WO1998053300A3 - System and apparaus for sequential processing of analytes - Google Patents

System and apparaus for sequential processing of analytes Download PDF

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Publication number
WO1998053300A3
WO1998053300A3 PCT/US1998/011224 US9811224W WO9853300A3 WO 1998053300 A3 WO1998053300 A3 WO 1998053300A3 US 9811224 W US9811224 W US 9811224W WO 9853300 A3 WO9853300 A3 WO 9853300A3
Authority
WO
WIPO (PCT)
Prior art keywords
microparticles
analytes
microparticle
planar array
sequence
Prior art date
Application number
PCT/US1998/011224
Other languages
French (fr)
Other versions
WO1998053300A2 (en
Inventor
Michael C Pallas
Sydney Brenner
John Bridgham
Kevin Corcoran
George Golda
Original Assignee
Lynx Therapeutics Inc
Michael C Pallas
Sydney Brenner
John Bridgham
Kevin Corcoran
George Golda
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
Family has litigation
First worldwide family litigation filed litigation Critical https://patents.darts-ip.com/?family=25338847&utm_source=google_patent&utm_medium=platform_link&utm_campaign=public_patent_search&patent=WO1998053300(A3) "Global patent litigation dataset” by Darts-ip is licensed under a Creative Commons Attribution 4.0 International License.
Priority to EP98925137A priority Critical patent/EP0985142A4/en
Priority to AU77155/98A priority patent/AU736321B2/en
Priority to US09/424,028 priority patent/US6406848B1/en
Priority to CA002291180A priority patent/CA2291180A1/en
Priority to JP55075798A priority patent/JP4294740B2/en
Application filed by Lynx Therapeutics Inc, Michael C Pallas, Sydney Brenner, John Bridgham, Kevin Corcoran, George Golda filed Critical Lynx Therapeutics Inc
Publication of WO1998053300A2 publication Critical patent/WO1998053300A2/en
Publication of WO1998053300A3 publication Critical patent/WO1998053300A3/en
Priority to US09/907,795 priority patent/US6654505B2/en
Priority to US09/908,131 priority patent/US6969488B2/en
Priority to US10/407,089 priority patent/US20030224419A1/en
Priority to US11/207,443 priority patent/US7282370B2/en
Priority to US11/974,239 priority patent/US8361713B2/en
Priority to US13/693,658 priority patent/US8728729B2/en
Priority to US14/245,723 priority patent/US9273354B2/en

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6869—Methods for sequencing
    • C12Q1/6874—Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J19/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J19/0046—Sequential or parallel reactions, e.g. for the synthesis of polypeptides or polynucleotides; Apparatus and devices for combinatorial chemistry or for making molecular arrays
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L3/00—Containers or dishes for laboratory use, e.g. laboratory glassware; Droppers
    • B01L3/50—Containers for the purpose of retaining a material to be analysed, e.g. test tubes
    • B01L3/502—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures
    • B01L3/5027—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures by integrated microfluidic structures, i.e. dimensions of channels and chambers are such that surface tension forces are important, e.g. lab-on-a-chip
    • B01L3/502715—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures by integrated microfluidic structures, i.e. dimensions of channels and chambers are such that surface tension forces are important, e.g. lab-on-a-chip characterised by interfacing components, e.g. fluidic, electrical, optical or mechanical interfaces
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L3/00—Containers or dishes for laboratory use, e.g. laboratory glassware; Droppers
    • B01L3/50—Containers for the purpose of retaining a material to be analysed, e.g. test tubes
    • B01L3/502—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures
    • B01L3/5027—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures by integrated microfluidic structures, i.e. dimensions of channels and chambers are such that surface tension forces are important, e.g. lab-on-a-chip
    • B01L3/502761—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures by integrated microfluidic structures, i.e. dimensions of channels and chambers are such that surface tension forces are important, e.g. lab-on-a-chip specially adapted for handling suspended solids or molecules independently from the bulk fluid flow, e.g. for trapping or sorting beads, for physically stretching molecules
    • G01N15/1433—
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N15/00—Investigating characteristics of particles; Investigating permeability, pore-volume, or surface-area of porous materials
    • G01N15/10—Investigating individual particles
    • G01N15/14—Electro-optical investigation, e.g. flow cytometers
    • G01N15/1484—Electro-optical investigation, e.g. flow cytometers microstructural devices
    • 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
    • G01N21/17—Systems in which incident light is modified in accordance with the properties of the material investigated
    • G01N21/25—Colour; Spectral properties, i.e. comparison of effect of material on the light at two or more different wavelengths or wavelength bands
    • G01N21/251—Colorimeters; Construction thereof
    • G01N21/253—Colorimeters; Construction thereof for batch operation, i.e. multisample apparatus
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00277—Apparatus
    • B01J2219/00279—Features relating to reactor vessels
    • B01J2219/00306—Reactor vessels in a multiple arrangement
    • B01J2219/00313—Reactor vessels in a multiple arrangement the reactor vessels being formed by arrays of wells in blocks
    • B01J2219/00315—Microtiter plates
    • B01J2219/00317—Microwell devices, i.e. having large numbers of wells
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00583—Features relative to the processes being carried out
    • B01J2219/00603—Making arrays on substantially continuous surfaces
    • B01J2219/00646—Making arrays on substantially continuous surfaces the compounds being bound to beads immobilised on the solid supports
    • B01J2219/00648—Making arrays on substantially continuous surfaces the compounds being bound to beads immobilised on the solid supports by the use of solid beads
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00583—Features relative to the processes being carried out
    • B01J2219/00603—Making arrays on substantially continuous surfaces
    • B01J2219/00659—Two-dimensional arrays
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L2200/00—Solutions for specific problems relating to chemical or physical laboratory apparatus
    • B01L2200/06—Fluid handling related problems
    • B01L2200/0647—Handling flowable solids, e.g. microscopic beads, cells, particles
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L2200/00—Solutions for specific problems relating to chemical or physical laboratory apparatus
    • B01L2200/10—Integrating sample preparation and analysis in single entity, e.g. lab-on-a-chip concept
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L2300/00—Additional constructional details
    • B01L2300/08—Geometry, shape and general structure
    • B01L2300/0861—Configuration of multiple channels and/or chambers in a single devices
    • B01L2300/0877—Flow chambers
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L2400/00—Moving or stopping fluids
    • B01L2400/04—Moving fluids with specific forces or mechanical means
    • B01L2400/0403—Moving fluids with specific forces or mechanical means specific forces
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L2400/00—Moving or stopping fluids
    • B01L2400/04—Moving fluids with specific forces or mechanical means
    • B01L2400/0475—Moving fluids with specific forces or mechanical means specific mechanical means and fluid pressure
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L2400/00—Moving or stopping fluids
    • B01L2400/06—Valves, specific forms thereof
    • B01L2400/0622—Valves, specific forms thereof distribution valves, valves having multiple inlets and/or outlets, e.g. metering valves, multi-way valves
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
    • B01L2400/00—Moving or stopping fluids
    • B01L2400/06—Valves, specific forms thereof
    • B01L2400/0633—Valves, specific forms thereof with moving parts
    • B01L2400/0644—Valves, specific forms thereof with moving parts rotary valves
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B60/00—Apparatus specially adapted for use in combinatorial chemistry or with libraries
    • C40B60/14—Apparatus specially adapted for use in combinatorial chemistry or with libraries for creating libraries
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N15/00—Investigating characteristics of particles; Investigating permeability, pore-volume, or surface-area of porous materials
    • G01N15/10—Investigating individual particles
    • G01N15/14—Electro-optical investigation, e.g. flow cytometers
    • G01N15/1456—Electro-optical investigation, e.g. flow cytometers without spatial resolution of the texture or inner structure of the particle, e.g. processing of pulse signals
    • G01N15/149—
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N15/00—Investigating characteristics of particles; Investigating permeability, pore-volume, or surface-area of porous materials
    • G01N2015/0007—Investigating dispersion of gas
    • G01N2015/0015—Investigating dispersion of gas in solids

Abstract

An apparatus and system are provided for simultaneously analyzing a plurality of analytes anchored to microparticles. Microparticles each having a uniform population of a single kind of analyte attached are disposed as a substantially immobilized planar array inside of a flow chamber where steps of an analytical process are carried out by delivering a sequence of processing reagents to the microparticles by a fluidic system under microprocessor control. In response to such process steps, an optical signal is generated at the surface of each microparticle which is characteristic of the interaction between the analyte carried by the microparticle and the delivered processing reagent. The plurality of analytes are simultaneously analyzed by collecting and recording images of the optical signals generated by all the microparticles in the planar array. A key feature of the invention is the correlation of the sequence of optical signals generated by each microparticle in the planar array during the analytical process.
PCT/US1998/011224 1994-10-13 1998-05-22 System and apparaus for sequential processing of analytes WO1998053300A2 (en)

Priority Applications (12)

Application Number Priority Date Filing Date Title
EP98925137A EP0985142A4 (en) 1997-05-23 1998-05-22 System and apparaus for sequential processing of analytes
AU77155/98A AU736321B2 (en) 1997-05-23 1998-05-22 System and apparatus for sequential processing of analytes
US09/424,028 US6406848B1 (en) 1997-05-23 1998-05-22 Planar arrays of microparticle-bound polynucleotides
CA002291180A CA2291180A1 (en) 1997-05-23 1998-05-22 System and apparatus for sequential processing of analytes
JP55075798A JP4294740B2 (en) 1997-05-23 1998-05-22 System and apparatus for serial processing of analytes
US09/907,795 US6654505B2 (en) 1994-10-13 2001-07-17 System and apparatus for sequential processing of analytes
US09/908,131 US6969488B2 (en) 1998-05-22 2001-07-17 System and apparatus for sequential processing of analytes
US10/407,089 US20030224419A1 (en) 1997-05-23 2003-04-02 Data analysis and display system for ligation-based DNA sequencing
US11/207,443 US7282370B2 (en) 1997-05-23 2005-08-18 System and apparatus for sequential processing of analytes
US11/974,239 US8361713B2 (en) 1997-05-23 2007-10-12 System and apparatus for sequential processing of analytes
US13/693,658 US8728729B2 (en) 1997-05-23 2012-12-04 Method for sequential sequencing nucleic acids
US14/245,723 US9273354B2 (en) 1997-05-23 2014-04-04 System and apparatus for sequential processing of analytes

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US86261097A 1997-05-23 1997-05-23
US08/862,610 1997-05-23

Related Parent Applications (2)

Application Number Title Priority Date Filing Date
US86261097A Continuation 1994-10-13 1997-05-23
US86261097A Continuation-In-Part 1994-10-13 1997-05-23

Related Child Applications (6)

Application Number Title Priority Date Filing Date
US09/424,028 A-371-Of-International US6406848B1 (en) 1994-10-13 1998-05-22 Planar arrays of microparticle-bound polynucleotides
US09424028 A-371-Of-International 1998-05-22
US09/908,131 Division US6969488B2 (en) 1997-05-23 2001-07-17 System and apparatus for sequential processing of analytes
US09/907,795 Division US6654505B2 (en) 1994-10-13 2001-07-17 System and apparatus for sequential processing of analytes
US09/908,130 Division US6831994B2 (en) 1997-05-23 2001-07-17 System and apparatus for sequential processing of analytes
US10/124,884 Continuation US6806052B2 (en) 1997-05-23 2002-04-18 Planar arrays of microparticle-bound polynucleotides

Publications (2)

Publication Number Publication Date
WO1998053300A2 WO1998053300A2 (en) 1998-11-26
WO1998053300A3 true WO1998053300A3 (en) 1999-02-25

Family

ID=25338847

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US1998/011224 WO1998053300A2 (en) 1994-10-13 1998-05-22 System and apparaus for sequential processing of analytes

Country Status (6)

Country Link
US (6) US6406848B1 (en)
EP (1) EP0985142A4 (en)
JP (1) JP4294740B2 (en)
AU (1) AU736321B2 (en)
CA (1) CA2291180A1 (en)
WO (1) WO1998053300A2 (en)

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US8030094B2 (en) 1997-10-06 2011-10-04 Trustees Of Tufts College Self-encoding sensor with microspheres
US8034628B2 (en) 1999-11-26 2011-10-11 The Governors Of The University Of Alberta Apparatus and method for trapping bead based reagents within microfluidic analysis systems
USRE43097E1 (en) 1994-10-13 2012-01-10 Illumina, Inc. Massively parallel signature sequencing by ligation of encoded adaptors
USRE43122E1 (en) 1999-11-26 2012-01-24 The Governors Of The University Of Alberta Apparatus and method for trapping bead based reagents within microfluidic analysis systems
US8286665B2 (en) 2006-03-22 2012-10-16 The Regents Of The University Of California Multiplexed latching valves for microfluidic devices and processors
US8388908B2 (en) 2009-06-02 2013-03-05 Integenx Inc. Fluidic devices with diaphragm valves
US8394642B2 (en) 2009-06-05 2013-03-12 Integenx Inc. Universal sample preparation system and use in an integrated analysis system
US8420318B2 (en) 2004-06-01 2013-04-16 The Regents Of The University Of California Microfabricated integrated DNA analysis system
US8431340B2 (en) 2004-09-15 2013-04-30 Integenx Inc. Methods for processing and analyzing nucleic acid samples
US8454906B2 (en) 2007-07-24 2013-06-04 The Regents Of The University Of California Microfabricated droplet generator for single molecule/cell genetic analysis in engineered monodispersed emulsions
US8476063B2 (en) 2004-09-15 2013-07-02 Integenx Inc. Microfluidic devices
US8512538B2 (en) 2010-05-28 2013-08-20 Integenx Inc. Capillary electrophoresis device
US8557518B2 (en) 2007-02-05 2013-10-15 Integenx Inc. Microfluidic and nanofluidic devices, systems, and applications
US8584703B2 (en) 2009-12-01 2013-11-19 Integenx Inc. Device with diaphragm valve
US8672532B2 (en) 2008-12-31 2014-03-18 Integenx Inc. Microfluidic methods
US8748165B2 (en) 2008-01-22 2014-06-10 Integenx Inc. Methods for generating short tandem repeat (STR) profiles
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US9416411B2 (en) 1999-08-18 2016-08-16 Illumina, Inc. Compositions and methods for preparing oligonucleotide solutions
US9540689B2 (en) 1998-05-01 2017-01-10 Life Technologies Corporation Method of determining the nucleotide sequence of oligonucleotides and DNA molecules

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US6406845B1 (en) 1997-05-05 2002-06-18 Trustees Of Tuft College Fiber optic biosensor for selectively detecting oligonucleotide species in a mixed fluid sample
CA2291853C (en) 1997-05-23 2013-01-15 Bioarray Solutions Llc Color-encoding and in-situ interrogation of matrix-coupled chemical compounds
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US7115884B1 (en) * 1997-10-06 2006-10-03 Trustees Of Tufts College Self-encoding fiber optic sensor
US6210910B1 (en) 1998-03-02 2001-04-03 Trustees Of Tufts College Optical fiber biosensor array comprising cell populations confined to microcavities
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US8406498B2 (en) 1999-01-25 2013-03-26 Amnis Corporation Blood and cell analysis using an imaging flow cytometer
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