WO2007070572A3 - Probe for nucleic acid sequencing and methods of use - Google Patents

Probe for nucleic acid sequencing and methods of use Download PDF

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Publication number
WO2007070572A3
WO2007070572A3 PCT/US2006/047534 US2006047534W WO2007070572A3 WO 2007070572 A3 WO2007070572 A3 WO 2007070572A3 US 2006047534 W US2006047534 W US 2006047534W WO 2007070572 A3 WO2007070572 A3 WO 2007070572A3
Authority
WO
WIPO (PCT)
Prior art keywords
nucleic acid
chemical moiety
linker
acid molecule
methods
Prior art date
Application number
PCT/US2006/047534
Other languages
French (fr)
Other versions
WO2007070572A8 (en
WO2007070572A2 (en
Inventor
Thomas D Schneider
Ilya G Lyakhov
Danielle Needle
Original Assignee
Us Gov Health & Human Serv
Thomas D Schneider
Ilya G Lyakhov
Danielle Needle
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 Us Gov Health & Human Serv, Thomas D Schneider, Ilya G Lyakhov, Danielle Needle filed Critical Us Gov Health & Human Serv
Priority to DE602006016984T priority Critical patent/DE602006016984D1/en
Priority to AT06847604T priority patent/ATE481505T1/en
Priority to EP06847604A priority patent/EP1960550B1/en
Priority to JP2008545768A priority patent/JP2009519041A/en
Priority to US12/095,973 priority patent/US7871777B2/en
Publication of WO2007070572A2 publication Critical patent/WO2007070572A2/en
Publication of WO2007070572A8 publication Critical patent/WO2007070572A8/en
Publication of WO2007070572A3 publication Critical patent/WO2007070572A3/en
Priority to US12/980,802 priority patent/US20110111975A1/en

Links

Classifications

    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
    • G01N33/536—Immunoassay; Biospecific binding assay; Materials therefor with immune complex formed in liquid phase
    • G01N33/542—Immunoassay; Biospecific binding assay; Materials therefor with immune complex formed in liquid phase with steric inhibition or signal modification, e.g. fluorescent quenching
    • 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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6816—Hybridisation assays characterised by the detection means
    • C12Q1/6818—Hybridisation assays characterised by the detection means involving interaction of two or more labels, e.g. resonant energy transfer
    • 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
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
    • Y10T—TECHNICAL SUBJECTS COVERED BY FORMER US CLASSIFICATION
    • Y10T436/00—Chemistry: analytical and immunological testing
    • Y10T436/14—Heterocyclic carbon compound [i.e., O, S, N, Se, Te, as only ring hetero atom]
    • Y10T436/142222—Hetero-O [e.g., ascorbic acid, etc.]
    • Y10T436/143333—Saccharide [e.g., DNA, etc.]

Abstract

A nanoprobe for sequencing of nucleic acid molecules is provided, as well as methods for using the nanoprobe. In particular examples, the probe includes a polymerizing agent and one or more molecular linkers that carry a chemical moiety capable of reversibly binding to the template strand of a nucleic acid molecule, without being detached from the linker, by specifically binding with a complementary nucleotide in the target nucleic acid molecule. The reversible binding of the chemical moiety on the linker with a complementary nucleotide in the target nucleic acid molecule is indicated by emission of a characteristic signal that indicates pairing of the chemical moiety on the linker with its complementary nucleotide. An example of such a chemical moiety is a nonhydrolyzable nucleotide analog. In particular examples, the polymerizing agent and the chemical moiety are associated with a tag, such as a donor fluorophore and acceptor fluorophore characteristic of the particular type of chemical moiety.
PCT/US2006/047534 2005-12-12 2006-12-12 Probe for nucleic acid sequencing and methods of use WO2007070572A2 (en)

Priority Applications (6)

Application Number Priority Date Filing Date Title
DE602006016984T DE602006016984D1 (en) 2005-12-12 2006-12-12 PROBE FOR SEQUENCING NUCLEIC ACID AND USE PROCESS
AT06847604T ATE481505T1 (en) 2005-12-12 2006-12-12 NUCLEIC ACID SEQUENCING PROBE AND METHOD OF USE
EP06847604A EP1960550B1 (en) 2005-12-12 2006-12-12 Probe for nucleic acid sequencing and methods of use
JP2008545768A JP2009519041A (en) 2005-12-12 2006-12-12 Probes and methods of use for nucleic acid sequencing
US12/095,973 US7871777B2 (en) 2005-12-12 2006-12-12 Probe for nucleic acid sequencing and methods of use
US12/980,802 US20110111975A1 (en) 2005-12-12 2010-12-29 Probe for nucleic acid sequencing and methods of use

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US74972905P 2005-12-12 2005-12-12
US74985805P 2005-12-12 2005-12-12
US60/749,729 2005-12-12
US60/749,858 2005-12-12

Related Child Applications (1)

Application Number Title Priority Date Filing Date
US12/980,802 Continuation US20110111975A1 (en) 2005-12-12 2010-12-29 Probe for nucleic acid sequencing and methods of use

Publications (3)

Publication Number Publication Date
WO2007070572A2 WO2007070572A2 (en) 2007-06-21
WO2007070572A8 WO2007070572A8 (en) 2007-09-27
WO2007070572A3 true WO2007070572A3 (en) 2008-04-17

Family

ID=38051529

Family Applications (2)

Application Number Title Priority Date Filing Date
PCT/US2006/047534 WO2007070572A2 (en) 2005-12-12 2006-12-12 Probe for nucleic acid sequencing and methods of use
PCT/US2006/047456 WO2007070542A2 (en) 2005-12-12 2006-12-12 Nanoprobes for detection or modification of molecules

Family Applications After (1)

Application Number Title Priority Date Filing Date
PCT/US2006/047456 WO2007070542A2 (en) 2005-12-12 2006-12-12 Nanoprobes for detection or modification of molecules

Country Status (6)

Country Link
US (3) US8344121B2 (en)
EP (2) EP1960550B1 (en)
JP (1) JP2009519041A (en)
AT (1) ATE481505T1 (en)
DE (1) DE602006016984D1 (en)
WO (2) WO2007070572A2 (en)

Families Citing this family (108)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US10337054B2 (en) 2004-02-02 2019-07-02 Quantum-Si Incorporated Enrichment of nucleic acid targets
US7968287B2 (en) 2004-10-08 2011-06-28 Medical Research Council Harvard University In vitro evolution in microfluidic systems
US7998717B2 (en) 2005-12-02 2011-08-16 Pacific Biosciences Of California, Inc. Mitigation of photodamage in analytical reactions
US8344121B2 (en) * 2005-12-12 2013-01-01 The United States Of America As Represented By The Secretary Of The Department Of Health And Human Services Nanoprobes for detection or modification of molecules
US20100137163A1 (en) * 2006-01-11 2010-06-03 Link Darren R Microfluidic Devices and Methods of Use in The Formation and Control of Nanoreactors
US20080003142A1 (en) 2006-05-11 2008-01-03 Link Darren R Microfluidic devices
US9562837B2 (en) 2006-05-11 2017-02-07 Raindance Technologies, Inc. Systems for handling microfludic droplets
US8889348B2 (en) * 2006-06-07 2014-11-18 The Trustees Of Columbia University In The City Of New York DNA sequencing by nanopore using modified nucleotides
WO2008097559A2 (en) 2007-02-06 2008-08-14 Brandeis University Manipulation of fluids and reactions in microfluidic systems
US8592221B2 (en) 2007-04-19 2013-11-26 Brandeis University Manipulation of fluids, fluid components and reactions in microfluidic systems
US9121843B2 (en) 2007-05-08 2015-09-01 Trustees Of Boston University Chemical functionalization of solid-state nanopores and nanopore arrays and applications thereof
ES2717354T3 (en) * 2007-09-14 2019-06-20 Biomadison Inc Resonance energy transfer assay with excision sequence and spacer
WO2009062170A1 (en) * 2007-11-08 2009-05-14 The University Of Chicago Molecular affinity clamp technology and uses thereof
US8530164B2 (en) * 2008-09-05 2013-09-10 Pacific Biosciences Of California, Inc. Method for sequencing using branching fraction of incorporatable nucleotides
EP2255014A4 (en) 2008-02-12 2011-05-18 Pacific Biosciences California Compositions and methods for use in analytical reactions
US8652781B2 (en) 2008-02-12 2014-02-18 Pacific Biosciences Of California, Inc. Cognate sampling kinetics
US8628940B2 (en) 2008-09-24 2014-01-14 Pacific Biosciences Of California, Inc. Intermittent detection during analytical reactions
BRPI0909212A2 (en) 2008-03-28 2015-08-18 Pacific Biosciences California Compositions and method for nucleic acid sequencing
WO2009120374A2 (en) 2008-03-28 2009-10-01 Pacific Biosciences Of California, Inc. Methods and compositions for nucleic acid sample preparation
US8257954B2 (en) * 2008-03-31 2012-09-04 Pacific Biosciences Of California, Inc. Generation of modified polymerases for improved accuracy in single molecule sequencing
US8999676B2 (en) 2008-03-31 2015-04-07 Pacific Biosciences Of California, Inc. Recombinant polymerases for improved single molecule sequencing
WO2009145828A2 (en) 2008-03-31 2009-12-03 Pacific Biosciences Of California, Inc. Two slow-step polymerase enzyme systems and methods
US8420366B2 (en) * 2008-03-31 2013-04-16 Pacific Biosciences Of California, Inc. Generation of modified polymerases for improved accuracy in single molecule sequencing
WO2010009365A1 (en) 2008-07-18 2010-01-21 Raindance Technologies, Inc. Droplet libraries
US8383369B2 (en) 2008-09-24 2013-02-26 Pacific Biosciences Of California, Inc. Intermittent detection during analytical reactions
WO2010036287A1 (en) 2008-09-24 2010-04-01 Pacific Biosciences Of California, Inc. Intermittent detection during analytical reactions
WO2010117420A2 (en) 2009-03-30 2010-10-14 Pacific Biosciences Of California, Inc. Fret-labeled compounds and uses therefor
US8674080B2 (en) 2009-04-09 2014-03-18 Roche Molecular Systems, Inc. Dye composition for liquid transfer control
CA2760155A1 (en) * 2009-04-27 2010-11-11 Pacific Biosciences Of California, Inc. Real-time sequencing methods and systems
US8409802B2 (en) * 2009-08-14 2013-04-02 Roche Molecular Systems, Inc. Format of probes to detect nucleic acid differences
US9566335B1 (en) 2009-09-25 2017-02-14 The Governing Council Of The University Of Toronto Protein sequencing method and reagents
EP2483680A4 (en) 2009-09-30 2014-01-01 Quantapore Inc Ultrafast sequencing of biological polymers using a labeled nanopore
US8324914B2 (en) 2010-02-08 2012-12-04 Genia Technologies, Inc. Systems and methods for characterizing a molecule
US9678055B2 (en) 2010-02-08 2017-06-13 Genia Technologies, Inc. Methods for forming a nanopore in a lipid bilayer
US9605307B2 (en) 2010-02-08 2017-03-28 Genia Technologies, Inc. Systems and methods for forming a nanopore in a lipid bilayer
WO2011100604A2 (en) 2010-02-12 2011-08-18 Raindance Technologies, Inc. Digital analyte analysis
US9366632B2 (en) 2010-02-12 2016-06-14 Raindance Technologies, Inc. Digital analyte analysis
US10351905B2 (en) 2010-02-12 2019-07-16 Bio-Rad Laboratories, Inc. Digital analyte analysis
US9399797B2 (en) 2010-02-12 2016-07-26 Raindance Technologies, Inc. Digital analyte analysis
US8986930B2 (en) 2010-07-12 2015-03-24 Pacific Biosciences Of California, Inc. Sequencing reactions with alkali metal cations for pulse width control
US8834847B2 (en) 2010-08-12 2014-09-16 Pacific Biosciences Of California, Inc. Photodamage mitigation compounds and systems
EP3447155A1 (en) 2010-09-30 2019-02-27 Raindance Technologies, Inc. Sandwich assays in droplets
US9121059B2 (en) 2010-12-22 2015-09-01 Genia Technologies, Inc. Nanopore-based single molecule characterization
US9581563B2 (en) 2011-01-24 2017-02-28 Genia Technologies, Inc. System for communicating information from an array of sensors
US9110478B2 (en) 2011-01-27 2015-08-18 Genia Technologies, Inc. Temperature regulation of measurement arrays
US9364803B2 (en) 2011-02-11 2016-06-14 Raindance Technologies, Inc. Methods for forming mixed droplets
US9150852B2 (en) 2011-02-18 2015-10-06 Raindance Technologies, Inc. Compositions and methods for molecular labeling
WO2012167142A2 (en) 2011-06-02 2012-12-06 Raindance Technolgies, Inc. Enzyme quantification
US8658430B2 (en) 2011-07-20 2014-02-25 Raindance Technologies, Inc. Manipulating droplet size
EP2745360A4 (en) 2011-08-01 2015-07-08 Univ Columbia Conjugates of nano-diamond and magnetic or metallic particles
WO2013040446A1 (en) 2011-09-16 2013-03-21 The Trustees Of Columbia University In The City Of New York High-precision ghz clock generation using spin states in diamond
US9632045B2 (en) 2011-10-19 2017-04-25 The Trustees Of Columbia University In The City Of New York Systems and methods for deterministic emitter switch microscopy
CA2850731A1 (en) * 2011-10-20 2013-05-02 Exxonmobil Upstream Research Company Nanoparticle probes, methods, and systems for use thereof
EP2594942A1 (en) * 2011-11-16 2013-05-22 Koninklijke Philips Electronics N.V. Long rigid spacers to enhance binding kinetics in immunoassays
US8986629B2 (en) 2012-02-27 2015-03-24 Genia Technologies, Inc. Sensor circuit for controlling, detecting, and measuring a molecular complex
GB2502306A (en) * 2012-05-22 2013-11-27 Univ Singapore Microparticle sensor
WO2013175259A1 (en) * 2012-05-23 2013-11-28 University Of Calcutta Molecular discriminators using carbon nanotubes
GB2517875A (en) 2012-06-08 2015-03-04 Pacific Biosciences California Modified base detection with nanopore sequencing
JP2015525077A (en) 2012-06-15 2015-09-03 ジェニア・テクノロジーズ・インコーポレイテッド Chip configuration and highly accurate nucleic acid sequencing
US9399766B2 (en) 2012-10-01 2016-07-26 Pacific Biosciences Of California, Inc. Recombinant polymerases for incorporation of protein shield nucleotide analogs
US9651539B2 (en) 2012-10-28 2017-05-16 Quantapore, Inc. Reducing background fluorescence in MEMS materials by low energy ion beam treatment
US9605309B2 (en) 2012-11-09 2017-03-28 Genia Technologies, Inc. Nucleic acid sequencing using tags
US9759711B2 (en) 2013-02-05 2017-09-12 Genia Technologies, Inc. Nanopore arrays
EP2971071B1 (en) 2013-03-15 2018-02-28 Illumina, Inc. Enzyme-linked nucleotides
EP2971051A4 (en) 2013-03-15 2017-03-01 The Trustees of Columbia University in the City of New York Method for detecting multiple predetermined compounds in a sample
CA2910019A1 (en) 2013-05-24 2014-11-27 Quantapore, Inc. Nanopore-based nucleic acid analysis with mixed fret detection
US11901041B2 (en) 2013-10-04 2024-02-13 Bio-Rad Laboratories, Inc. Digital analysis of nucleic acid modification
US9551697B2 (en) 2013-10-17 2017-01-24 Genia Technologies, Inc. Non-faradaic, capacitively coupled measurement in a nanopore cell array
CN109797199A (en) 2013-10-23 2019-05-24 吉尼亚科技公司 It is sensed using the high-velocity molecular of nano-pore
US9322062B2 (en) 2013-10-23 2016-04-26 Genia Technologies, Inc. Process for biosensor well formation
BR112016011084B8 (en) 2013-11-17 2021-11-09 Quantum Si Incorporated Integrated device for analyzing a plurality of samples in parallel, methods of analyzing this plurality of samples, for fabricating a sample well and optical structure aligned to said well, for sequencing a nucleic acid molecule, and for forming a source of aligned nanoscale excitation, and portable instrument
US9944977B2 (en) 2013-12-12 2018-04-17 Raindance Technologies, Inc. Distinguishing rare variations in a nucleic acid sequence from a sample
EP3175023A4 (en) 2014-07-30 2018-03-07 President and Fellows of Harvard College Systems and methods for determining nucleic acids
KR20220165282A (en) 2014-08-08 2022-12-14 퀀텀-에스아이 인코포레이티드 Optical system and assay chip for probing, detecting, and analyzing molecules
US9885657B2 (en) 2014-08-08 2018-02-06 Quantum-Si Incorporated Integrated device with external light source for probing detecting and analyzing molecules
JP6707520B2 (en) 2014-08-08 2020-06-10 クアンタム−エスアイ インコーポレイテッドＱｕａｎｔｕｍ−Ｓｉ Ｉｎｃｏｒｐｏｒａｔｅｄ Integrated device for time binning of received photons
EP3204519B1 (en) 2014-10-10 2020-04-29 Quantapore Inc. Nanopore-based polymer analysis with mutually-quenching fluorescent labels
CA2964790C (en) 2014-10-24 2023-02-21 Quantapore, Inc. Efficient optical analysis of polymers using arrays of nanostructures
EP3218717B1 (en) 2014-11-12 2019-02-27 Technische Universiteit Eindhoven Dynamic switching biosensor
WO2016139643A2 (en) * 2015-03-04 2016-09-09 University College Dublin, National University Of Ireland, Dublin Molecular sensors
DK3294885T3 (en) 2015-05-08 2020-08-10 Curevac Real Estate Gmbh METHOD OF PREPARING RNA
US10174363B2 (en) 2015-05-20 2019-01-08 Quantum-Si Incorporated Methods for nucleic acid sequencing
US11130986B2 (en) 2015-05-20 2021-09-28 Quantum-Si Incorporated Method for isolating target nucleic acid using heteroduplex binding proteins
DE202016009003U1 (en) 2015-05-29 2021-05-28 Curevac Real Estate Gmbh Composition comprising in vitro transcribed RNA obtainable by a method for the production and purification of RNA with at least one step with a tangential flow filtration
US10647981B1 (en) 2015-09-08 2020-05-12 Bio-Rad Laboratories, Inc. Nucleic acid library generation methods and compositions
US10441174B2 (en) 2016-02-17 2019-10-15 Tesseract Health, Inc. Sensor and device for lifetime imaging and detection applications
EP3475450B1 (en) * 2016-06-24 2020-12-09 The Regents of The University of California Nucleic acid synthesis and sequencing using tethered nucleoside triphosphates
EP3482196B1 (en) 2016-07-05 2022-02-23 Quantapore, Inc. Optically based nanopore sequencing
WO2018089438A1 (en) * 2016-11-08 2018-05-17 President And Fellows Of Harvard College Multiplexed imaging using merfish, expansion microscopy, and related technologies
CA3047321A1 (en) 2016-12-19 2018-06-28 Quantum-Si Incorporated Polymerizing enzymes for sequencing reactions
WO2018119347A1 (en) 2016-12-22 2018-06-28 Quantum-Si Incorporated Integrated photodetector with direct binning pixel
US11224878B2 (en) 2017-05-05 2022-01-18 Quantum-Si Incorporated Substrates having modified surface reactivity and antifouling properties in biological reactions
US11788123B2 (en) 2017-05-26 2023-10-17 President And Fellows Of Harvard College Systems and methods for high-throughput image-based screening
AU2018308098A1 (en) 2017-07-24 2020-01-30 Quantum-Si Incorporated High intensity labeled reactant compositions and methods for sequencing
GB201715684D0 (en) 2017-09-28 2017-11-15 Univ Gent Means and methods for single molecule peptide sequencing
US11680091B2 (en) 2018-02-23 2023-06-20 The University Of Chicago Methods and composition involving thermophilic fibronectin type III (FN3) monobodies
US11391626B2 (en) 2018-06-22 2022-07-19 Quantum-Si Incorporated Integrated photodetector with charge storage bin of varied detection time
WO2020018739A1 (en) * 2018-07-18 2020-01-23 University Of Florida Research Foundation Rna silencing nanozymes
US10876148B2 (en) 2018-11-14 2020-12-29 Element Biosciences, Inc. De novo surface preparation and uses thereof
US10704094B1 (en) 2018-11-14 2020-07-07 Element Biosciences, Inc. Multipart reagents having increased avidity for polymerase binding
WO2020102741A1 (en) 2018-11-15 2020-05-22 Quantum-Si Incorporated Methods and compositions for protein sequencing
EP3914603A1 (en) 2019-01-23 2021-12-01 Quantum-Si Incorporated High intensity labeled reactant compositions and methods for sequencing
WO2020242901A1 (en) * 2019-05-24 2020-12-03 Element Biosciences, Inc. Polymerase-nucleotide conjugates for sequencing by trapping
JP2022539560A (en) 2019-06-28 2022-09-12 クアンタム－エスアイ インコーポレイテッド Polymerase for sequencing reactions
US11287422B2 (en) 2019-09-23 2022-03-29 Element Biosciences, Inc. Multivalent binding composition for nucleic acid analysis
AU2020364058A1 (en) 2019-10-11 2022-05-26 Quantum-Si Incorporated Surface modification in the vapor phase
WO2021150614A1 (en) 2020-01-21 2021-07-29 Quantum-Si Incorporated Compounds and methods for selective c-terminal labeling
US11198121B1 (en) 2020-06-10 2021-12-14 Element Biosciences, Inc. Flow cell systems and devices

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000070073A1 (en) * 1999-05-19 2000-11-23 Cornell Research Foundation, Inc. Method for sequencing nucleic acid molecules
WO2001016375A2 (en) * 1999-08-30 2001-03-08 The Government Of The United States Of America, As Represented By The Secretary, Department Of Health And Human Services High speed parallel molecular nucleic acid sequencing
WO2004074503A2 (en) * 2003-02-21 2004-09-02 Hoser Mark J Nucleic acid sequencing methods, kits and reagents

Family Cites Families (72)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4711955A (en) * 1981-04-17 1987-12-08 Yale University Modified nucleotides and methods of preparing and using same
US5821058A (en) * 1984-01-16 1998-10-13 California Institute Of Technology Automated DNA sequencing technique
US5360523A (en) * 1984-03-29 1994-11-01 Li-Cor, Inc. DNA sequencing
US5064754A (en) * 1984-12-14 1991-11-12 Mills Randell L Genomic sequencing method
US5221518A (en) * 1984-12-14 1993-06-22 Mills Randell L DNA sequencing apparatus
US5017009A (en) 1986-06-26 1991-05-21 Ortho Diagnostic Systems, Inc. Scattered total internal reflectance immunoassay system
US5242796A (en) * 1986-07-02 1993-09-07 E. I. Du Pont De Nemours And Company Method, system and reagents for DNA sequencing
US5047519A (en) 1986-07-02 1991-09-10 E. I. Du Pont De Nemours And Company Alkynylamino-nucleotides
US5151507A (en) 1986-07-02 1992-09-29 E. I. Du Pont De Nemours And Company Alkynylamino-nucleotides
CA1340806C (en) * 1986-07-02 1999-11-02 James Merrill Prober Method, system and reagents for dna sequencing
US5654176A (en) * 1987-05-28 1997-08-05 Amrad Corporation Limited Fusion proteins containing glutathione-s-transferase
US4793705A (en) * 1987-10-07 1988-12-27 The United States Of America As Represented By The United States Department Of Energy Single molecule tracking
US4962037A (en) * 1987-10-07 1990-10-09 United States Of America Method for rapid base sequencing in DNA and RNA
US4917462A (en) * 1988-06-15 1990-04-17 Cornell Research Foundation, Inc. Near field scanning optical microscopy
DE3841565C2 (en) * 1988-12-09 1998-07-09 Europ Lab Molekularbiolog Methods for sequencing nucleic acids
US5302509A (en) 1989-08-14 1994-04-12 Beckman Instruments, Inc. Method for sequencing polynucleotides
US5105305A (en) * 1991-01-10 1992-04-14 At&T Bell Laboratories Near-field scanning optical microscope using a fluorescent probe
US5817462A (en) 1995-02-21 1998-10-06 Applied Spectral Imaging Method for simultaneous detection of multiple fluorophores for in situ hybridization and multicolor chromosome painting and banding
US5405747A (en) * 1991-09-25 1995-04-11 The Regents Of The University Of California Office Of Technology Transfer Method for rapid base sequencing in DNA and RNA with two base labeling
CH683667A5 (en) 1992-02-26 1994-04-29 Nestle Sa aromatic raw material.
US5547835A (en) * 1993-01-07 1996-08-20 Sequenom, Inc. DNA sequencing by mass spectrometry
JPH08506664A (en) * 1993-02-01 1996-07-16 セック，リミテッド Method and apparatus for DNA sequencing
US5354985A (en) * 1993-06-03 1994-10-11 Stanford University Near field scanning optical and force microscope including cantilever and optical waveguide
US5389779A (en) * 1993-07-29 1995-02-14 At&T Corp. Method and apparatus for near-field, scanning, optical microscopy by reflective, optical feedback
US5470710A (en) * 1993-10-22 1995-11-28 University Of Utah Automated hybridization/imaging device for fluorescent multiplex DNA sequencing
US5886177A (en) * 1994-01-11 1999-03-23 Isis Pharmaceuticals, Inc. Phosphate linked oligomers
US5654419A (en) * 1994-02-01 1997-08-05 The Regents Of The University Of California Fluorescent labels and their use in separations
US6682886B1 (en) * 1994-04-28 2004-01-27 Gilead Sciences, Inc. Bivalent binding molecules of 7 transmembrane G protein-coupled receptors
US5763594A (en) * 1994-09-02 1998-06-09 Andrew C. Hiatt 3' protected nucleotides for enzyme catalyzed template-independent creation of phosphodiester bonds
US5625048A (en) 1994-11-10 1997-04-29 The Regents Of The University Of California Modified green fluorescent proteins
US5777079A (en) 1994-11-10 1998-07-07 The Regents Of The University Of California Modified green fluorescent proteins
US5556790A (en) * 1994-12-05 1996-09-17 Pettit; John W. Method for Automated DNA sequencing
US5614386A (en) * 1995-06-23 1997-03-25 Baylor College Of Medicine Alternative dye-labeled primers for automated DNA sequencing
US5661028A (en) * 1995-09-29 1997-08-26 Lockheed Martin Energy Systems, Inc. Large scale DNA microsequencing device
US6766183B2 (en) * 1995-11-22 2004-07-20 Medtronic Minimed, Inc. Long wave fluorophore sensor compounds and other fluorescent sensor compounds in polymers
US5796909A (en) 1996-02-14 1998-08-18 Islam; Mohammed N. All-fiber, high-sensitivity, near-field optical microscopy instrument employing guided wave light collector and specimen support
US5800996A (en) * 1996-05-03 1998-09-01 The Perkin Elmer Corporation Energy transfer dyes with enchanced fluorescence
US5780232A (en) * 1996-05-28 1998-07-14 Atom Sciences, Inc. DNA sequencing, mapping, and diagnostic processes using hybridization and stable isotope labels of DNA
US5866336A (en) 1996-07-16 1999-02-02 Oncor, Inc. Nucleic acid amplification oligonucleotides with molecular energy transfer labels and methods based thereon
US5804386A (en) * 1997-01-15 1998-09-08 Incyte Pharmaceuticals, Inc. Sets of labeled energy transfer fluorescent primers and their use in multi component analysis
WO1998033939A1 (en) 1997-01-31 1998-08-06 Hitachi, Ltd. Method for determining nucleic acid base sequence and apparatus therefor
EP0970199B1 (en) 1997-03-14 2008-10-22 The Regents Of The University Of California Fluorescent protein sensors for detection of analytes
US5998204A (en) * 1997-03-14 1999-12-07 The Regents Of The University Of California Fluorescent protein sensors for detection of analytes
US6197928B1 (en) * 1997-03-14 2001-03-06 The Regents Of The University Of California Fluorescent protein sensors for detection of analytes
US5866366A (en) 1997-07-01 1999-02-02 Smithkline Beecham Corporation gidB
PT1017848E (en) 1997-07-28 2003-02-28 Medical Biosystems Ltd ANALYSIS OF NUCLEIC ACID SEQUENCES
WO1999036576A1 (en) * 1998-01-20 1999-07-22 Packard Bioscience Company Gel pad arrays and methods and systems for making them
US20010008766A1 (en) * 1998-03-17 2001-07-19 Sylvia Daunert Quantitative binding assays using green fluorescent protein as a label
US6780591B2 (en) * 1998-05-01 2004-08-24 Arizona Board Of Regents Method of determining the nucleotide sequence of oligonucleotides and DNA molecules
US6287765B1 (en) * 1998-05-20 2001-09-11 Molecular Machines, Inc. Methods for detecting and identifying single molecules
US6150176A (en) * 1998-06-09 2000-11-21 The Regents Of The University Of California Fluorescent protein sensors for measuring the pH of a biological sample
US6140132A (en) * 1998-06-09 2000-10-31 The Regents Of The University Of California Fluorescent protein sensors for measuring the pH of a biological sample
US6495664B1 (en) * 1998-07-24 2002-12-17 Aurora Biosciences Corporation Fluorescent protein sensors of post-translational modifications
US6210896B1 (en) * 1998-08-13 2001-04-03 Us Genomics Molecular motors
AU3174600A (en) 1999-03-10 2000-09-28 Asm Scientific, Inc. A method for direct nucleic acid sequencing
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
US6908736B1 (en) * 1999-10-06 2005-06-21 Medical Biosystems, Ltd. DNA sequencing method
US6627396B1 (en) * 1999-10-28 2003-09-30 The Regents Of The University Of California Influenza sensor
GB9926336D0 (en) 1999-11-05 2000-01-12 Isis Innovation Universal flourescent sensors
US6936702B2 (en) 2000-06-07 2005-08-30 Li-Cor, Inc. Charge-switch nucleotides
DE60131194T2 (en) * 2000-07-07 2008-08-07 Visigen Biotechnologies, Inc., Bellaire SEQUENCE PROVISION IN REAL TIME
WO2002044425A2 (en) * 2000-12-01 2002-06-06 Visigen Biotechnologies, Inc. Enzymatic nucleic acid synthesis: compositions and methods for altering monomer incorporation fidelity
US6890556B1 (en) * 2001-02-14 2005-05-10 Northwestern University Controlled surface-associated delivery of genes and oligonucleotides
WO2002072892A1 (en) * 2001-03-12 2002-09-19 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences by asynchronous base extension
GB0111459D0 (en) 2001-05-10 2001-07-04 Isis Innovation Universal fluorescent sensors
US6544746B2 (en) * 2001-08-13 2003-04-08 St. Louis University Rapid and sensitive proximity-based assay for the detection and quantification of DNA binding proteins
US7172865B2 (en) * 2001-08-13 2007-02-06 Saint Louis University Rapid and sensitive assay for the detection and quantification of coregulators of nucleic acid binding factors
US20050267326A1 (en) * 2001-10-02 2005-12-01 Alfred E. Mann Institute For Biomedical Eng. At The University Of Southern California Percutaneous chemical sensor based on fluorescence resonant energy transfer (FRET)
US6790632B2 (en) * 2002-06-17 2004-09-14 Stephen Eliot Zweig Membrane receptor reagent and assay
WO2005077065A2 (en) * 2004-02-09 2005-08-25 The Regents Of The University Of California Selective high-affinity polydentate ligands and methods of making such
EP1869206A4 (en) * 2005-03-02 2011-08-10 Einstein Coll Med Enzyme sensors including environmentally sensitive or fluorescent labels and uses thereof
US8344121B2 (en) * 2005-12-12 2013-01-01 The United States Of America As Represented By The Secretary Of The Department Of Health And Human Services Nanoprobes for detection or modification of molecules

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000070073A1 (en) * 1999-05-19 2000-11-23 Cornell Research Foundation, Inc. Method for sequencing nucleic acid molecules
WO2001016375A2 (en) * 1999-08-30 2001-03-08 The Government Of The United States Of America, As Represented By The Secretary, Department Of Health And Human Services High speed parallel molecular nucleic acid sequencing
WO2004074503A2 (en) * 2003-02-21 2004-09-02 Hoser Mark J Nucleic acid sequencing methods, kits and reagents

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
BENTLEY ET AL: "Whole-genome re-sequencing", CURRENT OPINION IN GENETICS & DEVELOPMENT, CURRENT BIOLOGY LTD, XX, vol. 16, no. 6, 15 November 2006 (2006-11-15), pages 545 - 552, XP005764656, ISSN: 0959-437X *

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