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公开(公告)号：US11590505B2
公开(公告)日：2023-02-28
申请号：US17254462
申请日：2020-05-26
Applicant: ILLUMINA, INC.
Inventor： Merek Siu , Ali Agah , Stanley Hong , Tarun Khurana , Aathavan Karunakaran , Craig Ciesla , Amirali Kia
Abstract: Devices, systems, and methods for non-volatile storage include a well activation device operable to modify one or more wells from a plurality of wells of a flow cell to provide a set of readable wells. Readable wells are configured to allow exposure of a well to substances from nucleotide sequencing fluids, and prevent exposure to other substances and fluids, such as nucleotide synthesizing fluids. The well activation device may also modify wells to provide a set of writeable wells. This set of wells is configured to allow exposure to the nucleotide synthesizing fluids and substances; and prevent exposure to the nucleotide sequencing fluids and substances. There may also be provisions made for risk mitigation for data errors such as generating commands to write specified data to a nucleotide sequence associated with a particular location in a storage device, reading the nucleotide sequence and performing a comparison.
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公开(公告)号：US11453003B2
公开(公告)日：2022-09-27
申请号：US17550063
申请日：2021-12-14
Applicant: ILLUMINA, INC.
Inventor： Ali Agah , Aathavan Karunakaran , Tarun Khurana , Stanley Hong , Merek Siu , Arvin Emadi , Craig Ciesla
IPC: B01L3/00 , G11C13/02 , B01J19/00 , C12Q1/6874 , C12N15/09
Abstract: An apparatus includes a flow cell body, a plurality of electrodes, an integrated circuit, and an imaging assembly. The flow cell body defines one or more flow channels and a plurality of wells. Each flow channel is configured to receive a flow of fluid. Each well is fluidically coupled with the corresponding flow channel. Each well is configured to contain at least one polynucleotide. Each electrode is positioned in a corresponding well of the plurality of wells. The electrodes are operable to effect writing of polynucleotides in the corresponding wells. The integrated circuit is operable to drive selective deposition or activation of selected nucleotides to attach to polynucleotides in the wells to thereby generate polynucleotides representing machine-written data in the wells. The imaging assembly is operable to capture images indicative of one or more nucleotides in a polynucleotide.
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公开(公告)号：US11229909B2
公开(公告)日：2022-01-25
申请号：US17254469
申请日：2020-05-26
Applicant: ILLUMINA, INC.
Inventor： Ali Agah , Aathavan Karunakaran , Tarun Khurana , Stanley Hong , Merek Siu , Arvin Emadi , Craig Ciesla
Abstract: An apparatus includes a flow cell body, a plurality of electrodes, an integrated circuit, and an imaging assembly. The flow cell body defines one or more flow channels and a plurality of wells. Each flow channel is configured to receive a flow of fluid. Each well is fluidically coupled with the corresponding flow channel. Each well is configured to contain at least one polynucleotide. Each electrode is positioned in a corresponding well of the plurality of wells. The electrodes are operable to effect writing of polynucleotides in the corresponding wells. The integrated circuit is operable to drive selective deposition or activation of selected nucleotides to attach to polynucleotides in the wells to thereby generate polynucleotides representing machine-written data in the wells. The imaging assembly is operable to capture images indicative of one or more nucleotides in a polynucleotide.
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公开(公告)号：US20240369468A1
公开(公告)日：2024-11-07
申请号：US18572189
申请日：2022-12-27
Applicant: ILLUMINA, INC.
Inventor： Steven Boege , Danilo Condello , Simon Prince , Jason Bryant , Merek Siu
IPC: G01N15/1434 , G01N15/10 , G01N15/14
Abstract: Imaging systems and related methods are disclosed. In accordance with an implementation, a system includes a flow cell receptacle to receive a flow cell that receives a sample and an imaging system having a light source assembly, and an imaging device. The light source assembly to form a substantially collimated beam. The optical assembly including an asymmetric beam expander group that includes one or more asymmetric elements or anamorphic elements disposed along an optical axis. The optical assembly to receive the substantially collimated beam from the light source assembly, and transform the substantially collimated beam into a shaped sampling beam having an elongated cross section in a far field at or near a focal plane of the optical assembly to optically probe the sample. The imaging device to obtain image data associated with the sample in response to the optical probing of the sample with the sampling beam.
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公开(公告)号：US11867672B2
公开(公告)日：2024-01-09
申请号：US18107752
申请日：2023-02-09
Applicant: ILLUMINA, INC.
Inventor： Tarun Khurana , Ali Agah , Aathavan Karunakaran , Stanley Hong , Merek Siu , Arvin Emadi , Craig Ciesla
IPC: G01N30/74 , C12Q1/6874
CPC classification number: G01N30/74 , C12Q1/6874 , G01N2030/746
Abstract: An apparatus includes a flow cell body, a plurality of electrodes, an imaging assembly, and one or more barrier features. The flow cell body defines one or more flow channels and a plurality of wells defined as recesses in the floor of each flow channel. Each well is fluidically coupled with the corresponding flow channel. The flow cell body further defines interstitial surfaces between adjacent wells. Each well defines a corresponding depth. Each electrode is positioned in a corresponding well of the plurality of wells. The electrodes are to effect writing of polynucleotides in the wells. The imaging assembly is to capture images of polynucleotides written in the wells. The one or more barrier features are positioned in the wells, between the wells, or above the wells. The one or more barrier features contain reactions in each well, reduce diffusion between the wells, or reduce optical cross-talk between the wells.
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Patent Agency Ranking
公开(公告)号：US20230184725A1
公开(公告)日：2023-06-15
申请号：US18107752
申请日：2023-02-09
Applicant: ILLUMINA, INC.
Inventor： Tarun Khurana , Ali Agah , Aathavan Karunakaran , Stanley Hong , Merek Siu , Arvin Emadi , Craig Ciesla
IPC: G01N30/74 , C12Q1/6874
CPC classification number: G01N30/74 , C12Q1/6874 , G01N2030/746
Abstract: An apparatus includes a flow cell body, a plurality of electrodes, an imaging assembly, and one or more barrier features. The flow cell body defines one or more flow channels and a plurality of wells defined as recesses in the floor of each flow channel. Each well is fluidically coupled with the corresponding flow channel. The flow cell body further defines interstitial surfaces between adjacent wells. Each well defines a corresponding depth. Each electrode is positioned in a corresponding well of the plurality of wells. The electrodes are to effect writing of polynucleotides in the wells. The imaging assembly is to capture images of polynucleotides written in the wells. The one or more barrier features are positioned in the wells, between the wells, or above the wells. The one or more barrier features contain reactions in each well, reduce diffusion between the wells, or reduce optical cross-talk between the wells.
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公开(公告)号：US11604175B2
公开(公告)日：2023-03-14
申请号：US17846538
申请日：2022-06-22
Applicant: ILLUMINA, INC.
Inventor： Tarun Khurana , Ali Agah , Aathavan Karunakaran , Stanley Hong , Merek Siu , Arvin Emadi , Craig Ciesla
IPC: G01N30/74 , C12Q1/6874
Abstract: An apparatus includes a flow cell body, a plurality of electrodes, an imaging assembly, and one or more barrier features. The flow cell body defines one or more flow channels and a plurality of wells defined as recesses in the floor of each flow channel. Each well is fluidically coupled with the corresponding flow channel. The flow cell body further defines interstitial surfaces between adjacent wells. Each well defines a corresponding depth. Each electrode is positioned in a corresponding well of the plurality of wells. The electrodes are to effect writing of polynucleotides in the wells. The imaging assembly is to capture images of polynucleotides written in the wells. The one or more barrier features are positioned in the wells, between the wells, or above the wells. The one or more barrier features contain reactions in each well, reduce diffusion between the wells, or reduce optical cross-talk between the wells.
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公开(公告)号：US11282588B2
公开(公告)日：2022-03-22
申请号：US17254459
申请日：2020-05-26
Applicant: ILLUMINA, INC.
Inventor： Craig Ciesla , Ali Agah , Stanley Hong , Tarun Khurana , Aathavan Karunakaran , Arvin Emadi , Merek Siu
IPC: G16B50/30 , G06F3/06 , G16B30/10 , C12Q1/6869 , G11C13/02 , B01L3/00 , C12Q1/6874
Abstract: A system writes input data to a storage device as machine-written polynucleotides; and reads machine written polynucleotides from the storage device as output data. The storage device includes a flow cell including a plurality of storage wells in which machine written polynucleotides may be stored. The storage device may include a set of electrodes corresponding to the storage wells that allow for selective interactions with wells across the surface of a flow cell. Operation of the storage device may include receiving a read request associated with a particular location in the storage device, creating a copy of a nucleotide sequence located at the particular location in the storage device, transferring the copy of the nucleotide sequence to a read location, and reading the copy of the nucleotide sequence at the read location.
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公开(公告)号：US20250004244A1
公开(公告)日：2025-01-02
申请号：US18759291
申请日：2024-06-28
Applicant: ILLUMINA, INC.
Inventor： Dustin Blair , Gregory Holst , Merek Siu , Paul Sangiorgio , Dakota Watson , Danilo Condello , John Earney , Peter Newman
Abstract: An imaging system includes a focus tracking module including: a light source to project a first pair of spots on a sample; and a first image sensor to obtain one or more first images of the first pair of spots; a second image sensor to obtain one or more second images of the sample; one or more mirrors optically coupled to the second image sensor, the one or more mirrors positioned in an optical path from the sample to the second image sensor; and a controller to: determine, using at least a first separation distance measurement of the first pair of spots from the one or more first images, a first sample tilt of the sample about a first axis of the imaging system; and actuate, based at least on the first sample tilt, the one or more mirrors to offset the first sample tilt about the first axis.
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公开(公告)号：US20230407386A1
公开(公告)日：2023-12-21
申请号：US18208069
申请日：2023-06-09
Applicant: Illumina, Inc. , Illumina Software, Inc.
Inventor： Stanley Hong , Michael Gallaspy , Merek Siu , Jeffrey Gau , Anindita Dutta , Aathavan Karunakaran , Simon Prince
IPC: C12Q1/6874 , G16B30/00 , G16B40/10
CPC classification number: C12Q1/6874 , G16B30/00 , G16B40/10
Abstract: Defocus is introduced during sequencing by synthesis by tilt of a flow cell and by variations in flatness of the flow cell. Effects of the defocus are reduced, and base calling quality is improved using techniques relating to dependence of base calling on flow cell tilt. For example, the flow cell surface height is measured throughout the flow cell. A focal height of an imager having a sensor for the sequencing is set, optionally adaptively, one or more times during the sequencing. Each image captured by the sensor is partitioned, e.g., based on differences between focal height and the measured flow cell surface height across areas of the sensor. Filters, e.g., related to defocus correction, are selected based at least in part on the difference between the focal height and the measured flow cell surface height at a particular area of the image being corrected for defocus.
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