WO2002099397A3 - Light modulated microarray reader and methods relating thereto - Google Patents

Light modulated microarray reader and methods relating thereto Download PDF

Info

Publication number
WO2002099397A3
WO2002099397A3 PCT/US2002/017899 US0217899W WO02099397A3 WO 2002099397 A3 WO2002099397 A3 WO 2002099397A3 US 0217899 W US0217899 W US 0217899W WO 02099397 A3 WO02099397 A3 WO 02099397A3
Authority
WO
WIPO (PCT)
Prior art keywords
spots
microarray reader
microarray
light modulated
methods relating
Prior art date
Application number
PCT/US2002/017899
Other languages
French (fr)
Other versions
WO2002099397A2 (en
Inventor
Calum E Macaulay
Pierre M Lane
Original Assignee
Digital Optical Imaging Corp
Calum E Macaulay
Pierre M Lane
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 Digital Optical Imaging Corp, Calum E Macaulay, Pierre M Lane filed Critical Digital Optical Imaging Corp
Priority to EP02744238A priority Critical patent/EP1397668A2/en
Priority to CA002452693A priority patent/CA2452693A1/en
Publication of WO2002099397A2 publication Critical patent/WO2002099397A2/en
Publication of WO2002099397A3 publication Critical patent/WO2002099397A3/en

Links

Classifications

    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64Fluorescence; Phosphorescence
    • G01N21/645Specially adapted constructive features of fluorimeters
    • G01N21/6452Individual samples arranged in a regular 2D-array, e.g. multiwell plates
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/17Systems in which incident light is modified in accordance with the properties of the material investigated
    • G01N21/25Colour; Spectral properties, i.e. comparison of effect of material on the light at two or more different wavelengths or wavelength bands
    • G01N21/251Colorimeters; Construction thereof
    • G01N21/253Colorimeters; Construction thereof for batch operation, i.e. multisample apparatus
    • GPHYSICS
    • G02OPTICS
    • G02BOPTICAL ELEMENTS, SYSTEMS OR APPARATUS
    • G02B26/00Optical devices or arrangements for the control of light using movable or deformable optical elements
    • G02B26/02Optical devices or arrangements for the control of light using movable or deformable optical elements for controlling the intensity of light
    • GPHYSICS
    • G02OPTICS
    • G02BOPTICAL ELEMENTS, SYSTEMS OR APPARATUS
    • G02B27/00Optical systems or apparatus not provided for by any of the groups G02B1/00 - G02B26/00, G02B30/00
    • G02B27/02Viewing or reading apparatus
    • G02B27/021Reading apparatus

Landscapes

  • Physics & Mathematics (AREA)
  • General Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Biochemistry (AREA)
  • Chemical & Material Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • General Health & Medical Sciences (AREA)
  • Immunology (AREA)
  • Pathology (AREA)
  • Optics & Photonics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Nuclear Medicine, Radiotherapy & Molecular Imaging (AREA)
  • Investigating, Analyzing Materials By Fluorescence Or Luminescence (AREA)

Abstract

Microarray readers and methods that compensate for target spots that are too dim or too bright for the microarray reader to accurately measure. The readers adjust the amount of light directed at or received from specific non-acceptable target spots, such that dim spots receive more excitation light and overly bright spots receive less. This increases or decreases, respectively, their measured brightness, which in turn effectively increases the range over which a microarray reader can accurately measure the spots, and can improve the signal-to-noise ratio and other aspects of the measurements.
PCT/US2002/017899 2001-06-06 2002-06-06 Light modulated microarray reader and methods relating thereto WO2002099397A2 (en)

Priority Applications (2)

Application Number Priority Date Filing Date Title
EP02744238A EP1397668A2 (en) 2001-06-06 2002-06-06 Light modulated microarray reader and methods relating thereto
CA002452693A CA2452693A1 (en) 2001-06-06 2002-06-06 Light modulated microarray reader and methods relating thereto

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US29663501P 2001-06-06 2001-06-06
US60/296,635 2001-06-06

Publications (2)

Publication Number Publication Date
WO2002099397A2 WO2002099397A2 (en) 2002-12-12
WO2002099397A3 true WO2002099397A3 (en) 2003-03-20

Family

ID=23142861

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2002/017899 WO2002099397A2 (en) 2001-06-06 2002-06-06 Light modulated microarray reader and methods relating thereto

Country Status (4)

Country Link
US (2) US6794658B2 (en)
EP (1) EP1397668A2 (en)
CA (1) CA2452693A1 (en)
WO (1) WO2002099397A2 (en)

Families Citing this family (62)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CA2452693A1 (en) * 2001-06-06 2002-12-12 Digital Optical Imaging Corporation Light modulated microarray reader and methods relating thereto
US7422851B2 (en) * 2002-01-31 2008-09-09 Nimblegen Systems, Inc. Correction for illumination non-uniformity during the synthesis of arrays of oligomers
US6620623B1 (en) * 2002-05-06 2003-09-16 The University Of Chicago Biochip reader with enhanced illumination and bioarray positioning apparatus
US7508608B2 (en) 2004-11-17 2009-03-24 Illumina, Inc. Lithographically fabricated holographic optical identification element
US7872804B2 (en) 2002-08-20 2011-01-18 Illumina, Inc. Encoded particle having a grating with variations in the refractive index
US7923260B2 (en) * 2002-08-20 2011-04-12 Illumina, Inc. Method of reading encoded particles
US7900836B2 (en) 2002-08-20 2011-03-08 Illumina, Inc. Optical reader system for substrates having an optically readable code
US7901630B2 (en) 2002-08-20 2011-03-08 Illumina, Inc. Diffraction grating-based encoded microparticle assay stick
US7164533B2 (en) 2003-01-22 2007-01-16 Cyvera Corporation Hybrid random bead/chip based microarray
US7092160B2 (en) 2002-09-12 2006-08-15 Illumina, Inc. Method of manufacturing of diffraction grating-based optical identification element
US20100255603A9 (en) 2002-09-12 2010-10-07 Putnam Martin A Method and apparatus for aligning microbeads in order to interrogate the same
US6970240B2 (en) * 2003-03-10 2005-11-29 Applera Corporation Combination reader
WO2004095549A1 (en) * 2003-04-11 2004-11-04 Ball Semiconductor Inc. Pattern plotting device and pattern plotting method
US7544163B2 (en) * 2003-09-26 2009-06-09 Tidal Photonics, Inc. Apparatus and methods relating to expanded dynamic range imaging endoscope systems
WO2005043197A2 (en) * 2003-10-28 2005-05-12 University Of Maryland, Baltimore Spatial light modulator apparatus and method
US7433123B2 (en) * 2004-02-19 2008-10-07 Illumina, Inc. Optical identification element having non-waveguide photosensitive substrate with diffraction grating therein
US20050269523A1 (en) * 2004-03-24 2005-12-08 Macaulay Calum E Light modulated microarray reader and methods relating thereto
US7428322B2 (en) * 2004-04-20 2008-09-23 Bio-Rad Laboratories, Inc. Imaging method and apparatus
US7499166B2 (en) * 2004-05-20 2009-03-03 The Regents Of The University Of California Wide field imager for quantitative analysis of microarrays
CN1280623C (en) * 2004-07-16 2006-10-18 北京博奥生物芯片有限责任公司 Calibration chip for fluorescent instrument calibration measurement and its preparing method
WO2006020363A2 (en) 2004-07-21 2006-02-23 Illumina, Inc. Method and apparatus for drug product tracking using encoded optical identification elements
US7682782B2 (en) * 2004-10-29 2010-03-23 Affymetrix, Inc. System, method, and product for multiple wavelength detection using single source excitation
DE602005019791D1 (en) 2004-11-16 2010-04-15 Illumina Inc METHOD AND DEVICE FOR READING CODED MICROBALLS
WO2006055735A2 (en) * 2004-11-16 2006-05-26 Illumina, Inc Scanner having spatial light modulator
US20060134324A1 (en) * 2004-11-17 2006-06-22 Illumina, Inc. Filament with easily removed protective coating and methods for stripping the same
US20060186346A1 (en) * 2005-02-18 2006-08-24 Academia Sinica Method and system for reading microarrays
JP2006235420A (en) * 2005-02-28 2006-09-07 Yokogawa Electric Corp Confocal microscope
US9223929B2 (en) * 2005-03-14 2015-12-29 The California Institute Of Technology Method and apparatus for detection, identification and quantification of single-and multi-analytes in affinity-based sensor arrays
US8351026B2 (en) 2005-04-22 2013-01-08 Affymetrix, Inc. Methods and devices for reading microarrays
US7858382B2 (en) * 2005-05-27 2010-12-28 Vidar Systems Corporation Sensing apparatus having rotating optical assembly
US7595473B2 (en) * 2005-08-22 2009-09-29 Tufts University Method and system of array imaging
FR2894596B1 (en) * 2005-12-13 2012-08-10 Centre Nat Rech Scient PROCESS FOR AUTOCALIBRATION OF BIOPUCES
US7528374B2 (en) * 2006-03-03 2009-05-05 Vidar Systems Corporation Sensing apparatus having optical assembly that collimates emitted light for detection
US8637436B2 (en) 2006-08-24 2014-01-28 California Institute Of Technology Integrated semiconductor bioarray
WO2007143669A2 (en) 2006-06-05 2007-12-13 California Institute Of Technology Real time micro arrays
US11001881B2 (en) 2006-08-24 2021-05-11 California Institute Of Technology Methods for detecting analytes
WO2008010182A2 (en) * 2006-07-17 2008-01-24 Max Wiki Analytical system comprising an arrangement for temporally variable spatial light modulation and detection method implemented thereby
US8048626B2 (en) 2006-07-28 2011-11-01 California Institute Of Technology Multiplex Q-PCR arrays
US11525156B2 (en) 2006-07-28 2022-12-13 California Institute Of Technology Multiplex Q-PCR arrays
US11560588B2 (en) 2006-08-24 2023-01-24 California Institute Of Technology Multiplex Q-PCR arrays
US7998414B2 (en) * 2007-02-28 2011-08-16 Corning Incorporated System for high throughput GPCR functional assay
WO2010084381A1 (en) * 2009-01-21 2010-07-29 Eppendorf Ag Detection and/or quantification method of target molecules on a solid support
LU91737B1 (en) * 2010-09-17 2012-03-19 Iee Sarl Lidar imager
EP2439514A1 (en) 2010-10-01 2012-04-11 Aqsens Oy Method, apparatus, and system for examining optically a sample carried in a plurality of wells
CN102098379A (en) * 2010-12-17 2011-06-15 惠州Tcl移动通信有限公司 Terminal as well as method and device for acquiring real-time video images of terminal
JP5349521B2 (en) * 2011-03-29 2013-11-20 富士フイルム株式会社 Imaging apparatus, imaging program, and imaging method
EP2695105A4 (en) * 2011-04-04 2014-10-15 Aushon Biosystems Method of and system for enhanced dynamic range assay analysis
US8531753B1 (en) 2011-05-09 2013-09-10 Los Alamos National Security, Llc Adaptive optical filter
WO2016106350A1 (en) 2014-12-23 2016-06-30 Bribbla Dynamics Llc Confocal inspection system having non-overlapping annular illumination and collection regions
US10718931B2 (en) * 2014-12-23 2020-07-21 Apple Inc. Confocal inspection system having averaged illumination and averaged collection paths
CN107209116B (en) 2014-12-23 2020-08-07 苹果公司 Optical inspection system and method including accounting for variations in optical path length within a sample
US9708647B2 (en) 2015-03-23 2017-07-18 Insilixa, Inc. Multiplexed analysis of nucleic acid hybridization thermodynamics using integrated arrays
US10130249B2 (en) * 2015-05-01 2018-11-20 Canon Kabushiki Kaisha Inspection apparatus, image processing apparatus, method of operating inspection apparatus, image processing method, and recording medium
US9499861B1 (en) 2015-09-10 2016-11-22 Insilixa, Inc. Methods and systems for multiplex quantitative nucleic acid amplification
EP3394579B1 (en) 2015-12-21 2023-09-20 Verily Life Sciences LLC Systems and methods for determining an identity of a probe in a target based on colors and locations of two or more fluorophores in the probe and in the target
WO2017155858A1 (en) 2016-03-07 2017-09-14 Insilixa, Inc. Nucleic acid sequence identification using solid-phase cyclic single base extension
CN115342915A (en) 2016-04-21 2022-11-15 苹果公司 Optical system for reference switching
JP6795624B2 (en) 2016-05-27 2020-12-02 ヴェリリー ライフ サイエンシズ エルエルシー Spatial Light Modulator Based Hyperspectral Confocal Microscope and Usage
CN106772994A (en) * 2016-11-28 2017-05-31 华东师范大学 The ken may be programmed microscopie unit
EP3937780A4 (en) 2019-03-14 2022-12-07 InSilixa, Inc. Methods and systems for time-gated fluorescent-based detection
CN113129324B (en) * 2021-04-28 2023-12-15 江苏迪盛智能科技有限公司 Optical processing device system, light spot adjusting device and method, computer device and storage medium
CN116299497B (en) * 2023-05-12 2023-08-11 深圳深浦电气有限公司 Method, apparatus and computer readable storage medium for optical detection

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
DE19940752A1 (en) * 1998-08-28 2000-04-27 Febit Ferrarius Biotech Gmbh Use of an illumination matrix that can be controlled to generate a freely adjustable illumination pattern to produce a microchip
DE19914279C1 (en) * 1999-03-25 2000-09-07 Jena Optronik Gmbh Sensor for optical examination of stimulated sample pixels on e.g. nano-titration screening plates or bio-chips for gene analysis, employs e.g. a liquid crystal matrix shutter and fiber optics with photomultiplier detection

Family Cites Families (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0911667B1 (en) * 1997-10-22 2003-04-02 Max-Planck-Gesellschaft zur Förderung der Wissenschaften e.V. Programmable spatially light modulated microscope and microscopy method
AU9617598A (en) * 1997-10-29 1999-05-17 Calum E. Macaulay Apparatus and methods relating to spatially light modulated microscopy
US6078390A (en) * 1998-05-04 2000-06-20 General Scanning, Inc. Scanning system and method of operation for automatically setting detection sensitivity
AU6075100A (en) * 1999-07-07 2001-01-30 Ljl Biosystems, Inc. Light detection device
CA2452693A1 (en) * 2001-06-06 2002-12-12 Digital Optical Imaging Corporation Light modulated microarray reader and methods relating thereto
US6583424B2 (en) * 2001-06-25 2003-06-24 Agilent Technologies Inc. Scanning system with calibrated detection and method

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
DE19940752A1 (en) * 1998-08-28 2000-04-27 Febit Ferrarius Biotech Gmbh Use of an illumination matrix that can be controlled to generate a freely adjustable illumination pattern to produce a microchip
DE19914279C1 (en) * 1999-03-25 2000-09-07 Jena Optronik Gmbh Sensor for optical examination of stimulated sample pixels on e.g. nano-titration screening plates or bio-chips for gene analysis, employs e.g. a liquid crystal matrix shutter and fiber optics with photomultiplier detection

Also Published As

Publication number Publication date
WO2002099397A2 (en) 2002-12-12
EP1397668A2 (en) 2004-03-17
US20030002040A1 (en) 2003-01-02
US20040262534A1 (en) 2004-12-30
US6794658B2 (en) 2004-09-21
CA2452693A1 (en) 2002-12-12

Similar Documents

Publication Publication Date Title
WO2002099397A3 (en) Light modulated microarray reader and methods relating thereto
US10188046B2 (en) Spectrum optimization for artificial illumination
CN101518044B (en) System and method for performing an illumination copy and paste operation in a lighting system
US7202492B2 (en) Apparatus and method for detecting a feature of a running material web
WO2004063709A8 (en) Biomarkers and methods for determining sensitivity to epidermal growth factor receptor modulators
WO2003021352A1 (en) Reticle and optical characteristic measuring method
WO2005010799A3 (en) Optical encoding and reconstruction
PL1821582T3 (en) System and method for controlling an illumination device
AU2003278725A1 (en) Polynucleotide predictor set for identifying protein tyrosine kinase modulators
EP2108919A3 (en) Interferometer for determining characteristics of an object surface
WO2006081438A3 (en) Differentiation of illumination and reflection boundaries
WO2006062895A3 (en) Systems and methods for in-vivo optical imaging and measurement
WO2007020780A8 (en) Measuring device
AU2002367206A1 (en) Analysis system for determining an analyte concentration, taking into consideration sample- and analyte-independent light-intensity changes
WO2004036508A3 (en) Multi-wavelength currency authentication system and method
WO2007027579A3 (en) Biometric sensors
WO2005067667A3 (en) Biomarkers and methods for determining sensitivity to epidermal growth factor receptor modulators
WO2008102417A1 (en) Fluorescence reader and fluorescence reading method
DE60232604D1 (en) METHOD AND DEVICE FOR LOCATION SELECTION DIVERSITY USING TARGET VALUES FOR A QUALITY MEASUREMENT
WO2005119209A3 (en) System and method for analyzing microbial growth
EP1248103A3 (en) Eluent for ion chromatography for measuring alkaline earth metal ions, and method for analyzing alkaline earth metal ions, employing it
WO2008022191A3 (en) System and method of compensating for system delay in analyte analyzation
EP2163618A3 (en) Fluorescent protein
WO2002090876A3 (en) Method and apparatus for determining the coordinates of an object
DE60026774D1 (en) Defect detection using gray value signatures

Legal Events

Date Code Title Description
AK Designated states

Kind code of ref document: A2

Designated state(s): AE AG AL AM AT AU AZ BA BB BG BR BY BZ CA CH CN CO CR CU CZ DE DK DM DZ EC EE ES FI GB GD GE GH GM HR HU ID IL IN IS JP KE KG KP KR KZ LC LK LR LS LT LU LV MA MD MG MK MN MW MX MZ NO NZ OM PH PL PT RO RU SD SE SG SI SK SL TJ TM TN TR TT TZ UA UG US UZ VN YU ZA ZM ZW

AL Designated countries for regional patents

Kind code of ref document: A2

Designated state(s): GH GM KE LS MW MZ SD SL SZ TZ UG ZM ZW AM AZ BY KG KZ MD RU TJ TM AT BE CH CY DE DK ES FI FR GB GR IE IT LU MC NL PT SE TR BF BJ CF CG CI CM GA GN GQ GW ML MR NE SN TD TG

121 Ep: the epo has been informed by wipo that ep was designated in this application
WWE Wipo information: entry into national phase

Ref document number: 2002744238

Country of ref document: EP

Ref document number: 2452693

Country of ref document: CA

WWP Wipo information: published in national office

Ref document number: 2002744238

Country of ref document: EP

REG Reference to national code

Ref country code: DE

Ref legal event code: 8642

NENP Non-entry into the national phase

Ref country code: JP

WWW Wipo information: withdrawn in national office

Ref document number: JP

WWW Wipo information: withdrawn in national office

Ref document number: 2002744238

Country of ref document: EP