公开(公告)号：US11479809B2

公开(公告)日：2022-10-25

申请号：US17704830

申请日：2022-03-25

Applicant: Spatial Transcriptomics AB

Inventor： Jonas Frisen ,  Patrik Stahl ,  Joakim Lundeberg

IPC: C12Q1/682 ,  G01N1/30 ,  G01N1/42 ,  C12Q1/6837 ,  C12Q1/6841 ,  C12Q1/6844 ,  G16B50/30 ,  G16B50/20 ,  G16B30/00 ,  C12Q1/6806 ,  C12Q1/6816 ,  C12Q1/6827 ,  C12Q1/6876 ,  C12N15/10

Abstract: Localized detection of RNA in a tissue sample that includes cells is accomplished on an array. The array include a number of features on a substrate. Each feature includes a different capture probe immobilized such that the capture probe has a free 3′ end. Each feature occupies a distinct position on the array and has an area of less than about 1 mm2. Each capture probe is a nucleic acid molecule, which includes a positional domain including a nucleotide sequence unique to a particular feature, and a capture domain including a nucleotide sequence complementary to the RNA to be detected. The capture domain can be at a position 3′ of the positional domain.

公开(公告)号：US11162132B2

公开(公告)日：2021-11-02

申请号：US17237670

申请日：2021-04-22

Applicant: Spatial Transcriptomics AB ,  Illumina, Inc.

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

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

Abstract: 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：US20220090058A1

公开(公告)日：2022-03-24

申请号：US17474899

申请日：2021-09-14

Applicant: Spatial Transcriptomics AB

Inventor： Jonas Frisen ,  Patrik Stahl ,  Joakim Lundeberg

IPC: C12N15/10

Abstract: Localized detection of RNA in a tissue sample that includes cells is accomplished on an array. The array include a number of features on a substrate. Each feature includes a different capture probe immobilized such that the capture probe has a free 3′ end. Each feature occupies a distinct position on the array and has an area of less than about 1 mm2. Each capture probe is a nucleic acid molecule, which includes a positional domain including a nucleotide sequence unique to a particular feature, and a capture domain including a nucleotide sequence complementary to the RNA to be detected. The capture domain can be at a position 3′ of the positional domain.

公开(公告)号：US09593365B2

公开(公告)日：2017-03-14

申请号：US14434274

申请日：2013-10-16

Applicant: SPATIAL TRANSCRIPTOMICS AB

Inventor： Jonas Frisen ,  Patrik Stahl ,  Joakim Lundeberg ,  Fredrik Salmen

IPC: C12Q1/68

CPC classification number: C12Q1/6837 ,  C12Q1/6841 ,  C12Q1/6874 ,  C12Q2543/101 ,  C12Q2565/514 ,  C12Q2565/537

Abstract: The present invention relates to methods and products for localized or spatial detection and/or analysis of RNA in a tissue sample or a portion thereof, comprising: (a) providing an object substrate on which at least one species of capture probe, comprising a capture domain, is directly or indirectly immobilized such that the probes are oriented to have a free 3′ end to enable said probe to function as a reverse transcriptase (RT) primer; (b) contacting said substrate with a tissue sample and allowing RNA of the tissue sample to hybridize to the capture probes; (c) generating cDNA molecules from the captured RNA molecules using said capture probes as RT primers; (d) labelling the cDNA molecules generated in step (c), wherein said labelling step may be contemporaneous with, or subsequent to, said generating step; (e) detecting a signal from the labelled cDNA molecules; and optionally (f) imaging the tissue sample, wherein the tissue sample is imaged before or after step (c).

Abstract translation: 本发明涉及用于组织样本或其部分中RNA的局部或空间检测和/或分析的方法和产品，其包括：（a）提供对象底物，其上至少一种捕获探针，其包含捕获 结构域直接或间接固定，使得探针定向为具有游离的3'末端以使所述探针用作逆转录酶（RT）引物; （b）使所述底物与组织样品接触并允许组织样品的RNA与捕获探针杂交; （c）使用所述捕获探针作为RT引物从捕获的RNA分子产生cDNA分子; （d）标记步骤（c）中产生的cDNA分子，其中所述标记步骤可以与所述生成步骤同时或之后; （e）检测来自标记的cDNA分子的信号; 以及任选地（f）对所述组织样品进行成像，其中所述组织样品在步骤（c）之前或之后成像。

公开(公告)号：US11613773B2

公开(公告)日：2023-03-28

申请号：US17834474

申请日：2022-06-07

Applicant: Spatial Transcriptomics AB ,  Illumina, Inc.

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

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

Abstract: 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：US11352659B2

公开(公告)日：2022-06-07

申请号：US17474922

申请日：2021-09-14

Applicant: Spatial Transcriptomics AB

Inventor： Jonas Frisen ,  Patrik Stahl ,  Joakim Lundeberg

IPC: C12Q1/682 ,  G01N1/30 ,  G01N1/42

Abstract: Localized detection of RNA in a tissue sample that includes cells is accomplished on an array. The array include a number of features on a substrate. Each feature includes a different capture probe immobilized such that the capture probe has a free 3′ end. Each feature occupies a distinct position on the array and has an area of less than about 1 mm2. Each capture probe is a nucleic acid molecule, which includes a positional domain including a nucleotide sequence unique to a particular feature, and a capture domain including a nucleotide sequence complementary to the RNA to be detected. The capture domain can be at a position 3′ of the positional domain.

公开(公告)号：US20220127659A1

公开(公告)日：2022-04-28

申请号：US17474922

申请日：2021-09-14

Applicant: Spatial Transcriptomics AB

Inventor： Jonas Frisen ,  Patrik Stahl ,  Joakim Lundeberg

IPC: C12Q1/682 ,  G01N1/30 ,  G01N1/42

Abstract: Localized detection of RNA in a tissue sample that includes cells is accomplished on an array. The array include a number of features on a substrate. Each feature includes a different capture probe immobilized such that the capture probe has a free 3′ end. Each feature occupies a distinct position on the array and has an area of less than about 1 mm2. Each capture probe is a nucleic acid molecule, which includes a positional domain including a nucleotide sequence unique to a particular feature, and a capture domain including a nucleotide sequence complementary to the RNA to be detected. The capture domain can be at a position 3′ of the positional domain.

公开(公告)号：US20230183785A1

公开(公告)日：2023-06-15

申请号：US18166853

申请日：2023-02-09

Applicant: Spatial Transcriptomics AB ,  Illumina, Inc.

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

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

CPC classification number: C12Q1/6834 ,  C12Q1/6841 ,  C12Q1/6874 ,  C12N15/1065 ,  C12Q1/6876

Abstract: 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：US20220213526A1

公开(公告)日：2022-07-07

申请号：US17704830

申请日：2022-03-25

Applicant: Spatial Transcriptomics AB

Inventor： Jonas Frisen ,  Patrik Stahl ,  Joakim Lundeberg

IPC: C12Q1/682 ,  G01N1/30 ,  G01N1/42

Abstract: Localized detection of RNA in a tissue sample that includes cells is accomplished on an array. The array include a number of features on a substrate. Each feature includes a different capture probe immobilized such that the capture probe has a free 3′ end. Each feature occupies a distinct position on the array and has an area of less than about 1 mm2. Each capture probe is a nucleic acid molecule, which includes a positional domain including a nucleotide sequence unique to a particular feature, and a capture domain including a nucleotide sequence complementary to the RNA to be detected. The capture domain can be at a position 3′ of the positional domain.

公开(公告)号：US20220195505A1

公开(公告)日：2022-06-23

申请号：US17693116

申请日：2022-03-11

Applicant: Spatial Transcriptomics AB ,  Illumina, Inc.

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

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

Abstract: 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.