公开(公告)号：US11299774B2

公开(公告)日：2022-04-12

申请号：US17479718

申请日：2021-09-20

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：US20210292822A1

公开(公告)日：2021-09-23

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 ,  C12Q1/6841 ,  C12Q1/6874 ,  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：US20210223227A1

公开(公告)日：2021-07-22

申请号：US17150997

申请日：2021-01-15

Applicant: Spatial Transcriptomics AB

Inventor： Marlon Stoeckius

IPC: G01N33/487 ,  G01N27/30 ,  G01N27/404

Abstract: An electrophoretic system is provided for analyte capture from a biological sample. The electrophoretic system can be used to permeabilize the sample to allow analytes to be released from the sample. For example, the sample can be contacted with capture probes attached to a substrate, and an electric field created by the electrophoretic system can cause analytes to be released from the cell, and effectively migrate toward and bind to the capture probes attached to the substrate.

公开(公告)号：US10774374B2

公开(公告)日：2020-09-15

申请号：US15565637

申请日：2016-04-04

Applicant: Spatial Transcriptomics AB ,  ILLUMINA, INC.

Inventor： Jonas Frisén ,  Patrik Ståhl ,  Joakim Lundeberg ,  Gordon M. Cann ,  Leila Bazargan ,  Alex Aravanis

IPC: C12Q1/68 ,  C12Q1/6834 ,  C12Q1/6841 ,  C12Q1/6874 ,  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：US20190203275A1

公开(公告)日：2019-07-04

申请号：US15565637

申请日：2016-04-04

Applicant: Spatial Transcriptomics AB ,  ILLUMINA, INC.

Inventor： JONAS FRISÉN ,  PATRIK STÅHL ,  JOAKIM LUNDEBERG ,  GORDON M. CANN ,  LEILA BAZARGAN ,  ALEX ARAVANIS

IPC: C12Q1/6834 ,  C12Q1/6841 ,  C12Q1/6876 ,  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：US20150344942A1

公开(公告)日：2015-12-03

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 hybridise 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。