公开(公告)号：US20240068016A1

公开(公告)日：2024-02-29

申请号：US18505624

申请日：2023-11-09

申请人： 10x Genomics Sweden AB ,  Illumina, Inc.

发明人： Jonas Frisen ,  Patrik Stahl ,  Joakim Lundeberg ,  Gordon M. Cann ,  Leila Bazargan ,  Alex Aravanis

IPC分类号： C12Q1/6834 ,  C12N15/10 ,  C12Q1/6841 ,  C12Q1/6874 ,  C12Q1/6876

CPC分类号： C12Q1/6834 ,  C12N15/1065 ,  C12Q1/6841 ,  C12Q1/6874 ,  C12Q1/6876

摘要： A method for spatially tagging nucleic acids of a biological specimen, including steps of (a) providing a solid support comprising different nucleic acid probes that are randomly located on the solid support, wherein the different nucleic acid probes each includes a barcode sequence that differs from the barcode sequence of other randomly located probes on the solid support; (b) performing a nucleic acid detection reaction on the solid support to locate the barcode sequences on the solid support; (c) contacting a biological specimen with the solid support that has the randomly located probes; (d) hybridizing the randomly located probes to target nucleic acids from portions of the biological specimen; and (e) modifying the randomly located probes that are hybridized to the target nucleic acids, thereby producing modified probes that include the barcode sequences and a target specific modification, thereby spatially tagging the nucleic acids of the biological specimen.

公开(公告)号：US11590494B2

公开(公告)日：2023-02-28

申请号：US16433969

申请日：2019-06-06

申请人： Illumina, inc.

发明人： Alex Aravanis ,  Boyan Boyanov ,  M. Shane Bowen ,  Dale Buermann ,  Alexander Hsiao ,  Behnam Javanmardi ,  Tarun Khurana ,  Poorya Sabounchi ,  Hai Quang Tran

IPC分类号： B01L3/00 ,  F16K99/00 ,  B01L7/00

摘要： Systems and methods for conducting designated reactions utilizing a base instrument and a removable cartridge. The removable cartridge includes a fluidic network that receives and fluidically directs a biological sample to conduct the designated reactions. The removable cartridge also includes a flow-control valve that is operably coupled to the fluidic network and is movable relative to the fluidic network to control flow of the biological sample therethrough. The removable cartridge is configured to separably engage a base instrument. The base instrument includes a valve actuator that engages the flow-control valve of the removable cartridge. A detection assembly held by at least one of the removable cartridge or the base instrument may be used to detect the designated reactions.

公开(公告)号：US20190283024A1

公开(公告)日：2019-09-19

申请号：US16433969

申请日：2019-06-06

申请人： Illumina, Inc.

发明人： Alex Aravanis ,  Boyan Boyanov ,  M. Shane Bowen ,  Dale Buermann ,  Alexander Hsiao ,  Behnam Javanmardi ,  Tarun Khurana ,  Poorya Sabounchi ,  Hai Quang Tran

IPC分类号： B01L3/00 ,  F16K99/00 ,  B01L7/00

摘要： Systems and methods for conducting designated reactions utilizing a base instrument and a removable cartridge. The removable cartridge includes a fluidic network that receives and fluidically directs a biological sample to conduct the designated reactions. The removable cartridge also includes a flow-control valve that is operably coupled to the fluidic network and is movable relative to the fluidic network to control flow of the biological sample therethrough. The removable cartridge is configured to separably engage a base instrument. The base instrument includes a valve actuator that engages the flow-control valve of the removable cartridge. A detection assembly held by at least one of the removable cartridge or the base instrument may be used to detect the designated reactions.

公开(公告)号：US20160017396A1

公开(公告)日：2016-01-21

申请号：US14804068

申请日：2015-07-20

申请人： ILLUMINA, INC.

发明人： Gordon M. Cann ,  Jeffrey G. Mandell ,  Alex Aravanis ,  Steven Norberg ,  Dmitry K. Pokholok ,  Frank J. Steemers ,  Farnaz Absalan ,  Leila Bazargan

IPC分类号： C12P19/34

CPC分类号： C12P19/34 ,  C12N15/102 ,  C12Q1/6816 ,  C12Q1/683 ,  C12Q1/6869 ,  C12Q2521/301 ,  C12Q2522/101 ,  C12Q2563/131

摘要： A method for enriching a target nucleic acid comprising providing an endonuclease system having a crRNA or a derivative thereof, and a Cas protein or a variant thereof. The crRNA or the derivative thereof contains a target-specific nucleotide region substantially complementary to a region of the target nucleic acid; contacting the target nucleic acid with the endonuclease system to form a complex; and separating the complex and thereby enriching for the target nucleic acid.

摘要翻译： 一种富含靶核酸的方法，包括提供具有crRNA或其衍生物的内切核酸酶系统和Cas蛋白质或其变体。 所述crRNA或其衍生物含有与靶核酸区域基本上互补的靶特异性核苷酸区域; 使靶核酸与内切核酸酶系统接触以形成复合物; 并分离复合物，从而富集靶核酸。

公开(公告)号：US20240084376A1

公开(公告)日：2024-03-14

申请号：US18231724

申请日：2023-08-08

申请人： Illumina, Inc.

发明人： Sante Gnerre ,  Byoungsok Jung ,  Emrah Kostem ,  Alex Aravanis ,  Alex So ,  Xuyu Cai ,  Zhihong Zhang ,  Frank J. Steemers

IPC分类号： C12Q1/6869 ,  C12N15/10 ,  C12Q1/6806 ,  C12Q1/6855 ,  G16B30/00 ,  G16B30/10

CPC分类号： C12Q1/6869 ,  C12N15/1065 ,  C12Q1/6806 ,  C12Q1/6855 ,  G16B30/00 ,  G16B30/10

摘要： The disclosed embodiments concern methods, apparatus, systems and computer program products for determining sequences of interest using unique molecular index (UMI) sequences that are uniquely associable with individual polynucleotide fragments, including sequences with low allele frequencies and long sequence length. In some implementations, the UMIs include both physical UMIs and virtual UMIs. In some implementations, the unique molecular index sequences include non-random sequences. System, apparatus, and computer program products are also provided for determining a sequence of interest implementing the methods disclosed.

公开(公告)号：US11866777B2

公开(公告)日：2024-01-09

申请号：US17076715

申请日：2020-10-21

申请人： Illumina, Inc.

发明人： Sante Gnerre ,  Byoungsok Jung ,  Emrah Kostem ,  Alex Aravanis ,  Alex So ,  Xuyu Cai ,  Zhihong Zhang ,  Frank J. Steemers

IPC分类号： C12Q1/6869 ,  G16B30/00 ,  C12N15/10 ,  C12Q1/6806 ,  G16B30/10 ,  C12Q1/6855

CPC分类号： C12Q1/6869 ,  C12N15/1065 ,  C12Q1/6806 ,  C12Q1/6855 ,  G16B30/00 ,  G16B30/10 ,  C12Q1/6806 ,  C12Q2525/191 ,  C12Q2535/119 ,  C12Q2535/122 ,  C12Q2563/179 ,  C12Q2565/514 ,  C12Q1/6869 ,  C12Q2525/191 ,  C12Q2535/119 ,  C12Q2535/122 ,  C12Q2563/179 ,  C12Q2565/514 ,  C12N15/1065 ,  C12Q2525/191 ,  C12Q2535/122 ,  C12Q2563/179

摘要： The disclosed embodiments concern methods, apparatus, systems and computer program products for determining sequences of interest using unique molecular index (UMI) sequences that are uniquely associable with individual polynucleotide fragments, including sequences with low allele frequencies and long sequence length. In some implementations, the UMIs include both physical UMIs and virtual UMIs. In some implementations, the unique molecular index sequences include non-random sequences. System, apparatus, and computer program products are also provided for determining a sequence of interest implementing the methods disclosed.

公开(公告)号：US20240001361A1

公开(公告)日：2024-01-04

申请号：US18369587

申请日：2023-09-18

申请人： ILLUMINA, INC.

发明人： Sebastian Bohm ,  Alex Aravanis ,  Alexander Hsiao ,  Behnam Javanmardi ,  Tarun Kumar Khurana ,  Hai Quang Tran ,  Majid Aghababazadeh ,  M. Shane Bowen ,  Boyan Boyanov ,  Dale Buermann

IPC分类号： B01L3/00 ,  B01L7/00 ,  F16K99/00 ,  G01N35/08 ,  C12Q1/6869

CPC分类号： B01L3/502738 ,  B01L3/50273 ,  B01L7/52 ,  F16K99/0013 ,  F16K99/0028 ,  F16K99/0015 ,  G01N35/08 ,  B01L3/502715 ,  C12Q1/6869 ,  B01L2400/0644 ,  B01L2200/10 ,  B01L2300/0816 ,  B01L2300/0867 ,  B01L2400/0487 ,  F16K2099/0084 ,  B01L2400/0655

摘要： Systems and methods for conducting designated reactions that include a fluidic network having a sample channel, a reaction chamber, and a reservoir. The sample channel is in flow communication with a sample port. The system also includes a rotary valve that has a flow channel and is configured to rotate between first and second valve positions. The flow channel fluidically couples the reaction chamber and the sample channel when the rotary valve is in the first valve position and fluidically couples the reservoir and the reaction chamber when the rotary valve is in the second valve position. A pump assembly induces a flow of a biological sample toward the reaction chamber when the rotary valve is in the first valve position and induces a flow of a reaction component from the reservoir toward the reaction chamber when the rotary valve is in the second valve position.

公开(公告)号：US11162132B2

公开(公告)日：2021-11-02

申请号：US17237670

申请日：2021-04-22

申请人： Spatial Transcriptomics AB ,  Illumina, Inc.

发明人： Jonas Frisen ,  Patrik Stahl ,  Joakim Lundeberg ,  Gordon M. Cann ,  Leila Bazargan ,  Alex Aravanis

IPC分类号： C12Q1/6834 ,  C12Q1/6876 ,  C12Q1/6841 ,  C12Q1/6874

摘要： A method for spatially tagging nucleic acids of a biological specimen, including steps of (a) providing a solid support comprising different nucleic acid probes that are randomly located on the solid support, wherein the different nucleic acid probes each includes a barcode sequence that differs from the barcode sequence of other randomly located probes on the solid support; (b) performing a nucleic acid detection reaction on the solid support to locate the barcode sequences on the solid support; (c) contacting a biological specimen with the solid support that has the randomly located probes; (d) hybridizing the randomly located probes to target nucleic acids from portions of the biological specimen; and (e) modifying the randomly located probes that are hybridized to the target nucleic acids, thereby producing modified probes that include the barcode sequences and a target specific modification, thereby spatially tagging the nucleic acids of the biological specimen.

公开(公告)号：US09926598B2

公开(公告)日：2018-03-27

申请号：US14575808

申请日：2014-12-18

申请人： Illumina, Inc.

发明人： Hongxia Xu ,  Alex Aravanis ,  Shengrong Lin

IPC分类号： C12Q1/68 ,  C12N15/10

CPC分类号： C12Q1/6874 ,  C12N15/1093 ,  C12Q1/6806 ,  C12Q1/6837 ,  C12Q2525/155 ,  C12Q2525/161 ,  C12Q2535/122 ,  C12Q2537/159 ,  C12Q2565/543

摘要： The present disclosure relates to the field of molecular biology and more specifically to methods for capturing, amplifying and sequencing target polynucleotides on a solid surface.

公开(公告)号：US20150197798A1

公开(公告)日：2015-07-16

申请号：US14575808

申请日：2014-12-18

申请人： ILLUMINA, INC.

发明人： Hongxia Xu ,  Alex Aravanis ,  Shengrong Lin

IPC分类号： C12Q1/68 ,  C12N15/10

CPC分类号： C12Q1/6874 ,  C12N15/1093 ,  C12Q1/6806 ,  C12Q1/6837 ,  C12Q2525/155 ,  C12Q2525/161 ,  C12Q2535/122 ,  C12Q2537/159 ,  C12Q2565/543

摘要： The present disclosure relates to the field of molecular biology and more specifically to methods for capturing, amplifying and sequencing target polynucleotides on a solid surface.

摘要翻译： 本公开涉及分子生物学领域，更具体地涉及在固体表面上捕获，扩增和测序靶多核苷酸的方法。