WO2005098040A8 - Ligation and amplification reactions for determining target molecules - Google Patents

Ligation and amplification reactions for determining target molecules

Info

Publication number
WO2005098040A8
WO2005098040A8 PCT/US2005/010184 US2005010184W WO2005098040A8 WO 2005098040 A8 WO2005098040 A8 WO 2005098040A8 US 2005010184 W US2005010184 W US 2005010184W WO 2005098040 A8 WO2005098040 A8 WO 2005098040A8
Authority
WO
WIPO (PCT)
Prior art keywords
present
ligation
encoding
reaction
target molecules
Prior art date
Application number
PCT/US2005/010184
Other languages
French (fr)
Other versions
WO2005098040A3 (en
WO2005098040A2 (en
Inventor
Mark R Andersen
Kenneth J Livak
Adam Broomer
Caifu Chen
Original Assignee
Applera Corp
Mark R Andersen
Kenneth J Livak
Adam Broomer
Caifu Chen
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, Mark R Andersen, Kenneth J Livak, Adam Broomer, Caifu Chen filed Critical Applera Corp
Priority to DE602005014453T priority Critical patent/DE602005014453D1/en
Priority to EP05760637A priority patent/EP1727913B8/en
Priority to JP2007505241A priority patent/JP2007530051A/en
Priority to AT05760637T priority patent/ATE431433T1/en
Publication of WO2005098040A2 publication Critical patent/WO2005098040A2/en
Publication of WO2005098040A8 publication Critical patent/WO2005098040A8/en
Publication of WO2005098040A3 publication Critical patent/WO2005098040A3/en

Links

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
    • C12Q1/6869—Methods for sequencing
    • 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

Abstract

The present invention is directed to methods, reagents, and kits for detecting the presence or absence of (or quantifying) target polynucleotide sequences and proteins in at least one sample using encoding and decoding reactions. When a particular target polynucleotide is present in a sample for example, a reaction product is formed in the encoding reaction that includes addressable primer portions. At least one labeling probe and at least one address primer can be employed in the decoding amplification reaction thereby providing a detectable signal value depending upon whether a sequence is present or absent. In some embodiments, the encoding comprises a ligation reaction with linker probes, and single nucleotide polymorphisms (SNPs) are analyzed.
PCT/US2005/010184 2004-03-24 2005-03-24 Ligation and amplification reactions for determining target molecules WO2005098040A2 (en)

Priority Applications (4)

Application Number Priority Date Filing Date Title
DE602005014453T DE602005014453D1 (en) 2004-03-24 2005-03-24 LIGATION AND AMPLIFICATION REACTIONS FOR DETERMINING TARGET MOLECULES
EP05760637A EP1727913B8 (en) 2004-03-24 2005-03-24 Ligation and amplification reactions for determining target molecules
JP2007505241A JP2007530051A (en) 2004-03-24 2005-03-24 Ligation and amplification reactions to determine target molecules
AT05760637T ATE431433T1 (en) 2004-03-24 2005-03-24 LIGATION AND AMPLIFICATION REACTIONS TO DETERMINE TARGET MOLECULES

Applications Claiming Priority (10)

Application Number Priority Date Filing Date Title
US55622404P 2004-03-24 2004-03-24
US55616204P 2004-03-24 2004-03-24
US55615704P 2004-03-24 2004-03-24
US55616304P 2004-03-24 2004-03-24
US60/556,157 2004-03-24
US60/556,224 2004-03-24
US60/556,163 2004-03-24
US60/556,162 2004-03-24
US63068104P 2004-11-24 2004-11-24
US60/630,681 2004-11-24

Publications (3)

Publication Number Publication Date
WO2005098040A2 WO2005098040A2 (en) 2005-10-20
WO2005098040A8 true WO2005098040A8 (en) 2005-12-01
WO2005098040A3 WO2005098040A3 (en) 2006-03-23

Family

ID=35064420

Family Applications (2)

Application Number Title Priority Date Filing Date
PCT/US2005/009882 WO2005094532A2 (en) 2004-03-24 2005-03-24 Encoding and decoding reactions for determining target polynucleotides
PCT/US2005/010184 WO2005098040A2 (en) 2004-03-24 2005-03-24 Ligation and amplification reactions for determining target molecules

Family Applications Before (1)

Application Number Title Priority Date Filing Date
PCT/US2005/009882 WO2005094532A2 (en) 2004-03-24 2005-03-24 Encoding and decoding reactions for determining target polynucleotides

Country Status (6)

Country Link
US (2) US7601821B2 (en)
EP (3) EP1730312B1 (en)
JP (2) JP2007530048A (en)
AT (2) ATE399884T1 (en)
DE (2) DE602005007874D1 (en)
WO (2) WO2005094532A2 (en)

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CN102203287B (en) * 2008-08-26 2017-09-19 弗卢迪格姆公司 Increase the assay method of sample and/or target flux
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US9353406B2 (en) * 2010-10-22 2016-05-31 Fluidigm Corporation Universal probe assay methods
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US10221447B2 (en) 2014-04-01 2019-03-05 Cornell University Detection of DNA methylation using combined nuclease ligation reactions
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Also Published As

Publication number Publication date
EP1727913B1 (en) 2009-05-13
US20050260640A1 (en) 2005-11-24
WO2005098040A3 (en) 2006-03-23
EP1730312A2 (en) 2006-12-13
EP1727913B8 (en) 2009-08-19
ATE399884T1 (en) 2008-07-15
US7604937B2 (en) 2009-10-20
DE602005014453D1 (en) 2009-06-25
WO2005098040A2 (en) 2005-10-20
WO2005094532A3 (en) 2005-12-22
EP1730312B1 (en) 2008-07-02
EP2161346A1 (en) 2010-03-10
US20050272071A1 (en) 2005-12-08
EP1727913A2 (en) 2006-12-06
DE602005007874D1 (en) 2008-08-14
EP2161346B1 (en) 2013-06-19
US7601821B2 (en) 2009-10-13
JP2007530048A (en) 2007-11-01
WO2005094532A2 (en) 2005-10-13
ATE431433T1 (en) 2009-05-15
JP2007530051A (en) 2007-11-01

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