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 EP23151617.0A priority Critical patent/EP4220138A1/en
Priority to EP21190541.9A priority patent/EP3936857B1/en
Priority to EP07814642.0A priority patent/EP2064488B1/en
Priority to AU2007289057A priority patent/AU2007289057C1/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
EP23151617.0A EP4220138A1 (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
AU2007289057A AU2007289057C1 (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) EP2064488B1 (en)
AU (1) AU2007289057C1 (en)
CA (1) CA2662521C (en)
WO (1) WO2008028160A2 (en)

Families Citing this family (140)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7622367B1 (en) 2004-06-04 2009-11-24 The Board Of Trustees Of The University Of Illinois Methods and devices for fabricating and assembling printable semiconductor elements
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
US8288157B2 (en) 2007-09-12 2012-10-16 Plc Diagnostics, Inc. Waveguide-based optical scanning systems
US9423397B2 (en) 2006-03-10 2016-08-23 Indx Lifecare, Inc. Waveguide-based detection system with scanning light source
US9528939B2 (en) 2006-03-10 2016-12-27 Indx Lifecare, Inc. Waveguide-based optical scanning systems
US9976192B2 (en) 2006-03-10 2018-05-22 Ldip, Llc Waveguide-based detection system with scanning light source
AU2007289057C1 (en) * 2006-09-01 2014-01-16 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
EP2086749B1 (en) 2006-11-03 2013-05-08 Trustees Of Tufts College Nanopatterned biopolymer optical device and method of manufacturing the same
US8529835B2 (en) 2006-11-03 2013-09-10 Tufts University Biopolymer sensor and method of manufacturing the same
CA2704309C (en) * 2006-11-03 2017-02-28 Trustees Of Tufts College Electroactive biopolymer optical and electro-optical devices and method of manufacturing the same
US20100046902A1 (en) * 2006-11-03 2010-02-25 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
US20110135697A1 (en) * 2008-06-18 2011-06-09 Trustees Of 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
US8481264B2 (en) * 2008-09-19 2013-07-09 Pacific Biosciences Of California, Inc. Immobilized nucleic acid complexes for sequence analysis
US8921046B2 (en) 2008-09-19 2014-12-30 Pacific Biosciences Of California, Inc. Nucleic acid 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
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
JP5646492B2 (en) 2008-10-07 2014-12-24 エムシー１０ インコーポレイテッドＭｃ１０，Ｉｎｃ． Stretchable integrated circuit and device with sensor array
US8372726B2 (en) 2008-10-07 2013-02-12 Mc10, Inc. Methods and applications of non-planar imaging arrays
EP2370598B1 (en) 2008-12-11 2017-02-15 Pacific Biosciences Of California, Inc. Classification of nucleic acid templates
WO2010126640A2 (en) 2009-02-12 2010-11-04 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
EP2425286B1 (en) 2009-04-29 2020-06-24 Ldip, Llc Waveguide-based detection system with scanning light source
WO2010129536A2 (en) * 2009-05-04 2010-11-11 University Of Delaware System and method for free-space optical interconnections
EP2438481A4 (en) 2009-06-05 2013-06-26 C8 Medisensors Inc Apparatus for transforming the aspect ratio of an optical input field based on stacked waveguides
JP2012533780A (en) 2009-07-20 2012-12-27 タフツ ユニバーシティー／トラスティーズ オブ タフツ カレッジ Implantable absorptive reflector made of protein only
US8155487B2 (en) * 2009-08-03 2012-04-10 Nitto Denko Corporation Sensor element
EP2474054A4 (en) 2009-08-31 2013-03-13 Tufts University Trustees Of Tufts College Silk transistor devices
US9723122B2 (en) 2009-10-01 2017-08-01 Mc10, Inc. Protective cases with integrated electronics
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
US9936574B2 (en) 2009-12-16 2018-04-03 The Board Of Trustees Of The University Of Illinois Waterproof stretchable optoelectronics
EP2513953B1 (en) 2009-12-16 2017-10-18 The Board of Trustees of the University of Illionis Electrophysiology using conformal electronics
US8994946B2 (en) * 2010-02-19 2015-03-31 Pacific Biosciences Of California, Inc. Integrated analytical system and method
EP3943920B1 (en) 2010-02-19 2024-04-03 Pacific Biosciences Of California, Inc. Integrated analytical system and method for fluorescence measurement
KR101837481B1 (en) 2010-03-17 2018-03-13 더 보드 오브 트러스티즈 오브 더 유니버시티 오브 일리노이 implantable biomedical devices on bioresorbable substrates
US20190300945A1 (en) 2010-04-05 2019-10-03 Prognosys Biosciences, Inc. Spatially Encoded Biological Assays
US10787701B2 (en) 2010-04-05 2020-09-29 Prognosys Biosciences, Inc. Spatially encoded biological assays
DK2556171T3 (en) 2010-04-05 2015-12-14 Prognosys Biosciences Inc Spatially CODED BIOLOGICAL ASSAYS
US9109222B2 (en) 2010-12-27 2015-08-18 Ibis Biosciences, Inc. Nucleic acid sample preparation methods and compositions
EP3150750B1 (en) 2011-04-08 2018-12-26 Prognosys Biosciences, Inc. Peptide constructs and assay systems
GB201106254D0 (en) 2011-04-13 2011-05-25 Frisen Jonas Method and product
US9765934B2 (en) 2011-05-16 2017-09-19 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
WO2013022778A1 (en) 2011-08-05 2013-02-14 Ibis Biosciences, Inc. Nucleic acid sequencing by electrochemical detection
CN104472023B (en) 2011-12-01 2018-03-27 伊利诺伊大学评议会 It is designed to undergo the transient state device of programmable transformation
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
KR20150004819A (en) 2012-03-30 2015-01-13 더 보오드 오브 트러스티스 오브 더 유니버시티 오브 일리노이즈 Appendage mountable electronic devices conformable to surfaces
WO2013148400A1 (en) 2012-03-30 2013-10-03 Pacific Biosciences Of California, Inc. Methods and composition for sequencing modified nucleic acids
EP3789502A1 (en) 2012-05-02 2021-03-10 Ibis Biosciences, Inc. Dna sequencing
US10584377B2 (en) 2012-05-02 2020-03-10 Ibis Biosciences, Inc. DNA sequencing
ES2683707T3 (en) 2012-05-02 2018-09-27 Ibis Biosciences, Inc. DNA sequencing
WO2013192106A1 (en) 2012-06-17 2013-12-27 Pacific Biosciences Of California, Inc. Filter architecture for analytical devices
US9372308B1 (en) 2012-06-17 2016-06-21 Pacific Biosciences Of California, Inc. Arrays of integrated analytical devices and methods for production
US9171794B2 (en) 2012-10-09 2015-10-27 Mc10, Inc. Embedding thin chips in polymer
ES2701750T3 (en) 2012-10-16 2019-02-25 Abbott Molecular Inc Procedures for sequencing a nucleic acid
WO2014099776A1 (en) 2012-12-18 2014-06-26 Pacific Biosciences Of California, Inc. Illumination of optical analytical devices
EP3388892A1 (en) 2013-01-08 2018-10-17 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
WO2014194028A1 (en) 2013-05-31 2014-12-04 Pacific Biosciences Of California, Inc Analytical devices having compact lens train arrays
CN111662960B (en) 2013-06-25 2024-04-12 普罗格诺西斯生物科学公司 Spatially encoded bioanalytical analysis using microfluidic devices
ES2873850T3 (en) 2013-08-19 2021-11-04 Abbott Molecular Inc Next Generation Sequencing Libraries
WO2015042708A1 (en) 2013-09-25 2015-04-02 Bio-Id Diagnostic Inc. Methods for detecting nucleic acid fragments
EP3068900B1 (en) 2013-11-17 2020-01-08 Quantum-Si Incorporated Active-source-pixel, integrated device for rapid analysis of biological and chemical speciments
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
CN107209188A (en) 2014-06-27 2017-09-26 雅培制药有限公司 Composition and method for detecting people Pegivirus 2 (HPgV 2)
MX2017001808A (en) 2014-08-08 2018-02-08 Quantum Si Inc Integrated device with external light source for probing, detecting, and analyzing molecules.
WO2016023010A1 (en) 2014-08-08 2016-02-11 Quantum-Si Incorporated Optical system and assay chip for probing, detecting, and analyzing molecules
WO2016022998A2 (en) 2014-08-08 2016-02-11 Quantum-Si Incorporated Integrated device for temporal binning of received photons
US9606068B2 (en) 2014-08-27 2017-03-28 Pacific Biosciences Of California, Inc. Arrays of integrated analytical devices
WO2016044391A1 (en) 2014-09-17 2016-03-24 Ibis Biosciences, Inc. Sequencing by synthesis using pulse read optics
BR112017005426A2 (en) * 2014-10-02 2017-12-12 Halliburton Energy Services Inc sensor to measure a characteristic of a substance and method for manufacturing a sensor
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
EP4220256A1 (en) 2015-03-16 2023-08-02 Pacific Biosciences of California, Inc. Analytical system comprising integrated devices and systems for free-space optical coupling
DK3901281T3 (en) 2015-04-10 2023-01-23 Spatial Transcriptomics Ab SPATIALLY SEPARATE, MULTIPLEX NUCLEIC ACID ANALYSIS OF BIOLOGICAL SAMPLES
US10174363B2 (en) 2015-05-20 2019-01-08 Quantum-Si Incorporated Methods for nucleic acid sequencing
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
EP3304130B1 (en) 2015-06-01 2021-10-06 The Board of Trustees of the University of Illinois Alternative approach to uv sensing
US10677647B2 (en) 2015-06-01 2020-06-09 The Board Of Trustees Of The University Of Illinois Miniaturized electronic systems with wireless power and near-field communication capabilities
WO2016201387A1 (en) 2015-06-12 2016-12-15 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
EP3400298B1 (en) 2016-01-08 2024-03-06 Bio-Rad Laboratories, Inc. Multiple beads per droplet resolution
JP2019512090A (en) 2016-02-17 2019-05-09 テッセラクト ヘルス インコーポレイテッドＴｅｓｓｅｒａｃｔ Ｈｅａｌｔｈ，Ｉｎｃ． Sensors and Devices for Lifetime Imaging and Detection Applications
TW202219491A (en) 2016-06-01 2022-05-16 美商寬騰矽公司 Photonic structures and integrated device for detecting and analyzing molecules
WO2018042251A1 (en) 2016-08-29 2018-03-08 Oslo Universitetssykehus Hf Chip-seq assays
US10283928B2 (en) 2016-12-16 2019-05-07 Quantum-Si Incorporated Compact mode-locked laser module
JP7050068B2 (en) 2016-12-16 2022-04-07 クアンタム－エスアイ インコーポレイテッド Compact beam forming and steering assembly
WO2018118971A1 (en) 2016-12-19 2018-06-28 Bio-Rad Laboratories, Inc. Droplet tagging contiguity preserved tagmented dna
MX2019007530A (en) 2016-12-22 2019-08-16 Quantum Si Inc Integrated photodetector with direct binning pixel.
AU2018248702B2 (en) 2017-04-07 2022-07-21 Universitetet I Tromsø - Norges Arktiske Universitet Optical component for generating a periodic light pattern
WO2018236918A1 (en) 2017-06-20 2018-12-27 Bio-Rad Laboratories, Inc. Mda using bead oligonucleotide
JP7212030B2 (en) 2017-07-24 2023-01-24 クアンタム－エスアイ インコーポレイテッド light-rejecting photonic structures
US10907205B2 (en) 2017-11-02 2021-02-02 Bio-Rad Laboratories, Inc. Transposase-based genomic analysis
US10948652B2 (en) 2017-11-03 2021-03-16 Pacific Biosciences Of California, Inc. Systems, devices, and methods for improved optical waveguide transmission and alignment
WO2019136202A2 (en) 2018-01-08 2019-07-11 Quantum-Si Incorporated System and methods for electrokinetic loading of sub-scale reaction chambers
MX2020007904A (en) 2018-01-26 2020-09-07 Quantum Si Inc Machine learning enabled pulse and base calling for sequencing devices.
EP4324962A2 (en) 2018-01-31 2024-02-21 Bio-Rad Laboratories, Inc. Methods and compositions for deconvoluting partition barcodes
WO2019178302A1 (en) 2018-03-13 2019-09-19 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
JP2021523562A (en) 2018-05-03 2021-09-02 クアンタム−エスアイ インコーポレイテッドＱｕａｎｔｕｍ−Ｓｉ Ｉｎｃｏｒｐｏｒａｔｅｄ Characterization of optics
US10956787B2 (en) 2018-05-14 2021-03-23 Quantum-Si Incorporated Systems and methods for unifying statistical models for different data modalities
US11967436B2 (en) 2018-05-30 2024-04-23 Quantum-Si Incorporated Methods and apparatus for making biological predictions using a trained multi-modal statistical model
AU2019287768A1 (en) 2018-06-15 2020-12-24 Quantum-Si Incorporated Data acquisition control for advanced analytic instruments having pulsed optical sources
AU2019288394A1 (en) 2018-06-22 2021-01-07 Quantum-Si Incorporated Integrated photodetector with charge storage bin of varied detection time
EP4249651A3 (en) 2018-08-20 2023-10-18 Bio-Rad Laboratories, Inc. Nucleotide sequence generation by barcode bead-colocalization in partitions
WO2020047272A1 (en) 2018-08-29 2020-03-05 Quantum-Si Incorporated Sample well fabrication techniques and structures for integrated sensor devices
TW202041847A (en) 2019-01-03 2020-11-16 美商寬騰矽公司 Optical waveguides and couplers for delivering light to an array of photonic elements
US11747561B2 (en) 2019-06-14 2023-09-05 Quantum-Si Incorporated Sliced grating coupler with increased beam alignment sensitivity
KR20220024702A (en) 2019-06-19 2022-03-03 퀀텀-에스아이 인코포레이티드 Optical nanostructure eliminator and related methods for integrated devices
CA3104755A1 (en) * 2019-06-28 2020-12-30 Illumina Cambridge Limited Flowcells with linear waveguides
WO2020264331A1 (en) 2019-06-28 2020-12-30 Quantum-Si Incorporated Optical and electrical secondary path rejection
EP3997454A4 (en) * 2019-07-08 2023-07-05 Illumina, Inc. Waveguide integration with optical coupling structures on light detection device
EP4004525A1 (en) 2019-08-08 2022-06-01 Quantum-Si Incorporated Increased emission collection efficiency in integrated optical devices
US11869917B2 (en) 2020-01-14 2024-01-09 Quantum-Si Incorporated Integrated sensor for lifetime characterization
AU2021208557A1 (en) 2020-01-14 2022-09-01 Quantum-Si Incorporated Sensor for lifetime plus spectral 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
TW202147591A (en) 2020-03-02 2021-12-16 美商寬騰矽公司 Integrated sensor for multi-dimensional signal analysis
US11573180B2 (en) 2020-04-08 2023-02-07 Quantum-Si Incorporated Integrated sensor with reduced skew
WO2021214766A1 (en) 2020-04-21 2021-10-28 Yeda Research And Development Co. Ltd. Methods of diagnosing viral infections and vaccines thereto
EP4139659A1 (en) * 2020-04-21 2023-03-01 Fluxus, Inc. Waveguide structure with aperture array
AU2021366690A1 (en) 2020-10-22 2023-06-08 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
ATE77483T1 (en) * 1986-04-23 1992-07-15 Avl Medical Instr Ag SENSOR ELEMENT FOR DETERMINING SUBSTANCE CONCENTRATIONS.
GB8911462D0 (en) 1989-05-18 1989-07-05 Ares Serono Res & Dev Ltd Devices for use in chemical test procedures
US5744101A (en) 1989-06-07 1998-04-28 Affymax Technologies N.V. Photolabile nucleoside protecting groups
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
US6919211B1 (en) 1989-06-07 2005-07-19 Affymetrix, Inc. Polypeptide arrays
DE3926604A1 (en) 1989-08-11 1991-02-14 Hoechst Ag POLYIMIDE WAVE GUIDE AS OPTICAL SENSORS
CA2044616A1 (en) 1989-10-26 1991-04-27 Roger Y. Tsien 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
DE69420979T2 (en) * 1993-07-19 2000-01-20 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
US5631734A (en) 1994-02-10 1997-05-20 Affymetrix, Inc. Method and apparatus for detection of fluorescently labeled materials
US5578832A (en) 1994-09-02 1996-11-26 Affymetrix, Inc. Method and apparatus for imaging a sample on a device
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
AU5171696A (en) 1995-02-27 1996-09-18 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
DE69838067T2 (en) 1997-05-23 2008-03-13 Bioarray Solutions Ltd. COLOR CODING AND SITU INQUIRY OF MATRIX-COUPLED CHEMICAL COMPOUNDS
US6071748A (en) 1997-07-16 2000-06-06 Ljl Biosystems, Inc. Light detection device
ATE225858T1 (en) 1997-07-28 2002-10-15 Medical Biosystems Ltd 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
US6603537B1 (en) 1998-08-21 2003-08-05 Surromed, Inc. Optical architectures for microvolume laser-scanning cytometers
US5972641A (en) 1998-08-28 1999-10-26 Colifast Systems Asa Rapid coliform detection system
US6232075B1 (en) 1998-12-14 2001-05-15 Li-Cor, Inc. 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
ATE556149T1 (en) 1999-02-23 2012-05-15 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
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
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
US6784982B1 (en) 1999-11-04 2004-08-31 Regents Of The University Of Minnesota Direct mapping of DNA chips to detector arrays
US6867851B2 (en) 1999-11-04 2005-03-15 Regents Of The University Of Minnesota Scanning of biological samples
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
GB0016472D0 (en) 2000-07-05 2000-08-23 Amersham Pharm Biotech Uk Ltd Sequencing method and apparatus
GB0016473D0 (en) 2000-07-05 2000-08-23 Amersham Pharm Biotech Uk Ltd Sequencing method
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
DE60220497T2 (en) * 2001-01-26 2008-01-31 Biocal Technology, Inc., Irvine OPTICAL DETECTION IN A MULTI-CHANNEL BIOSEPARATION SYSTEM
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
US7033762B2 (en) 2001-08-29 2006-04-25 Amersham Biosciences Corp Single nucleotide amplification and detection by polymerase
US7052839B2 (en) 2001-08-29 2006-05-30 Amersham Biosciences Corp Terminal-phosphate-labeled nucleotides and methods of use
ATE458067T1 (en) 2001-08-29 2010-03-15 Ge Healthcare Bio Sciences LABELED NUCLEOSIDE POLYPHOSPHATES
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
AU2004237243B2 (en) 2003-05-05 2010-11-11 D4D Technologies, Llc 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
US7323681B1 (en) 2003-09-11 2008-01-29 Applera Corporation Image enhancement by sub-pixel imaging
US7075059B2 (en) 2003-09-11 2006-07-11 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
US7170050B2 (en) 2004-09-17 2007-01-30 Pacific Biosciences Of California, Inc. Apparatus and methods for optical analysis of molecules
CA2579150C (en) * 2004-09-17 2014-11-25 Pacific Biosciences Of California, Inc. Apparatus and method for analysis of molecules
US20070048748A1 (en) 2004-09-24 2007-03-01 Li-Cor, Inc. Mutant polymerases for sequencing and genotyping
AU2006213692C1 (en) * 2005-02-09 2011-08-04 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
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
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
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
WO2007137060A2 (en) 2006-05-16 2007-11-29 Applied Biosystems 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
AU2007289057C1 (en) 2006-09-01 2014-01-16 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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