Patents by Inventor Robert C. Kain
Robert C. Kain has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).
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Publication number: 20150337370Abstract: A technique for sequencing nucleic acids in an automated or semi-automated manner is disclosed. Sample arrays of a multitude of nucleic acid sites are processed in multiple cycles to add nucleotides to the material to be sequenced, detect the nucleotides added to sites, and to de-block the added nucleotides of blocking agents and tags used to identify the last added nucleotide. Multiple parameters of the system are monitored to enable diagnosis and correction of problems as they occur during sequencing of the samples. Quality control routines are run during sequencing to determine quality of samples, and quality of the data collected.Type: ApplicationFiled: August 4, 2015Publication date: November 26, 2015Applicant: ILLUMINA, INC.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Publication number: 20150309058Abstract: A technique is disclosed for sample management for use in conjunction with sequencing devices that sequence biological samples, e.g., DNA and RNA. A sequencing device or a network of sequencing devices may be scheduled according to the characteristics of the samples in queue and the capabilities and availability of sequencing devices. Biological samples may be automatically queued and loaded via a sample distribution system. A sample distribution system may be used to reduce operator intervention.Type: ApplicationFiled: July 9, 2015Publication date: October 29, 2015Inventors: Robert C. Kain, Alexander G. Dickinson, Min-Jui Richard Shen, Helmy A. Eltoukhy, Francisco Jose Garcia
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Patent number: 9121063Abstract: A system for sequencing nucleic acids, that includes (a) a table having an arrangement of sites, including a site for receiving a first substrate, and a site for receiving a second substrate, the substrates each having an array for providing sequencing data for a plurality of different nucleic acids in parallel; (b) a plurality of stations configured to carry out manipulations in a sequencing procedure; and (c) a system control interface configured to direct relative movement between the table and the plurality of stations, and to direct different steps of the sequencing procedure to occur at the sites for receiving the different substrates, wherein the first substrate can be removed from the system independently of the second substrate such that the second substrate can be processed to obtain sequencing data independently of the first substrate.Type: GrantFiled: October 17, 2012Date of Patent: September 1, 2015Assignee: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Patent number: 9116139Abstract: A technique is disclosed for sample management for use in conjunction with sequencing devices that sequence biological samples, e.g., DNA and RNA. A sequencing device or a network of sequencing devices may be scheduled according to the characteristics of the samples in queue and the capabilities and availability of sequencing devices. Biological samples may be automatically queued and loaded via a sample distribution system. A sample distribution system may be used to reduce operator intervention.Type: GrantFiled: November 5, 2012Date of Patent: August 25, 2015Assignee: ILLUMINA, INC.Inventors: Robert C. Kain, Alexander G. Dickinson, Min-Jui Richard Shen, Helmy A. Eltoukhy, Francisco Jose Garcia
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Publication number: 20150079596Abstract: A biosensor is provided including a detection device and a flow cell mounted to the detection device. The detection device has a detector surface with a plurality of reaction sites. The detection device also includes a filter layer that is configured to at least one of (a) filter unwanted excitation light signals; (b) direct emission signals from a designated reaction site toward one or more associated light detectors that are configured to detect the emission signals from the designated reaction site; or (c) block or prevent detection of crosstalk emission signals from adjacent reaction sites.Type: ApplicationFiled: November 25, 2014Publication date: March 19, 2015Applicant: ILLUMINA, INC.Inventors: Helmy A. Eltoukhy, Robert C. Kain, Wenyi Feng, Mark Pratt, Bernard Hirschbein, Poorya Sabounchi
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Publication number: 20150072871Abstract: A technique for sequencing nucleic acids in an automated or semi-automated manner is disclosed. Sample arrays of a multitude of nucleic acid sites are processed in multiple cycles to add nucleotides to the material to be sequenced, detect the nucleotides added to sites, and to de-block the added nucleotides of blocking agents and tags used to identify the last added nucleotide. Multiple parameters of the system are monitored to enable diagnosis and correction of problems as they occur during sequencing of the samples. Quality control routines are run during sequencing to determine quality of samples, and quality of the data collected.Type: ApplicationFiled: November 12, 2014Publication date: March 12, 2015Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Patent number: 8914241Abstract: A technique for sequencing nucleic acids in an automated or semi-automated manner is disclosed. Sample arrays of a multitude of nucleic acid sites are processed in multiple cycles to add nucleotides to the material to be sequenced, detect the nucleotides added to sites, and to de-block the added nucleotides of blocking agents and tags used to identify the last added nucleotide. Multiple parameters of the system are monitored to enable diagnosis and correction of problems as they occur during sequencing of the samples. Quality control routines are run during sequencing to determine quality of samples, and quality of the data collected.Type: GrantFiled: September 9, 2010Date of Patent: December 16, 2014Assignee: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Patent number: 8906320Abstract: A biosensor is provided including a detection device and a flow cell mounted to the detection device. The detection device has a detector surface with a plurality of reaction sites. The detection device also includes a filter layer that is configured to at least one of (a) filter unwanted excitation light signals; (b) direct emission signals from a designated reaction site toward one or more associated light detectors that are configured to detect the emission signals from the designated reaction site; or (c) block or prevent detection of crosstalk emission signals from adjacent reaction sites.Type: GrantFiled: March 15, 2013Date of Patent: December 9, 2014Assignee: Illumina, Inc.Inventors: Helmy A. Eltoukhy, Robert C. Kain, Wenyi Feng, Mark Pratt, Bernard Hirschbein, Poorya Sabounchi
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Publication number: 20140274747Abstract: A detection apparatus that includes (a) an array of responsive pads on a substrate surface; (b) an array of pixels, wherein each pixel in the array has a detection zone on the surface that includes a subset of at least two of the pads; and (c) an activation circuit to apply a force at a first and second pad in the subset, wherein the activation circuit is configured to apply a different force at the first pad compared to the second pad, and wherein the activation circuit has a switch to selectively alter the force at the first pad and the second pad.Type: ApplicationFiled: March 14, 2014Publication date: September 18, 2014Applicant: ILLUMINA, INC.Inventors: Robert C. Kain, Tarun Khurana, Kevin L. Gunderson, Yir-Shyuan Wu
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Patent number: 8725425Abstract: A technique is disclosed for performing sequencing of polymers such as DNA and RNA. A sample containing multiple sites to be sequenced is cyclically subjected to attachment of nucleotides, and imaging. A digital mask corresponding to sites of interest in the sample array is generated and image data for the sites is processed differently from image data not corresponding to sites of interest. The latter may be discarded during the sequencing operation. The use of the mask improves computational efficiency and reduces memory allocated for the image data during sequencing.Type: GrantFiled: January 28, 2008Date of Patent: May 13, 2014Assignee: Illumina, Inc.Inventors: David L. Heiner, Robert C. Kain
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Publication number: 20140127792Abstract: A technique is disclosed for sample management for use in conjunction with sequencing devices that sequence biological samples, e.g., DNA and RNA. A sequencing device or a network of sequencing devices may be scheduled according to the characteristics of the samples in queue and the capabilities and availability of sequencing devices. Biological samples may be automatically queued and loaded via a sample distribution system. A sample distribution system may be used to reduce operator intervention.Type: ApplicationFiled: November 5, 2012Publication date: May 8, 2014Applicant: Illumina, Inc.Inventors: Robert C. Kain, Alexander G. Dickinson, Min-Jui Richard Shen, Helmy A. Eltoukhy, Francisco Jose Garcia
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Publication number: 20140073514Abstract: Provided are methods and apparatuses for performing sequencing using droplet manipulation, for example, via electrowetting-based techniques. Also provided are integrated methods and apparatuses for performing sample preparation and sequencing on the same apparatus. In addition, provided are methods of reducing reagent waste and preloaded consumable cartridges comprising reagents for sample preparation and/or sequencing.Type: ApplicationFiled: November 19, 2013Publication date: March 13, 2014Applicant: ILLUMINA, INC.Inventors: Min-Jui Richard Shen, Robert C. Kain, Kenneth M. Kuhn, AmirAli Hajhossein Talasaz, Arash Jamshidi, George Sakaldasis, Eric Vermaas, Sebastian Bohm, Tarun Khurana, Helmy A. Eltoukhy, Jian Gong
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Patent number: 8637242Abstract: Provided are methods and apparatuses for performing sequencing using droplet manipulation, for example, via electrowetting-based techniques. Also provided are integrated methods and apparatuses for performing sample preparation and sequencing on the same apparatus. In addition, provided are methods of reducing reagent waste and preloaded consumable cartridges comprising reagents for sample preparation and/or sequencing.Type: GrantFiled: November 6, 2012Date of Patent: January 28, 2014Assignee: Illumina, Inc.Inventors: Min-Jui Richard Shen, Robert C. Kain, Kenneth M. Kuhn, AmirAli Hajhossein Talasaz, Arash Jamshidi
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Patent number: 8628952Abstract: The invention relates to sensor compositions comprising a composite array of individual arrays, to allow for simultaneous processing of a number of samples. The invention further provides methods of making and using the composite arrays. The invention further provides a hybridization chamber for use with a composite array.Type: GrantFiled: March 16, 2009Date of Patent: January 14, 2014Assignee: Illumina, Inc.Inventors: John R. Stuelpnagel, Mark S. Chee, Steven R. Auger, Gan G. Wang, Laura S. Casas, Shawn Christopher Baker, Robert C. Kain
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Publication number: 20130275486Abstract: The present invention provides a novel approach for storing, analyzing, and/or accessing biological data in a cloud computing environment. Sequence data generated by a particular sequencing device may be uploaded to the cloud computing environment during a sequencing run, which reduces the on-site storage needs for the sequence data. Analysis of the data may also be performed in the cloud computing environment, and the instructions for such analysis may be set at the originating sequencing device. The sequence data in the cloud computing environment may be shared according to permissions. Further, the sequence data may be modified or annotated by authorized secondary users.Type: ApplicationFiled: March 8, 2013Publication date: October 17, 2013Applicant: ILLUMINA, INC.Inventors: Alexander G. Dickinson, Francisco Jose Garcia, Robert C. Kain, Scott D. Kahn, Andrew R. Nelson
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Publication number: 20130274148Abstract: A portable detector is disclosed for detecting certain analytes of interest, such as genetic material (e.g., nucleic acids). The detector includes a reading component for the detection of the analytes, and control circuitry for controlling operation of the reading component. Processing circuitry may be included to perform both primary analysis of acquired data, and where desired, secondary analysis. Where desired, some or all of the computationally intensive tasks may be off-loaded to enhance the portability and speed of the device. The device may incorporate various types of interface, technologies for reading and analysis, positioning system interfaces, and so forth. A number of exemplary use cases and methods are also disclosed.Type: ApplicationFiled: March 8, 2013Publication date: October 17, 2013Applicant: ILLUMINA, INC.Inventors: Robert C. Kain, Min-Jui Richard Shen, John A. Moon, Helmy A. Eltoukhy
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Patent number: 8412467Abstract: A technique for sequencing nucleic acids in an automated or semi-automated manner is disclosed. Sample arrays of a multitude of nucleic acid sites are processed in multiple cycles to add nucleotides to the material to be sequenced, detect the nucleotides added to sites, and to de-block the added nucleotides of blocking agents and tags used to identify the last added nucleotide. Multiple parameters of the system are monitored to enable diagnosis and correction of problems as they occur during sequencing of the samples. Quality control routines are run during sequencing to determine quality of samples, and quality of the data collected.Type: GrantFiled: September 9, 2010Date of Patent: April 2, 2013Assignee: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Patent number: 8315817Abstract: A technique for sequencing nucleic acids in an automated or semi-automated manner is disclosed. Sample arrays of a multitude of nucleic acid sites are processed in multiple cycles to add nucleotides to the material to be sequenced, detect the nucleotides added to sites, and to de-block the added nucleotides of blocking agents and tags used to identify the last added nucleotide. Multiple parameters of the system are monitored to enable diagnosis and correction of problems as they occur during sequencing of the samples. Quality control routines are run during sequencing to determine quality of samples, and quality of the data collected.Type: GrantFiled: June 25, 2009Date of Patent: November 20, 2012Assignee: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Patent number: 8244479Abstract: A technique for sequencing nucleic acids in an automated or semi-automated manner is disclosed. Sample arrays of a multitude of nucleic acid sites are processed in multiple cycles to add nucleotides to the material to be sequenced, detect the nucleotides added to sites, and to de-block the added nucleotides of blocking agents and tags used to identify the last added nucleotide. Multiple parameters of the system are monitored to enable diagnosis and correction of problems as they occur during sequencing of the samples. Quality control routines are run during sequencing to determine quality of samples, and quality of the data collected.Type: GrantFiled: June 25, 2009Date of Patent: August 14, 2012Assignee: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Patent number: 7901897Abstract: The invention relates to sensor compositions comprising a composite array of individual arrays, to allow for simultaneous processing of a number of samples. The invention further provides methods of making and using the composite arrays. The invention further provides a hybridization chamber for use with a composite array.Type: GrantFiled: March 16, 2009Date of Patent: March 8, 2011Assignee: Illumina, Inc.Inventors: John R Stuelpnagel, Mark S Chee, Steven R Auger, Gan G Wang, Laura S Casas, Shawn Christopher Baker, Robert C Kain