WO2004074503A3 - Nucleic acid sequencing methods, kits and reagents - Google Patents

Nucleic acid sequencing methods, kits and reagents Download PDF

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Publication number
WO2004074503A3
WO2004074503A3 PCT/GB2004/000709 GB2004000709W WO2004074503A3 WO 2004074503 A3 WO2004074503 A3 WO 2004074503A3 GB 2004000709 W GB2004000709 W GB 2004000709W WO 2004074503 A3 WO2004074503 A3 WO 2004074503A3
Authority
WO
WIPO (PCT)
Prior art keywords
nucleic acid
kits
reagents
sequencing methods
acid sequencing
Prior art date
Legal status (The legal status 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 status listed.)
Ceased
Application number
PCT/GB2004/000709
Other languages
French (fr)
Other versions
WO2004074503A2 (en
Inventor
Mark J Hoser
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Individual
Original Assignee
Individual
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
Priority claimed from GB0303964A external-priority patent/GB0303964D0/en
Priority claimed from GB0305525A external-priority patent/GB0305525D0/en
Priority claimed from GB0306119A external-priority patent/GB0306119D0/en
Priority claimed from GB0307515A external-priority patent/GB0307515D0/en
Priority claimed from GB0310294A external-priority patent/GB0310294D0/en
Priority claimed from GB0313689A external-priority patent/GB0313689D0/en
Priority claimed from GB0320157A external-priority patent/GB0320157D0/en
Priority claimed from GB0322245A external-priority patent/GB0322245D0/en
Priority claimed from GB0325657A external-priority patent/GB0325657D0/en
Priority claimed from GB0329053A external-priority patent/GB0329053D0/en
Priority to EP04713125A priority Critical patent/EP1594987B1/en
Priority to DE602004021235T priority patent/DE602004021235D1/en
Application filed by Individual filed Critical Individual
Priority to US10/546,268 priority patent/US8399196B2/en
Priority to AT04713125T priority patent/ATE432365T1/en
Publication of WO2004074503A2 publication Critical patent/WO2004074503A2/en
Publication of WO2004074503A3 publication Critical patent/WO2004074503A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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Classifications

    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B82—NANOTECHNOLOGY
    • B82Y—SPECIFIC USES OR APPLICATIONS OF NANOSTRUCTURES; MEASUREMENT OR ANALYSIS OF NANOSTRUCTURES; MANUFACTURE OR TREATMENT OF NANOSTRUCTURES
    • B82Y5/00—Nanobiotechnology or nanomedicine, e.g. protein engineering or drug delivery
    • 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
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B82—NANOTECHNOLOGY
    • B82Y—SPECIFIC USES OR APPLICATIONS OF NANOSTRUCTURES; MEASUREMENT OR ANALYSIS OF NANOSTRUCTURES; MANUFACTURE OR TREATMENT OF NANOSTRUCTURES
    • B82Y10/00—Nanotechnology for information processing, storage or transmission, e.g. quantum computing or single electron logic
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07H—SUGARS; DERIVATIVES THEREOF; NUCLEOSIDES; NUCLEOTIDES; NUCLEIC ACIDS
    • C07H19/00—Compounds containing a hetero ring sharing one ring hetero atom with a saccharide radical; Nucleosides; Mononucleotides; Anhydro-derivatives thereof
    • 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
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/156—Polymorphic or mutational markers

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  • Chemical & Material Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Nanotechnology (AREA)
  • Health & Medical Sciences (AREA)
  • Molecular Biology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • General Health & Medical Sciences (AREA)
  • Biotechnology (AREA)
  • Zoology (AREA)
  • Genetics & Genomics (AREA)
  • Physics & Mathematics (AREA)
  • Wood Science & Technology (AREA)
  • Biophysics (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Microbiology (AREA)
  • Medical Informatics (AREA)
  • Medicinal Chemistry (AREA)
  • Pharmacology & Pharmacy (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Mathematical Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Heterocyclic Carbon Compounds Containing A Hetero Ring Having Oxygen Or Sulfur (AREA)

Abstract

The present invention relates to nucleic acid sequencing methods, kits and reagents, and more particularly to methods of sequencing nucleic acid which employ a nucleic acid processing enzyme and one or more nucleotide analogues that are capable of binding to the active site of the enzyme and to complementary bases in the nucleic acid molecule being sequenced, but which are non-incorporable or inhibitors of the nucleic acid processing enzyme. In further aspects, the present invention relates to conjugates which comprise a deoxyribonucleotide triphosphates (DNTPs) or an analogue thereof linked to an intercalating dye.
PCT/GB2004/000709 2003-02-21 2004-02-20 Nucleic acid sequencing methods, kits and reagents Ceased WO2004074503A2 (en)

Priority Applications (4)

Application Number Priority Date Filing Date Title
DE602004021235T DE602004021235D1 (en) 2003-02-21 2004-02-20 METHOD, KITS AND REAGENTS FOR NUCLEIC ACID SEQUENCING
US10/546,268 US8399196B2 (en) 2003-02-21 2004-02-20 Nucleic acid sequencing methods, kits and reagents
EP04713125A EP1594987B1 (en) 2003-02-21 2004-02-20 Nucleic acid sequencing methods, kits and reagents
AT04713125T ATE432365T1 (en) 2003-02-21 2004-02-20 METHODS, KITS AND REAGENTS FOR NUCLEIC ACID SEQUENCING

Applications Claiming Priority (20)

Application Number Priority Date Filing Date Title
GB0303964A GB0303964D0 (en) 2003-02-21 2003-02-21 FRET based sequencing technology
GB0303964.1 2003-02-21
GB0305525.8 2003-03-11
GB0305525A GB0305525D0 (en) 2003-03-11 2003-03-11 Inhibitor based sequencing technology
GB0306119.9 2003-03-18
GB0306119A GB0306119D0 (en) 2003-03-18 2003-03-18 Non-incorporable label determined sequencing
GB0307515A GB0307515D0 (en) 2003-04-01 2003-04-01 Non-incorporable label determined sequencing process
GB0307515.7 2003-04-01
GB0310294A GB0310294D0 (en) 2003-05-03 2003-05-03 Non-incorporable label determined sequencing-2
GB0310294.4 2003-05-03
GB0313689.2 2003-06-13
GB0313689A GB0313689D0 (en) 2003-06-13 2003-06-13 Sequencing method-j
GB0320157A GB0320157D0 (en) 2003-08-28 2003-08-28 Sequencing method-M
GB0320157.1 2003-08-28
GB0322245.2 2003-09-23
GB0322245A GB0322245D0 (en) 2003-09-23 2003-09-23 Nucleic acid sequencing method
GB0325657.5 2003-11-04
GB0325657A GB0325657D0 (en) 2003-11-04 2003-11-04 Nucleic acid sequencing method
GB0329053.3 2003-12-16
GB0329053A GB0329053D0 (en) 2003-12-16 2003-12-16 Dye conjugate based sequencing

Publications (2)

Publication Number Publication Date
WO2004074503A2 WO2004074503A2 (en) 2004-09-02
WO2004074503A3 true WO2004074503A3 (en) 2005-03-24

Family

ID=32913446

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/GB2004/000709 Ceased WO2004074503A2 (en) 2003-02-21 2004-02-20 Nucleic acid sequencing methods, kits and reagents

Country Status (5)

Country Link
US (1) US8399196B2 (en)
EP (1) EP1594987B1 (en)
AT (1) ATE432365T1 (en)
DE (1) DE602004021235D1 (en)
WO (1) WO2004074503A2 (en)

Cited By (3)

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US7297518B2 (en) 2001-03-12 2007-11-20 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences by asynchronous base extension
US7491498B2 (en) 2003-11-12 2009-02-17 Helicos Biosciences Corporation Short cycle methods for sequencing polynucleotides
US9540689B2 (en) 1998-05-01 2017-01-10 Life Technologies Corporation Method of determining the nucleotide sequence of oligonucleotides and DNA molecules

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US6780591B2 (en) 1998-05-01 2004-08-24 Arizona Board Of Regents Method of determining the nucleotide sequence of oligonucleotides and DNA molecules
US6818395B1 (en) 1999-06-28 2004-11-16 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences
US7501245B2 (en) 1999-06-28 2009-03-10 Helicos Biosciences Corp. Methods and apparatuses for analyzing polynucleotide sequences
US6982146B1 (en) 1999-08-30 2006-01-03 The United States Of America As Represented By The Department Of Health And Human Services High speed parallel molecular nucleic acid sequencing
GB0324456D0 (en) * 2003-10-20 2003-11-19 Isis Innovation Parallel DNA sequencing methods
WO2005080605A2 (en) 2004-02-19 2005-09-01 Helicos Biosciences Corporation Methods and kits for analyzing polynucleotide sequences
US7476734B2 (en) 2005-12-06 2009-01-13 Helicos Biosciences Corporation Nucleotide analogs
DE602005027700D1 (en) 2004-05-25 2011-06-09 Helicos Biosciences Corp PROCESS FOR NUCLEIC ACID IMMOBILIZATION
US7220549B2 (en) 2004-12-30 2007-05-22 Helicos Biosciences Corporation Stabilizing a nucleic acid for nucleic acid sequencing
US7482120B2 (en) * 2005-01-28 2009-01-27 Helicos Biosciences Corporation Methods and compositions for improving fidelity in a nucleic acid synthesis reaction
US7666593B2 (en) 2005-08-26 2010-02-23 Helicos Biosciences Corporation Single molecule sequencing of captured nucleic acids
EP1960550B1 (en) 2005-12-12 2010-09-15 The Government of the United States of America as represented by The Secretary of the Department of Health and Human Services Probe for nucleic acid sequencing and methods of use
US8703734B2 (en) 2005-12-12 2014-04-22 The United States Of America, As Represented By The Secretary, Department Of Health And Human Services Nanoprobes for detection or modification of molecules
US20080145844A1 (en) * 2006-01-25 2008-06-19 Evrogen Joint Stock Company Methods of cDNA preparation
US20070202521A1 (en) * 2006-02-14 2007-08-30 Applera Corporation Single Molecule DNA Sequencing Using Fret Based Dynamic Labeling
US7397546B2 (en) 2006-03-08 2008-07-08 Helicos Biosciences Corporation Systems and methods for reducing detected intensity non-uniformity in a laser beam
CA2622649C (en) 2007-03-09 2018-04-24 Riken Nucleic acid amplification method using primer exhibiting exciton effect
WO2008111485A1 (en) * 2007-03-09 2008-09-18 Riken Compound having structure derived from mononucleoside or mononucleotide, nucleic acid, labeling substance, and method and kit for detection of nucleic acid
WO2009102470A2 (en) * 2008-02-12 2009-08-20 Pacific Biosciences Of California, Inc. Compositions and methods for use in analytical reactions
WO2009124085A1 (en) * 2008-04-01 2009-10-08 University Of Washington Improvement of sequence data by reduction of noise due to carry-over primer
WO2010002939A2 (en) * 2008-06-30 2010-01-07 Life Technologies Corporation Methods for real time single molecule sequencing
US20100036110A1 (en) * 2008-08-08 2010-02-11 Xiaoliang Sunney Xie Methods and compositions for continuous single-molecule nucleic acid sequencing by synthesis with fluorogenic nucleotides
US20100227327A1 (en) * 2008-08-08 2010-09-09 Xiaoliang Sunney Xie Methods and compositions for continuous single-molecule nucleic acid sequencing by synthesis with fluorogenic nucleotides
GB0901593D0 (en) 2009-01-30 2009-03-11 Touchlight Genetics Ltd Production of closed linear DNA
CA2760155A1 (en) 2009-04-27 2010-11-11 Pacific Biosciences Of California, Inc. Real-time sequencing methods and systems
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GB201013153D0 (en) 2010-08-04 2010-09-22 Touchlight Genetics Ltd Primer for production of closed linear DNA
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KR20150119353A (en) * 2013-02-20 2015-10-23 이브 바이오메디컬, 인크. Methods and compositions for nanostructure-based nucleic acid sequencing
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US11248254B2 (en) 2016-12-30 2022-02-15 Omniome, Inc. Method and system employing distinguishable polymerases for detecting ternary complexes and identifying cognate nucleotides
US10851410B2 (en) * 2017-01-04 2020-12-01 Mgi Tech Co., Ltd. Nucleic acid sequencing using affinity reagents
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US10975427B2 (en) 2017-01-20 2021-04-13 Omniome, Inc. Process for cognate nucleotide detection in a nucleic acid sequencing workflow
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US10737267B2 (en) 2017-04-04 2020-08-11 Omniome, Inc. Fluidic apparatus and methods useful for chemical and biological reactions
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US9540689B2 (en) 1998-05-01 2017-01-10 Life Technologies Corporation Method of determining the nucleotide sequence of oligonucleotides and DNA molecules
US7297518B2 (en) 2001-03-12 2007-11-20 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences by asynchronous base extension
US7491498B2 (en) 2003-11-12 2009-02-17 Helicos Biosciences Corporation Short cycle methods for sequencing polynucleotides
US7897345B2 (en) 2003-11-12 2011-03-01 Helicos Biosciences Corporation Short cycle methods for sequencing polynucleotides
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Also Published As

Publication number Publication date
EP1594987B1 (en) 2009-05-27
US20070148645A1 (en) 2007-06-28
EP1594987A2 (en) 2005-11-16
DE602004021235D1 (en) 2009-07-09
WO2004074503A2 (en) 2004-09-02
US8399196B2 (en) 2013-03-19
ATE432365T1 (en) 2009-06-15

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