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公开(公告)号：US11525993B2
公开(公告)日：2022-12-13
申请号：US17396478
申请日：2021-08-06
申请人： ILLUMINA, INC.
发明人： Michael J. Carney , Stanley S. Hong , Robert Langlois , Hongji Ren , Kevin Wayne Bartig , Rico Otto , Olga Andreevna Souverneva
摘要： Implementations of the disclosure are directed to predicting structured illumination parameters for a particular point in time, space, and/or temperature using estimates of structured illumination parameters obtained from structured illumination images captured by a structured illumination system. Particular implementations are directed to predicting structured illumination frequency, phase, orientation, and/or modulation order parameters.
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公开(公告)号：US11119302B2
公开(公告)日：2021-09-14
申请号：US17090775
申请日：2020-11-05
申请人： ILLUMINA, INC.
发明人： Michael J. Carney , Stanley S. Hong , Robert Langlois , Hongji Ren , Kevin Wayne Bartig , Rico Otto , Olga Andreevna Souverneva
摘要： Implementations of the disclosure are directed to predicting structured illumination parameters for a particular point in time, space, and/or temperature using estimates of structured illumination parameters obtained from structured illumination images captured by a structured illumination system. Particular implementations are directed to predicting structured illumination frequency, phase, orientation, and/or modulation order parameters.
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公开(公告)号：US20200248252A1
公开(公告)日：2020-08-06
申请号：US16482613
申请日：2018-01-31
申请人： Illumina, Inc.
发明人： John S. Vieceli , Alex Nemiroski , Paul Belitz , Robert Langlois , M. Shane Bowen , Danny Yuan Chan , Bala Murali K. Venkatesan , Hui Han , Kevan Samiee , Stephen Tanner
IPC分类号： C12Q1/6874 , G01N21/64
摘要： Fiducial markers are provided on patterned arrays of the type that may be used for molecular analysis, such as sequencing. The fiducials may have configurations that enhance their detection in image or detection data, that facilitate or improve processing, that provide encoding of useful information, and so forth. Examples of the fiducials may include a non-closed shape that may encode information, allow for bubbles to escape during manufacture, and provide additional advantages over closed shape fiducials.
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公开(公告)号：US20200064266A1
公开(公告)日：2020-02-27
申请号：US16482653
申请日：2018-01-31
申请人： Illumina, Inc.
发明人： John S. Vieceli , Alex Nemiroski , Paul Belitz , Robert Langlois , M. Shane Bowen , Danny Yuan Chan , Bala Murali K. Venkatesan , Hui Han , Kevan Samiee , Stephen Tanner
IPC分类号： G01N21/64
摘要： Fiducial markers are provided on patterned arrays of the type that may be used for molecular analysis, such as sequencing. The fiducials may have configurations that enhance their detection in image or detection data, that facilitate or improve processing, that provide encoding of useful information, and so forth. Examples of the fiducials may include features and materials that are provided on or in the support of the array and that return at least a portion of incident light by reflection. The fiducials may form gratings or other encoding configurations that assist in image processing, alignment, or other aspects of processing of the array.
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公开(公告)号：US20190087948A1
公开(公告)日：2019-03-21
申请号：US16192608
申请日：2018-11-15
申请人： Illumina, Inc.
发明人： Robert Langlois , Paul Belitz
摘要： Techniques are described for dynamically correcting image distortion during imaging of a patterned sample having repeating spots. Different sets of image distortion correction coefficients may be calculated for different regions of a sample during a first imaging cycle of a multicycle imaging run and subsequently applied in real time to image data generated during subsequent cycles. In one implementation, image distortion correction coefficients may be calculated for an image of a patterned sample having repeated spots by: estimating an affine transform of the image; sharpening the image; and iteratively searching for an optimal set of distortion correction coefficients for the sharpened image, where iteratively searching for the optimal set of distortion correction coefficients for the sharpened image includes calculating a mean chastity for spot locations in the image, and where the estimated affine transform is applied during each iteration of the search.
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公开(公告)号：US20230393379A1
公开(公告)日：2023-12-07
申请号：US18236088
申请日：2023-08-21
申请人： ILLUMINA, INC.
发明人： Robert Langlois , Bo Lu , Hongji Ren , Joseph Pinto , Simon Prince , Austin Corbett
CPC分类号： G02B21/367 , G02B21/14 , G06T7/0012 , G06T2207/10056 , G06T2207/30024
摘要： A method is used to generate a distortion model for a structured illumination microscopy (SIM) optical system. A sliding window is moved in relation to a plurality of images to define a plurality of sub-tiles. Each sub-tile represents a portion of the corresponding image. Parameters are estimated for each sub-tiles. The parameters include two or more parameters selected from the group consisting of modulation, angle, spacing, phase offset, and phase deviation. A full width at half maximum (FWHM) value associated with each sub-tile is estimated. A distortion model is estimated, based at least in part on a combination of the estimated parameters and FWHM values stored in the predetermined format and an estimated center window parameter. A two-dimensional image may be generated, based at least in part on the estimated distortion model. The two-dimensional image may include representations indicating where distortions occur in the optical system.
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公开(公告)号：US11249025B2
公开(公告)日：2022-02-15
申请号：US16482630
申请日：2018-01-31
申请人： Illumina, Inc.
发明人： John S. Vieceli , Alex Nemiroski , Paul Belitz , Robert Langlois , M. Shane Bowen , Danny Yuan Chan , Bala Murali K. Venkatesan , Hui Han , Kevan Samiee , Stephen Tanner
IPC分类号： G01N21/64
摘要： Fiducial markers are provided on a patterned array of the type that may be used for molecular analysis, such as sequencing. The fiducial markers may have configurations and layouts that enhance their detection in image or detection data, that facilitate or improve processing, that provide encoding of useful information, and so forth. Examples of the fiducial markers may include non-rectilinear layouts that may provide for more robust location of both the fiducial markers and sites of the patterned array.
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公开(公告)号：US11243390B2
公开(公告)日：2022-02-08
申请号：US17110406
申请日：2020-12-03
申请人： ILLUMINA, INC.
发明人： Austin Corbett , Bo Lu , Robert Langlois , Joseph Pinto , Yu Chen , Peter Newman , Hongji Ren
摘要： A method is used to generate a report presenting parameter values corresponding to a structured illumination microscopy (SIM) optical system. The parameter values are based at least in part on the performed modulation calculation corresponding to an image set captured with the SIM optical system. A minimum FWHM slice is identified, based at least in part on an average FWHM value across the images in the first image set. Parameter estimation is performed on the identified minimum FWHM slice. Best in-focus parameters are identified based at least in part on the performed estimation. A phase estimate is performed for each image in the set. A modulation calculation is performed based at least in part on the identified best in-focus parameters. The report is based at least in part on the performed modulation calculation.
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公开(公告)号：US10909666B2
公开(公告)日：2021-02-02
申请号：US16192608
申请日：2018-11-15
申请人： Illumina, Inc.
发明人： Robert Langlois , Paul Belitz
IPC分类号： G06T5/00 , H04N5/357 , G01N21/64 , G02B21/00 , G06K9/00 , H04N1/401 , H04N1/409 , G01B11/16 , G06K9/32 , G06T3/00 , H04N1/387 , G06K9/36
摘要： Techniques are described for dynamically correcting image distortion during imaging of a patterned sample having repeating spots. Different sets of image distortion correction coefficients may be calculated for different regions of a sample during a first imaging cycle of a multicycle imaging run and subsequently applied in real time to image data generated during subsequent cycles. In one implementation, image distortion correction coefficients may be calculated for an image of a patterned sample having repeated spots by: estimating an affine transform of the image; sharpening the image; and iteratively searching for an optimal set of distortion correction coefficients for the sharpened image, where iteratively searching for the optimal set of distortion correction coefficients for the sharpened image includes calculating a mean chastity for spot locations in the image, and where the estimated affine transform is applied during each iteration of the search.
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公开(公告)号：US10831012B2
公开(公告)日：2020-11-10
申请号：US16447729
申请日：2019-06-20
申请人： ILLUMINA, INC.
发明人： Michael J. Carney , Stanley S. Hong , Robert Langlois , Hongji Ren , Kevin Wayne Bartig , Rico Otto , Olga Andreevna Souverneva
摘要： Implementations of the disclosure are directed to predicting structured illumination parameters for a particular point in time, space, and/or temperature using estimates of structured illumination parameters obtained from structured illumination images captured by a structured illumination system. Particular implementations are directed to predicting structured illumination frequency, phase, orientation, and/or modulation order parameters.
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