qPCR initial concentration detection based on efficiency
CN114058683B (en) * 2021-11-17 2022-09-30 杭州优思达生物技术有限公司 Method for judging nucleic acid amplification result
WO2023177760A1 (en) * 2022-03-15 2023-09-21 Life Technologies Corporation Qpcr curve detection

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0686699B1 (en) * 1994-06-08 2004-12-29 Applera Corporation Apparatus and method for determining the concentration of the target nucleic acid in PCR
WO2007113622A2 (en) * 2006-04-04 2007-10-11 Labonnet Ltd. Assessment of reaction kinetics compatibility between polymerase chain reactions
WO2010025985A1 (en) * 2008-09-02 2010-03-11 Siemens Healthcare Diagnostics Inc. Method for the quality assessment of nucleic acid amplification reactions

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0686699B1 (en) * 1994-06-08 2004-12-29 Applera Corporation Apparatus and method for determining the concentration of the target nucleic acid in PCR
WO2007113622A2 (en) * 2006-04-04 2007-10-11 Labonnet Ltd. Assessment of reaction kinetics compatibility between polymerase chain reactions
WO2010025985A1 (en) * 2008-09-02 2010-03-11 Siemens Healthcare Diagnostics Inc. Method for the quality assessment of nucleic acid amplification reactions

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
ZHAO SHENG ET AL: "Comprehensive algorithm for quantitative real-time polymerase chain reaction", JOURNAL OF COMPUTATIONAL BIOLOGY, MARY ANN LIEBERT INC, US, vol. 12, no. 8, 1 October 2005 (2005-10-01), pages 1047 - 1064, XP002380886, ISSN: 1066-5277, DOI: 10.1089/CMB.2005.12.1047 *

Also Published As

Publication number Publication date
WO2011131490A2 (en) 2011-10-27
US20130189702A1 (en) 2013-07-25
EP2561456A2 (en) 2013-02-27

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