WO2008028160A3 - Substrates, systems and methods for analyzing materials - Google Patents

Substrates, systems and methods for analyzing materials Download PDF

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Publication number
WO2008028160A3
WO2008028160A3 PCT/US2007/077454 US2007077454W WO2008028160A3 WO 2008028160 A3 WO2008028160 A3 WO 2008028160A3 US 2007077454 W US2007077454 W US 2007077454W WO 2008028160 A3 WO2008028160 A3 WO 2008028160A3
Authority
WO
WIPO (PCT)
Prior art keywords
substrates
systems
methods
materials
analyses
Prior art date
Application number
PCT/US2007/077454
Other languages
French (fr)
Other versions
WO2008028160A2 (en
Inventor
Paul Lundquist
Stephen Turner
Original Assignee
Pacific Biosciences California
Paul Lundquist
Stephen Turner
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 Pacific Biosciences California, Paul Lundquist, Stephen Turner filed Critical Pacific Biosciences California
Priority to AU2007289057A priority Critical patent/AU2007289057C1/en
Priority to EP21190541.9A priority patent/EP3936857B1/en
Priority to EP07814642.0A priority patent/EP2064488B1/en
Priority to EP23151617.0A priority patent/EP4220138A1/en
Priority to CA2662521A priority patent/CA2662521C/en
Priority to US11/981,796 priority patent/US7838847B2/en
Priority to US11/981,795 priority patent/US7834329B2/en
Publication of WO2008028160A2 publication Critical patent/WO2008028160A2/en
Publication of WO2008028160A3 publication Critical patent/WO2008028160A3/en

Links

Classifications

    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/645—Specially adapted constructive features of fluorimeters
    • G01N21/648—Specially adapted constructive features of fluorimeters using evanescent coupling or surface plasmon coupling for the excitation of fluorescence
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/6428—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes"
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/645—Specially adapted constructive features of fluorimeters
    • G01N21/6452—Individual samples arranged in a regular 2D-array, e.g. multiwell plates
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/75—Systems in which material is subjected to a chemical reaction, the progress or the result of the reaction being investigated
    • G01N21/77—Systems in which material is subjected to a chemical reaction, the progress or the result of the reaction being investigated by observing the effect on a chemical indicator
    • G01N21/7703—Systems in which material is subjected to a chemical reaction, the progress or the result of the reaction being investigated by observing the effect on a chemical indicator using reagent-clad optical fibres or optical waveguides
    • G—PHYSICS
    • G02—OPTICS
    • G02B—OPTICAL ELEMENTS, SYSTEMS OR APPARATUS
    • G02B6/00—Light guides; Structural details of arrangements comprising light guides and other optical elements, e.g. couplings
    • G02B6/24—Coupling light guides
    • G02B6/42—Coupling light guides with opto-electronic elements
    • G02B6/43—Arrangements comprising a plurality of opto-electronic elements and associated optical interconnections
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/75—Systems in which material is subjected to a chemical reaction, the progress or the result of the reaction being investigated
    • G01N21/77—Systems in which material is subjected to a chemical reaction, the progress or the result of the reaction being investigated by observing the effect on a chemical indicator
    • G01N2021/7769—Measurement method of reaction-produced change in sensor
    • G01N2021/7786—Fluorescence

Abstract

Substrates, systems and methods for analyzing materials that include waveguide arrays disposed upon or within the substrate such that evanescent fields emanating from the waveguides illuminate materials disposed upon or proximal to the surface of the substrate, permitting analysis of such materials. The substrates, systems and methods are used in a variety of analytical operations, including, inter alia, nucleic acid analysis, including hybridization and sequencing analyses, cellular analyses and other molecular analyses.
PCT/US2007/077454 2006-09-01 2007-08-31 Substrates, systems and methods for analyzing materials WO2008028160A2 (en)

Priority Applications (7)

Application Number Priority Date Filing Date Title
AU2007289057A AU2007289057C1 (en) 2006-09-01 2007-08-31 Substrates, systems and methods for analyzing materials
EP21190541.9A EP3936857B1 (en) 2006-09-01 2007-08-31 Substrates, systems and methods for analyzing materials
EP07814642.0A EP2064488B1 (en) 2006-09-01 2007-08-31 Device and method for analyzing materials
EP23151617.0A EP4220138A1 (en) 2006-09-01 2007-08-31 Substrates, systems and methods for analyzing materials
CA2662521A CA2662521C (en) 2006-09-01 2007-08-31 Substrates, systems and methods for analyzing materials
US11/981,796 US7838847B2 (en) 2006-09-01 2007-10-31 Substrates, systems and methods for analyzing materials
US11/981,795 US7834329B2 (en) 2006-09-01 2007-10-31 Substrates, systems and methods for analyzing materials

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US84189706P 2006-09-01 2006-09-01
US60/841,897 2006-09-01

Publications (2)

Publication Number Publication Date
WO2008028160A2 WO2008028160A2 (en) 2008-03-06
WO2008028160A3 true WO2008028160A3 (en) 2008-11-06

Family

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Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2007/077454 WO2008028160A2 (en) 2006-09-01 2007-08-31 Substrates, systems and methods for analyzing materials

Country Status (5)

Country Link
US (4) US7820983B2 (en)
EP (3) EP4220138A1 (en)
AU (1) AU2007289057C1 (en)
CA (1) CA2662521C (en)
WO (1) WO2008028160A2 (en)

Families Citing this family (139)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7557367B2 (en) 2004-06-04 2009-07-07 The Board Of Trustees Of The University Of Illinois Stretchable semiconductor elements and stretchable electrical circuits
US7805081B2 (en) * 2005-08-11 2010-09-28 Pacific Biosciences Of California, Inc. Methods and systems for monitoring multiple optical signals from a single source
US9528939B2 (en) 2006-03-10 2016-12-27 Indx Lifecare, Inc. Waveguide-based optical scanning systems
US8288157B2 (en) 2007-09-12 2012-10-16 Plc Diagnostics, Inc. Waveguide-based optical scanning systems
US9976192B2 (en) 2006-03-10 2018-05-22 Ldip, Llc Waveguide-based detection system with scanning light source
US9423397B2 (en) 2006-03-10 2016-08-23 Indx Lifecare, Inc. Waveguide-based detection system with scanning light source
EP4220138A1 (en) 2006-09-01 2023-08-02 Pacific Biosciences of California, Inc. Substrates, systems and methods for analyzing materials
US8207509B2 (en) 2006-09-01 2012-06-26 Pacific Biosciences Of California, Inc. Substrates, systems and methods for analyzing materials
US8529835B2 (en) * 2006-11-03 2013-09-10 Tufts University Biopolymer sensor and method of manufacturing the same
EP2650112B1 (en) 2006-11-03 2016-08-24 Trustees Of Tufts College Nanopatterned biopolymer optical device and method of manufacturing the same
WO2008140562A2 (en) 2006-11-03 2008-11-20 Trustees Of Tufts College Electroactive biopolymer optical and electro-optical devices and method of manufacturing the same
WO2008118211A2 (en) 2006-11-03 2008-10-02 Trustees Of Tufts College Biopolymer photonic crystals and method of manufacturing the same
US7880882B2 (en) * 2007-06-07 2011-02-01 Praevium Research, Inc. Multi-wavelength light source for spectroscopy
WO2009061823A1 (en) 2007-11-05 2009-05-14 Trustees Of Tufts College Fabrication of silk fibroin photonic structures by nanocontact imprinting
GB2461026B (en) * 2008-06-16 2011-03-09 Plc Diagnostics Inc System and method for nucleic acids sequencing by phased synthesis
EP2307054A4 (en) * 2008-06-18 2013-02-06 Tufts College Edible holographic silk products
WO2010033193A2 (en) * 2008-09-16 2010-03-25 Pacific Biosciences Of California, Inc. Substrates and optical systems and methods of use thereof
US8921046B2 (en) 2008-09-19 2014-12-30 Pacific Biosciences Of California, Inc. Nucleic acid sequence analysis
US8481264B2 (en) * 2008-09-19 2013-07-09 Pacific Biosciences Of California, Inc. Immobilized nucleic acid complexes for sequence analysis
WO2010036287A1 (en) 2008-09-24 2010-04-01 Pacific Biosciences Of California, Inc. Intermittent detection during analytical reactions
US8886334B2 (en) 2008-10-07 2014-11-11 Mc10, Inc. Systems, methods, and devices using stretchable or flexible electronics for medical applications
US8372726B2 (en) 2008-10-07 2013-02-12 Mc10, Inc. Methods and applications of non-planar imaging arrays
US8097926B2 (en) 2008-10-07 2012-01-17 Mc10, Inc. Systems, methods, and devices having stretchable integrated circuitry for sensing and delivering therapy
US8389862B2 (en) 2008-10-07 2013-03-05 Mc10, Inc. Extremely stretchable electronics
WO2010042653A1 (en) 2008-10-07 2010-04-15 Mc10, Inc. Catheter balloon having stretchable integrated circuitry and sensor array
WO2010068289A2 (en) 2008-12-11 2010-06-17 Pacific Biosciences Of California, Inc. Classification of nucleic acid templates
CA2789009C (en) 2009-02-12 2017-03-21 Trustees Of Tufts College Nanoimprinting of silk fibroin structures for biomedical and biophotonic applications
WO2010117420A2 (en) 2009-03-30 2010-10-14 Pacific Biosciences Of California, Inc. Fret-labeled compounds and uses therefor
KR20120035912A (en) 2009-04-29 2012-04-16 피엘씨 다이아그노스틱스, 인크. Waveguide-based detection system with scanning light source
US20120114281A1 (en) * 2009-05-04 2012-05-10 University Of Delaware System and method for free-space optical interconnections
KR20120036949A (en) * 2009-06-05 2012-04-18 씨8 메디센서스, 인크. Apparatus for transforming the aspect ratio of an optical input field based on stacked waveguides
US9016875B2 (en) 2009-07-20 2015-04-28 Tufts University/Trustees Of Tufts College All-protein implantable, resorbable reflectors
US8155487B2 (en) * 2009-08-03 2012-04-10 Nitto Denko Corporation Sensor element
WO2011026101A2 (en) 2009-08-31 2011-03-03 Trustees Of Tufts College Silk transistor devices
US9723122B2 (en) 2009-10-01 2017-08-01 Mc10, Inc. Protective cases with integrated electronics
US9936574B2 (en) 2009-12-16 2018-04-03 The Board Of Trustees Of The University Of Illinois Waterproof stretchable optoelectronics
US10441185B2 (en) 2009-12-16 2019-10-15 The Board Of Trustees Of The University Of Illinois Flexible and stretchable electronic systems for epidermal electronics
WO2011084450A1 (en) 2009-12-16 2011-07-14 The Board Of Trustees Of The University Of Illinois Electrophysiology in-vivo using conformal electronics
US8994946B2 (en) * 2010-02-19 2015-03-31 Pacific Biosciences Of California, Inc. Integrated analytical system and method
EP3460458B1 (en) 2010-02-19 2021-08-11 Pacific Biosciences of California, Inc. A method for nucleic acid sequencing
CN104224171B (en) 2010-03-17 2017-06-09 伊利诺伊大学评议会 Implantable bio-medical instrument based on biological absorbable matrix
US10787701B2 (en) 2010-04-05 2020-09-29 Prognosys Biosciences, Inc. Spatially encoded biological assays
CA2794522C (en) 2010-04-05 2019-11-26 Prognosys Biosciences, Inc. Spatially encoded biological assays
US20190300945A1 (en) 2010-04-05 2019-10-03 Prognosys Biosciences, Inc. Spatially Encoded Biological Assays
CN103502463B (en) 2010-12-27 2016-03-16 艾比斯生物科学公司 The preparation method of nucleic acid samples and composition
EP2694709B1 (en) 2011-04-08 2016-09-14 Prognosys Biosciences, Inc. Peptide constructs and assay systems
GB201106254D0 (en) 2011-04-13 2011-05-25 Frisen Jonas Method and product
WO2012158709A1 (en) 2011-05-16 2012-11-22 The Board Of Trustees Of The University Of Illinois Thermally managed led arrays assembled by printing
EP2712491B1 (en) 2011-05-27 2019-12-04 Mc10, Inc. Flexible electronic structure
EP2713863B1 (en) 2011-06-03 2020-01-15 The Board of Trustees of the University of Illionis Conformable actively multiplexed high-density surface electrode array for brain interfacing
US9670538B2 (en) 2011-08-05 2017-06-06 Ibis Biosciences, Inc. Nucleic acid sequencing by electrochemical detection
WO2013089867A2 (en) 2011-12-01 2013-06-20 The Board Of Trustees Of The University Of Illinois Transient devices designed to undergo programmable transformations
EP2872523B1 (en) 2011-12-30 2018-01-17 Abbott Molecular Inc. Microorganism nucleic acid purification from host samples
EP3434789A1 (en) 2012-01-13 2019-01-30 Data2Bio Genotyping by next-generation sequencing
CN105283122B (en) 2012-03-30 2020-02-18 伊利诺伊大学评议会 Appendage mountable electronic device conformable to a surface
CA2867489A1 (en) 2012-03-30 2013-10-03 Pacific Biosciences Of California, Inc. Methods and composition for sequencing modified nucleic acids
ES2683707T3 (en) 2012-05-02 2018-09-27 Ibis Biosciences, Inc. DNA sequencing
ES2840456T3 (en) 2012-05-02 2021-07-06 Ibis Biosciences Inc DNA sequencing
ES2833524T3 (en) 2012-05-02 2021-06-15 Ibis Biosciences Inc DNA sequencing
US9372308B1 (en) 2012-06-17 2016-06-21 Pacific Biosciences Of California, Inc. Arrays of integrated analytical devices and methods for production
WO2013192106A1 (en) 2012-06-17 2013-12-27 Pacific Biosciences Of California, Inc. Filter architecture for analytical devices
US9171794B2 (en) 2012-10-09 2015-10-27 Mc10, Inc. Embedding thin chips in polymer
WO2014062835A1 (en) 2012-10-16 2014-04-24 Abbott Molecular Inc. Methods and apparatus to sequence a nucleic acid
EP3734255B1 (en) 2012-12-18 2022-10-19 Pacific Biosciences Of California, Inc. An optical analytical device
WO2014110017A1 (en) 2013-01-08 2014-07-17 Massachusetts Institute Of Technology Optical phased arrays
US9476981B2 (en) 2013-01-08 2016-10-25 Massachusetts Institute Of Technology Optical phased arrays
US9624540B2 (en) 2013-02-22 2017-04-18 Pacific Biosciences Of California, Inc. Integrated illumination of optical analytical devices
US9581550B2 (en) 2013-05-31 2017-02-28 Pacific Biosciences Of California Analytical devices having compact lens train arrays
US9879313B2 (en) 2013-06-25 2018-01-30 Prognosys Biosciences, Inc. Methods and systems for determining spatial patterns of biological targets in a sample
CA2921620C (en) 2013-08-19 2021-01-19 Abbott Molecular Inc. Next-generation sequencing libraries
US10351899B2 (en) 2013-09-25 2019-07-16 Bio-ID Diagnostics Inc. Methods for detecting nucleic acid fragments
CN110452809B (en) 2013-11-17 2022-07-01 宽腾矽公司 Instrument connected with measuring chip through interface
EP3083700B1 (en) 2013-12-17 2023-10-11 The Brigham and Women's Hospital, Inc. Detection of an antibody against a pathogen
US10018566B2 (en) 2014-02-28 2018-07-10 Ldip, Llc Partially encapsulated waveguide based sensing chips, systems and methods of use
EP2916125A1 (en) 2014-03-07 2015-09-09 One Drop Diagnostics Sàrl Fluorescence-detected assays on microfluidic chips
JP2015225979A (en) * 2014-05-28 2015-12-14 日立金属株式会社 Optical communication module
WO2015200541A1 (en) 2014-06-24 2015-12-30 Bio-Rad Laboratories, Inc. Digital pcr barcoding
JP2017521654A (en) 2014-06-27 2017-08-03 アボット・ラボラトリーズＡｂｂｏｔｔ Ｌａｂｏｒａｔｏｒｉｅｓ Compositions and methods for detecting human pegivirus 2 (HPgV-2)
WO2016023011A1 (en) 2014-08-08 2016-02-11 Quantum-Si Incorporated Integrated device with external light source for probing, detecting, and analyzing molecules
AU2015300766B2 (en) 2014-08-08 2021-02-04 Quantum-Si Incorporated Integrated device for temporal binning of received photons
BR112017002489B1 (en) 2014-08-08 2023-02-14 Quantum-Si Incorporated INSTRUMENT CONFIGURED TO INTERFACE A TEST CHIP, APPARATUS, METHOD OF ANALYZING A SPECIMEN, METHOD OF SEQUENCING A TARGET MOLECULE OF NUCLEIC ACID, AND METHOD OF SEQUENCING NUCLEIC ACID
CA2959518A1 (en) 2014-08-27 2016-03-03 Pacific Biosciences Of California, Inc. Arrays of integrated analytical devices
US10550428B2 (en) 2014-09-17 2020-02-04 Ibis Biosciences, Inc. Sequencing by synthesis using pulse read optics
US10073188B2 (en) * 2014-10-02 2018-09-11 Halliburton Energy Services, Inc. Three-dimensional waveguide sensors for sample analysis
US10302972B2 (en) 2015-01-23 2019-05-28 Pacific Biosciences Of California, Inc. Waveguide transmission
WO2016138427A1 (en) 2015-02-27 2016-09-01 Indx Lifecare, Inc. Waveguide-based detection system with scanning light source
US10487356B2 (en) 2015-03-16 2019-11-26 Pacific Biosciences Of California, Inc. Integrated devices and systems for free-space optical coupling
EP4321627A3 (en) 2015-04-10 2024-04-17 10x Genomics Sweden AB Spatially distinguished, multiplex nucleic acid analysis of biological specimens
US10605730B2 (en) 2015-05-20 2020-03-31 Quantum-Si Incorporated Optical sources for fluorescent lifetime analysis
US11466316B2 (en) 2015-05-20 2022-10-11 Quantum-Si Incorporated Pulsed laser and bioanalytic system
US10246742B2 (en) 2015-05-20 2019-04-02 Quantum-Si Incorporated Pulsed laser and bioanalytic system
US10174363B2 (en) 2015-05-20 2019-01-08 Quantum-Si Incorporated Methods for nucleic acid sequencing
JP2018524566A (en) 2015-06-01 2018-08-30 ザ ボード オブ トラスティーズ オブ ザ ユニヴァーシティー オブ イリノイ Alternative UV sensing method
AU2016270807A1 (en) 2015-06-01 2017-12-14 The Board Of Trustees Of The University Of Illinois Miniaturized electronic systems with wireless power and near-field communication capabilities
AU2016276980B2 (en) 2015-06-12 2021-09-23 Pacific Biosciences Of California, Inc. Integrated target waveguide devices and systems for optical coupling
TWI794145B (en) 2015-10-28 2023-03-01 美商加州太平洋生物科學公司 Arrays of optical devices comprising integrated bandpass filters
US10925543B2 (en) 2015-11-11 2021-02-23 The Board Of Trustees Of The University Of Illinois Bioresorbable silicon electronics for transient implants
US10731211B2 (en) 2015-11-18 2020-08-04 Pacific Biosciences Of California, Inc. Methods and compositions for loading of polymerase complexes
CN108431223A (en) 2016-01-08 2018-08-21 生物辐射实验室股份有限公司 Multiple pearls under per drop resolution
KR20180111999A (en) 2016-02-17 2018-10-11 테서렉트 헬스, 인코포레이티드 Sensors and devices for life-time imaging and detection applications
EP3465159B1 (en) * 2016-06-01 2023-04-05 Quantum-Si Incorporated Integrated device for detecting and analyzing molecules
US11543417B2 (en) 2016-08-29 2023-01-03 Oslo Universitetssykehus Hf ChIP-seq assays
US10283928B2 (en) 2016-12-16 2019-05-07 Quantum-Si Incorporated Compact mode-locked laser module
AU2017378337A1 (en) 2016-12-16 2019-06-20 Quantum-Si Incorporated Compact beam shaping and steering assembly
CN110139932A (en) 2016-12-19 2019-08-16 生物辐射实验室股份有限公司 The labeling DNA that the adjacency of drop mark-on retains
WO2018119347A1 (en) 2016-12-22 2018-06-28 Quantum-Si Incorporated Integrated photodetector with direct binning pixel
JP7211965B2 (en) * 2017-04-07 2023-01-24 ウニベルシテテット イ トロムソ－ノルゲス アークティスク ウニベルシテット Optical components for generating periodic light patterns
US11186862B2 (en) 2017-06-20 2021-11-30 Bio-Rad Laboratories, Inc. MDA using bead oligonucleotide
CN111133294A (en) 2017-07-24 2020-05-08 宽腾矽公司 Photosupressing photonic structures
EP3704247B1 (en) 2017-11-02 2023-01-04 Bio-Rad Laboratories, Inc. Transposase-based genomic analysis
WO2019090192A1 (en) 2017-11-03 2019-05-09 Pacific Biosciences Of California, Inc. Systems, devices, and methods for improved optical waveguide transmission and alignment
US11072827B2 (en) 2018-01-08 2021-07-27 Quantum-Si Incorporated System and methods for electrokinetic loading of sub-micron-scale reaction chambers
AU2019211435A1 (en) 2018-01-26 2020-07-30 Quantum-Si Incorporated Machine learning enabled pulse and base calling for sequencing devices
CN111699253A (en) 2018-01-31 2020-09-22 生物辐射实验室股份有限公司 Methods and compositions for deconvolving a partitioned barcode
US20210040554A1 (en) 2018-03-13 2021-02-11 Innovasion Labs, Inc. Methods for single molecule sequencing
US11512002B2 (en) 2018-04-18 2022-11-29 University Of Virginia Patent Foundation Silica materials and methods of making thereof
MX2020011617A (en) 2018-05-03 2020-12-07 Quantum Si Inc Characterizing an optical element.
MX2020012276A (en) 2018-05-14 2021-01-29 Quantum Si Inc Systems and methods for unifying statistical models for different data modalities.
JP7407131B2 (en) 2018-06-15 2023-12-28 クアンタム－エスアイ インコーポレイテッド Data acquisition control for advanced analytical instruments with pulsed light sources
MX2020013788A (en) 2018-06-22 2021-03-02 Quantum Si Inc Integrated photodetector with charge storage bin of varied detection time.
CN113166807A (en) 2018-08-20 2021-07-23 生物辐射实验室股份有限公司 Nucleotide sequence generation by barcode bead co-localization in partitions
EP3844098A1 (en) 2018-08-29 2021-07-07 Quantum-Si Incorporated Sample well fabrication techniques and structures for integrated sensor devices
BR112021012782A2 (en) 2019-01-03 2021-09-14 Quantum-Si Incorporated OPTICAL WAVEGUIDES AND COUPLERS TO DELIVER LIGHT TO A MATRIX OF PHOTONIC ELEMENTS
KR20220019286A (en) 2019-06-14 2022-02-16 퀀텀-에스아이 인코포레이티드 Slice grating combiner with increased beam alignment sensitivity
CN114222911A (en) 2019-06-19 2022-03-22 宽腾矽公司 Optical nanostructure suppressor for integrated devices and methods thereof
KR20220031482A (en) * 2019-06-28 2022-03-11 일루미나 케임브리지 리미티드 Flowcells with linear waveguides
MX2022000057A (en) 2019-06-28 2022-05-30 Quantum Si Inc Optical and electrical secondary path rejection.
KR20220030917A (en) * 2019-07-08 2022-03-11 일루미나, 인코포레이티드 Waveguide Integration with Optical Coupling Structures on Light Detection Devices
CA3149492A1 (en) 2019-08-08 2021-02-11 Quantum-Si Incorporated Increased emission collection efficiency in integrated optical devices
US11885744B2 (en) 2020-01-14 2024-01-30 Quantum-Si Incorporated Sensor for lifetime plus spectral characterization
AU2021207501A1 (en) 2020-01-14 2022-09-08 Quantum-Si Incorporated Integrated sensor for lifetime characterization
CN111235004B (en) * 2020-01-17 2023-11-07 中国科学院苏州生物医学工程技术研究所 Preparation method of gene sequencing chip
WO2021152586A1 (en) 2020-01-30 2021-08-05 Yeda Research And Development Co. Ltd. Methods of analyzing microbiome, immunoglobulin profile and physiological state
KR20220148273A (en) 2020-03-02 2022-11-04 퀀텀-에스아이 인코포레이티드 Integrated sensor for multidimensional signal analysis
US11573180B2 (en) 2020-04-08 2023-02-07 Quantum-Si Incorporated Integrated sensor with reduced skew
EP4139659A1 (en) * 2020-04-21 2023-03-01 Fluxus, Inc. Waveguide structure with aperture array
WO2021214766A1 (en) 2020-04-21 2021-10-28 Yeda Research And Development Co. Ltd. Methods of diagnosing viral infections and vaccines thereto
CA3199075A1 (en) 2020-10-22 2022-04-28 Quantum-Si Incorporated Integrated circuit with sequentially-coupled charge storage and associated techniques
CN112779152A (en) * 2020-12-30 2021-05-11 中国科学院长春光学精密机械与物理研究所 Gene sequencing chip and system

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5157196A (en) * 1990-12-24 1992-10-20 Chemical Research & Licensing Company Paraffin alkylation process
US6437345B1 (en) * 1998-05-14 2002-08-20 Zeptosens Ag Sensing unit provided with separated detection light guiding
US20040046128A1 (en) * 1999-06-05 2004-03-11 Andreas Peter Abel Sensor platform and method for the determination of multiple analytes
US20060103850A1 (en) * 2004-11-12 2006-05-18 Alphonse Gerard A Single trace multi-channel low coherence interferometric sensor

Family Cites Families (105)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4994373A (en) 1983-01-27 1991-02-19 Enzo Biochem, Inc. Method and structures employing chemically-labelled polynucleotide probes
US4626684A (en) * 1983-07-13 1986-12-02 Landa Isaac J Rapid and automatic fluorescence immunoassay analyzer for multiple micro-samples
US5821058A (en) 1984-01-16 1998-10-13 California Institute Of Technology Automated DNA sequencing technique
EP0244394B1 (en) * 1986-04-23 1992-06-17 AVL Medical Instruments AG Sensor element for determining the concentration of substances
GB8911462D0 (en) 1989-05-18 1989-07-05 Ares Serono Res & Dev Ltd Devices for use in chemical test procedures
US6919211B1 (en) 1989-06-07 2005-07-19 Affymetrix, Inc. Polypeptide arrays
US5143854A (en) 1989-06-07 1992-09-01 Affymax Technologies N.V. Large scale photolithographic solid phase synthesis of polypeptides and receptor binding screening thereof
US5547839A (en) 1989-06-07 1996-08-20 Affymax Technologies N.V. Sequencing of surface immobilized polymers utilizing microflourescence detection
US5744101A (en) 1989-06-07 1998-04-28 Affymax Technologies N.V. Photolabile nucleoside protecting groups
DE3926604A1 (en) 1989-08-11 1991-02-14 Hoechst Ag POLYIMIDE WAVE GUIDE AS OPTICAL SENSORS
EP0450060A1 (en) 1989-10-26 1991-10-09 Sri International Dna sequencing
US5173747A (en) 1990-09-20 1992-12-22 Battelle Memorial Institute Integrated optical directional-coupling refractometer apparatus
US5239178A (en) 1990-11-10 1993-08-24 Carl Zeiss Optical device with an illuminating grid and detector grid arranged confocally to an object
US5233873A (en) * 1991-07-03 1993-08-10 Texas Instruments Incorporated Accelerometer
US5233673A (en) * 1991-10-09 1993-08-03 Hughes Aircraft Company Output steerable optical phased array
US5446534A (en) 1993-03-05 1995-08-29 Optical Solutions, Inc. Broad band waveguide spectrometer
US5677196A (en) * 1993-05-18 1997-10-14 University Of Utah Research Foundation Apparatus and methods for multi-analyte homogeneous fluoro-immunoassays
DK0710375T3 (en) * 1993-07-19 1999-09-20 Cheyenne Advanced Tech Ltd File backup system
US5470710A (en) 1993-10-22 1995-11-28 University Of Utah Automated hybridization/imaging device for fluorescent multiplex DNA sequencing
US5578832A (en) 1994-09-02 1996-11-26 Affymetrix, Inc. Method and apparatus for imaging a sample on a device
US5631734A (en) 1994-02-10 1997-05-20 Affymetrix, Inc. Method and apparatus for detection of fluorescently labeled materials
US5437345A (en) * 1994-02-16 1995-08-01 Pierce Manufacturing Inc. Pinnable waterway
US5439647A (en) 1994-02-25 1995-08-08 Fiberchem, Inc. Chip level waveguide sensor
US5695934A (en) 1994-10-13 1997-12-09 Lynx Therapeutics, Inc. Massively parallel sequencing of sorted polynucleotides
WO1996027025A1 (en) 1995-02-27 1996-09-06 Ely Michael Rabani Device, compounds, algorithms, and methods of molecular characterization and manipulation with molecular parallelism
US6017434A (en) 1995-05-09 2000-01-25 Curagen Corporation Apparatus and method for the generation, separation, detection, and recognition of biopolymer fragments
US5545531A (en) 1995-06-07 1996-08-13 Affymax Technologies N.V. Methods for making a device for concurrently processing multiple biological chip assays
JP3039347B2 (en) * 1995-12-27 2000-05-08 日立電線株式会社 Optical component with switching function and waveguide filter used for the same
US5867266A (en) 1996-04-17 1999-02-02 Cornell Research Foundation, Inc. Multiple optical channels for chemical analysis
WO1998053093A1 (en) 1997-05-23 1998-11-26 Bioarray Solutions Llc Color-encoding and in-situ interrogation of matrix-coupled chemical compounds
US6071748A (en) 1997-07-16 2000-06-06 Ljl Biosystems, Inc. Light detection device
DE69808661T3 (en) 1997-07-28 2012-05-03 Gen-Probe Inc. SEQUENCE ANALYSIS OF NUCLEIC ACIDS
US6388788B1 (en) 1998-03-16 2002-05-14 Praelux, Inc. Method and apparatus for screening chemical compounds
US6787308B2 (en) 1998-07-30 2004-09-07 Solexa Ltd. Arrayed biomolecules and their use in sequencing
CA2339121A1 (en) 1998-07-30 2000-02-10 Shankar Balasubramanian Arrayed biomolecules and their use in sequencing
US6210896B1 (en) 1998-08-13 2001-04-03 Us Genomics Molecular motors
US6263286B1 (en) 1998-08-13 2001-07-17 U.S. Genomics, Inc. Methods of analyzing polymers using a spatial network of fluorophores and fluorescence resonance energy transfer
KR20010090718A (en) 1998-08-21 2001-10-19 써로메드, 인크. Novel optical architectures for microvolume laser-scanning cytometers
US5972641A (en) 1998-08-28 1999-10-26 Colifast Systems Asa Rapid coliform detection system
AU2180200A (en) 1998-12-14 2000-07-03 Li-Cor Inc. A heterogeneous assay for pyrophosphate detection
US6438279B1 (en) 1999-01-07 2002-08-20 Cornell Research Foundation, Inc. Unitary microcapiliary and waveguide structure and method of fabrication
US6330388B1 (en) * 1999-01-27 2001-12-11 Northstar Photonics, Inc. Method and apparatus for waveguide optics and devices
EP1163052B1 (en) 1999-02-23 2010-06-02 Caliper Life Sciences, Inc. Manipulation of microparticles in microfluidic systems
US6192168B1 (en) * 1999-04-09 2001-02-20 The United States Of America As Represented By The Secretary Of The Navy Reflectively coated optical waveguide and fluidics cell integration
US7056661B2 (en) 1999-05-19 2006-06-06 Cornell Research Foundation, Inc. Method for sequencing nucleic acid molecules
US6287774B1 (en) 1999-05-21 2001-09-11 Caliper Technologies Corp. Assay methods and system
US6818395B1 (en) 1999-06-28 2004-11-16 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences
US7209836B1 (en) 1999-07-16 2007-04-24 Perkinelmer Las, Inc. Method and system for automatically creating crosstalk-corrected data of a microarray
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
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
US6867851B2 (en) 1999-11-04 2005-03-15 Regents Of The University Of Minnesota Scanning of biological samples
US6784982B1 (en) 1999-11-04 2004-08-31 Regents Of The University Of Minnesota Direct mapping of DNA chips to detector arrays
US6399335B1 (en) 1999-11-16 2002-06-04 Advanced Research And Technology Institute, Inc. γ-phosphoester nucleoside triphosphates
DE10012793C2 (en) * 2000-03-13 2002-01-24 Fraunhofer Ges Forschung Sensor element for optical detection of chemical or biochemical analytes
WO2001084197A1 (en) * 2000-04-28 2001-11-08 Edgelight Biosciences, Inc. Micro-array evanescent wave fluorescence detection device
US6690467B1 (en) 2000-05-05 2004-02-10 Pe Corporation Optical system and method for optically analyzing light from a sample
US6917726B2 (en) 2001-09-27 2005-07-12 Cornell Research Foundation, Inc. Zero-mode clad waveguides for performing spectroscopy with confined effective observation volumes
US6869764B2 (en) 2000-06-07 2005-03-22 L--Cor, Inc. Nucleic acid sequencing using charge-switch nucleotides
GB0016473D0 (en) 2000-07-05 2000-08-23 Amersham Pharm Biotech Uk Ltd Sequencing method
GB0016472D0 (en) 2000-07-05 2000-08-23 Amersham Pharm Biotech Uk Ltd Sequencing method and apparatus
JP2002050778A (en) 2000-08-02 2002-02-15 Nippon Sheet Glass Co Ltd Light-receiving element array, and optical communication monitor module using the same
US6545758B1 (en) 2000-08-17 2003-04-08 Perry Sandstrom Microarray detector and synthesizer
US6467969B1 (en) * 2000-09-15 2002-10-22 Agere Systems Guardian Corp. Article comprising a multimode optical fiber coupler
CN1257405C (en) * 2001-01-26 2006-05-24 比奥卡尔技术公司 Optical detection in multi-channel bio-separation system
US7033762B2 (en) 2001-08-29 2006-04-25 Amersham Biosciences Corp Single nucleotide amplification and detection by polymerase
US7560254B2 (en) 2001-08-29 2009-07-14 Ge Healthcare Bio-Sciences Corp. Allele specific primer extension
US7244566B2 (en) 2001-08-29 2007-07-17 Ge Healthcare Bio-Sciences Corp. Analyte detection
US7041812B2 (en) 2001-08-29 2006-05-09 Amersham Biosciences Corp Labeled nucleoside polyphosphates
US7052839B2 (en) 2001-08-29 2006-05-30 Amersham Biosciences Corp Terminal-phosphate-labeled nucleotides and methods of use
US6904186B2 (en) * 2001-11-16 2005-06-07 Ngk Insulators, Ltd. Optical modulators and a method for modulating light
US7189361B2 (en) 2001-12-19 2007-03-13 3M Innovative Properties Company Analytical device with lightguide Illumination of capillary and microgrooves arrays
US6991726B2 (en) 2002-07-01 2006-01-31 Usfilter Corporation Filter having a media retaining plate
JP2004069395A (en) * 2002-08-02 2004-03-04 Nec Corp Microchip, method for manufacturing the same, and constituent detection method
US20040081384A1 (en) * 2002-10-25 2004-04-29 Datesman Aaron M. Multiple-mode planar-waveguide sensor, fabrication materials and techniques
US6961495B2 (en) 2003-01-27 2005-11-01 Intel Corporation Heating optical devices
US6970240B2 (en) 2003-03-10 2005-11-29 Applera Corporation Combination reader
WO2004100068A2 (en) 2003-05-05 2004-11-18 D3D, L.P. Optical coherence tomography imaging
TWI329208B (en) * 2003-06-03 2010-08-21 Oerlikon Trading Ag Optical substrate for enhanced detectability of fluorescence
FI20030867A (en) 2003-06-10 2004-12-11 Wallac Oy Optical measuring method and laboratory measuring apparatus
US7075059B2 (en) 2003-09-11 2006-07-11 Applera Corporation Image enhancement by sub-pixel imaging
US7323681B1 (en) 2003-09-11 2008-01-29 Applera Corporation Image enhancement by sub-pixel imaging
US7233393B2 (en) 2004-08-05 2007-06-19 Applera Corporation Signal noise reduction for imaging in biological analysis
US20050135974A1 (en) 2003-12-18 2005-06-23 Harvey Michael A. Device for preparing multiple assay samples using multiple array surfaces
US7075695B2 (en) 2004-03-01 2006-07-11 Lucent Technologies Inc. Method and apparatus for controlling a bias voltage of a Mach-Zehnder modulator
US7302348B2 (en) 2004-06-02 2007-11-27 Agilent Technologies, Inc. Method and system for quantifying and removing spatial-intensity trends in microarray data
GB2423819B (en) * 2004-09-17 2008-02-06 Pacific Biosciences California Apparatus and method for analysis of molecules
US7170050B2 (en) * 2004-09-17 2007-01-30 Pacific Biosciences Of California, Inc. Apparatus and methods for optical analysis of molecules
US20070048748A1 (en) 2004-09-24 2007-03-01 Li-Cor, Inc. Mutant polymerases for sequencing and genotyping
EP1846758A2 (en) * 2005-02-09 2007-10-24 Pacific Biosciences of California, Inc. Nucleotide compositions and uses thereof
US7130041B2 (en) 2005-03-02 2006-10-31 Li-Cor, Inc. On-chip spectral filtering using CCD array for imaging and spectroscopy
GB0507835D0 (en) 2005-04-18 2005-05-25 Solexa Ltd Method and device for nucleic acid sequencing using a planar wave guide
WO2006116726A2 (en) 2005-04-28 2006-11-02 Applera Corporation Multi-color light detection with imaging detectors
EP2278303A3 (en) 2005-06-10 2012-02-22 Life Technologies Corporation Method and system for multiplex genetic analysis
US20060291706A1 (en) 2005-06-23 2006-12-28 Applera Corporation Method of extracting intensity data from digitized image
US7227128B2 (en) 2005-06-30 2007-06-05 Applera Corporation System and methods for improving signal/noise ratio for signal detectors
WO2007011549A1 (en) 2005-06-30 2007-01-25 Applera Corporation Two-dimensional spectral imaging system
US20070099212A1 (en) 2005-07-28 2007-05-03 Timothy Harris Consecutive base single molecule sequencing
US7805081B2 (en) 2005-08-11 2010-09-28 Pacific Biosciences Of California, Inc. Methods and systems for monitoring multiple optical signals from a single source
US7995202B2 (en) 2006-02-13 2011-08-09 Pacific Biosciences Of California, Inc. Methods and systems for simultaneous real-time monitoring of optical signals from multiple sources
US7692783B2 (en) 2006-02-13 2010-04-06 Pacific Biosciences Of California Methods and systems for simultaneous real-time monitoring of optical signals from multiple sources
US7715001B2 (en) 2006-02-13 2010-05-11 Pacific Biosciences Of California, Inc. Methods and systems for simultaneous real-time monitoring of optical signals from multiple sources
EP2027442A2 (en) 2006-05-16 2009-02-25 Applied Biosystems, Inc. Systems, methods, and apparatus for single molecule sequencing
US20080033677A1 (en) 2006-06-27 2008-02-07 Applera Corporation Methods And System For Compensating For Spatial Cross-Talk
US7803609B2 (en) 2006-07-21 2010-09-28 Affymetrix, Inc. System, method, and product for generating patterned illumination
EP4220138A1 (en) 2006-09-01 2023-08-02 Pacific Biosciences of California, Inc. Substrates, systems and methods for analyzing materials

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5157196A (en) * 1990-12-24 1992-10-20 Chemical Research & Licensing Company Paraffin alkylation process
US6437345B1 (en) * 1998-05-14 2002-08-20 Zeptosens Ag Sensing unit provided with separated detection light guiding
US20040046128A1 (en) * 1999-06-05 2004-03-11 Andreas Peter Abel Sensor platform and method for the determination of multiple analytes
US20060103850A1 (en) * 2004-11-12 2006-05-18 Alphonse Gerard A Single trace multi-channel low coherence interferometric sensor

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