Patents by Inventor David L. Heiner
David L. Heiner 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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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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Publication number: 20120195794Abstract: A flow cell for use in a microfluidic detection system is provided. The flow cell includes a flow cell body having a channel that is configured to convey a solution through the flow cell body. The flow cell also includes a bottom surface and a top surface. The bottom surface is configured to be removably held by the detection system, and the top surface is transparent and permits light to pass therethrough. The flow cell body also includes fluidic inlet and outlet ports that are in fluid communication with the channel. A pump cavity is also provided in the flow cell body. The pump cavity fluidly communicates with, and is interposed between, an end of the channel and one of the fluidic inlet and outlet ports. An electroosmotic (EO) pump is held in the pump cavity. The EO pump induces flow of the solution through the EO pump and channel between the fluidic inlet and outlet ports.Type: ApplicationFiled: April 9, 2012Publication date: August 2, 2012Applicant: Illumina, IncInventors: Michal Lebl, Dale Buermann, Mark T. Reed, David L. Heiner, Alexander Triener
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Publication number: 20120129704Abstract: Methods of generating nucleic acid fragments of substantially uniform length from sample nucleic acids comprising linearly stretching the sample nucleic acids over a substrate having a plurality of cleavage regions separated by relatively consistent distances, cleaving the linearly stretched sample nucleic acids at the cleavage regions, and collecting the resulting nucleic acid fragments. The method may further include collecting and concentrating the resultant nucleic acid fragments of substantially uniform length.Type: ApplicationFiled: April 2, 2010Publication date: May 24, 2012Applicant: Illumina, Inc.Inventors: Kevin Gunderson, Michal Lebl, David L. Heiner
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Patent number: 8173080Abstract: A flows cell for use in a microfluidic detection system is provided. The flow cell includes a flows cell body having a channel that is configured to convey a solution through the flows cell body. The flow cell also includes a bottom surface and a top surface. The bottom surface is configured to be removably held by the detection system, and the top surface is transparent and permits light to pass therethrough. The flow cell body also includes fluidic inlet and outlet ports that are in fluid communication with the channel. A pump cavity is also provided in the flow cell body. The pump cavity fluidly communicates with, and is interposed between, an end of the channel and one of the fluidic inlet and outlet ports. An electroosmotic (EO) pump is held in the pump cavity. The EO pump induces flow of the solution through the EO pump and channel between the fluidic inlet and outlet ports.Type: GrantFiled: February 14, 2008Date of Patent: May 8, 2012Assignee: Illumina, Inc.Inventors: Michal Lebl, Dale Buermann, Mark T. Reed, David L. Heiner, Alexander Triener
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Publication number: 20110178285Abstract: Disclosed herein are compositions, methods and systems for the processing of chemical reactions, such as the synthesis of polymers.Type: ApplicationFiled: January 18, 2011Publication date: July 21, 2011Inventors: Michal Lebl, Michel Perbost, Chad F. DeRosier, Mark J. Nibbe, Steve R. Burgett, David L. Heiner
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Publication number: 20110143965Abstract: An apparatus for high-throughput combinatorial synthesis of organic molecules including a reaction vessel for containing a combinatorial chemistry synthetic reaction, a liquid dispenser for dispensing the liquid, a liquid aspirator and an adjustment mechanism. The reaction vessel includes an ingress aperture allowing a liquid to enter into an interior of the vessel and an egress aperture for aspirating the liquid from the vessel. The liquid dispenser dispenses liquid through the ingress aperture. The liquid aspirator aspirates liquid through the egress aperture and includes a rotor for carrying the vessel and orbiting the vessel about an axis of rotation. The rotor is oriented generally in a horizontal plane and includes an adjustment mechanism for adjusting the angle of the vessel relative to the horizontal plane in response to the centrifugal force generated by orbiting the vessel about the axis or rotation. A method of combinatorial synthesis of organic molecules is also disclosed.Type: ApplicationFiled: February 8, 2011Publication date: June 16, 2011Inventors: Michal Lebl, Mark S. Chee, Steven M. Barnard, David L. Heiner, Vit Pokorny, Mark J. Nibbe, Aaron Christopher Jones
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Publication number: 20110136696Abstract: Described is a system and method for synthesizing polymeric molecules such as oligonucleotides and polypeptides. The system is capable of continuously synthesizing molecules by providing an array of reaction sites and an array of stations for carrying out synthetic manipulations. The reaction sites in the former array can be placed in a fixed order and at fixed intervals relative to each other. Similarly, the stations can be placed in a fixed order and at fixed intervals relative to each other. The two arrays can be moved relative to each other such that the stations carry out desired steps of a reaction scheme at each reaction site. The relative locations of the stations and the schedule for the relative movement can correlate with the order and duration of reaction steps in the reaction scheme such that once a reaction site has completed a cycle of interacting with the full array of stations then the reaction scheme is complete.Type: ApplicationFiled: February 16, 2011Publication date: June 9, 2011Applicant: ILLUMINA, INC.Inventors: David L. Heiner, Aaron C. Jones, Steven P. Fambro, Mark J. Nibbe, Steve R. Burgett, Brett M. Ellman, Michal Lebl
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Publication number: 20110105356Abstract: Methods, kits, systems, and multilayer transfer media for transferring a substance to and from an array are disclosed herein. Also disclosed herein are methods of detecting a substance that has been transferred to an array.Type: ApplicationFiled: May 5, 2009Publication date: May 5, 2011Inventors: Chad F. DeRosier, John A. Moon, Fiona E. Black, Robert Yang, Hongji Ren, David L. Heiner
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Publication number: 20110105366Abstract: The invention is directed to a method of fabricating a microarray. The method includes: (a) providing a substrate having at least two layers of different chemical reactivity, wherein a well in an outer layer exposes an inner layer; (b) contacting the substrate with a first reagent specifically reactive with the outer layer to produce a first modified layer; (c) contacting the substrate with a second reagent specifically reactive with the inner layer of the substrate to produce a modified inner layer, wherein the modified inner layer has a higher affinity for a biopolymer than the modified outer layer, and (d) depositing the biopolymer onto the modified inner layer within the well, wherein the higher affinity of the modified inner layer facilitates localization of the biopolymer onto the well. Methods of fabricating a microarray which include polishing a substrate or functionalizing a plurality of features with a reactive reagent also are provided.Type: ApplicationFiled: June 18, 2008Publication date: May 5, 2011Applicant: ILLUMINA, INC.Inventors: Michael Lebl, David L. Heiner, Chanfeng Zhao, David Barker
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Publication number: 20110072914Abstract: A flows cell for use in a microfluidic detection system is provided. The flow cell includes a flows cell body having a channel that is configured to convey a solution through the flows cell body. The flow cell also includes a bottom surface and a top surface. The bottom surface is configured to be removably held by the detection system and the top surface is transparent and permits light to pass therethrough. The flow cell body also includes fluidic inlet and outlet ports that are in fluid communication with the channel. A pump cavity is also provided in the flow cell body. The pump cavity fluidly communicates with, and is interposed between, an end of the channel and one of the fluidic inlet and outlet ports. An electroosmotic (EO) pump is held in the pump cavity. The EO pump induces flow of the solution through the EO pump and channel between the fluidic inlet and outlet ports.Type: ApplicationFiled: February 14, 2008Publication date: March 31, 2011Applicant: ILLUMINA, INC.Inventors: Michal Lebl, Dale Buermann, Mark T. Reed, David L. Heiner, Alexander Triener
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Patent number: 7914739Abstract: Described is a system and method for synthesizing polymeric molecules such as oligonucleotides and polypeptides. The system is capable of continuously synthesizing molecules by providing an array of reaction sites and an array of stations for carrying out synthetic manipulations. The reaction sites in the former array can be placed in a fixed order and at fixed intervals relative to each other. Similarly, the stations can be placed in a fixed order and at fixed intervals relative to each other. The two arrays can be moved relative to each other such that the stations carry out desired steps of a reaction scheme at each reaction site. The relative locations of the stations and the schedule for the relative movement can correlate with the order and duration of reaction steps in the reaction scheme such that once a reaction site has completed a cycle of interacting with the full array of stations then the reaction scheme is complete.Type: GrantFiled: September 13, 2006Date of Patent: March 29, 2011Assignee: Illumina, Inc.Inventors: David L. Heiner, Aaron C. Jones, Steven P. Fambro, Mark J. Nibbe, Steve R. Burgett, Brett M. Ellman, Michal Lebl
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Publication number: 20110009296Abstract: 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: September 9, 2010Publication date: January 13, 2011Applicant: ILLUMINA, INC.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Publication number: 20110009278Abstract: 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: September 9, 2010Publication date: January 13, 2011Applicant: ILLUMINA, INC.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Patent number: 7835871Abstract: 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: January 28, 2008Date of Patent: November 16, 2010Assignee: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Publication number: 20100137166Abstract: 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: June 25, 2009Publication date: June 3, 2010Applicant: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Publication number: 20100138162Abstract: 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: June 25, 2009Publication date: June 3, 2010Applicant: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Publication number: 20090023605Abstract: An apparatus for high-throughput combinatorial synthesis of organic molecules including a reaction vessel for containing a combinatorial chemistry synthetic reaction, a liquid dispenser for dispensing the liquid, a liquid aspirator and an adjustment mechanism. The reaction vessel includes an ingress aperture allowing a liquid to enter into an interior of the vessel and an egress aperture for aspirating the liquid from the vessel. The liquid dispenser dispenses liquid through the ingress aperture. The liquid aspirator aspirates liquid through the egress aperture and includes a rotor for carrying the vessel and orbiting the vessel about an axis of rotation. The rotor is oriented generally in a horizontal plane and includes an adjustment mechanism for adjusting the angle of the vessel relative to the horizontal plane in response to the centrifugal force generated by orbiting the vessel about the axis or rotation. A method of combinatorial synthesis of organic molecules is also disclosed.Type: ApplicationFiled: June 17, 2008Publication date: January 22, 2009Inventors: Michal Lebl, Mark S. Chee, Steven M. Barnard, David L. Heiner, Vit Pokorny, Mark J. Nibbe, Aaron Christopher Jones
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Publication number: 20080262747Abstract: 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: January 28, 2008Publication date: October 23, 2008Applicant: Illumina, Inc.Inventors: Robert C. Kain, David L. Heiner, Chanfeng Zhao, Kevin Gunderson
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Publication number: 20080182757Abstract: 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: ApplicationFiled: January 28, 2008Publication date: July 31, 2008Applicant: Illumina, Inc.Inventors: David L. Heiner, Robert C. Kain