公开(公告)号：US20240301488A1

公开(公告)日：2024-09-12

申请号：US18605197

申请日：2024-03-14

Applicant: 10x Genomics, Inc.

Inventor： Marlon Stoeckius

IPC: C12Q1/6874 ,  C12Q1/48 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6876

CPC classification number: C12Q1/6874 ,  C12Q1/485 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6876 ,  C12Y207/07007 ,  C12Y301/26004 ,  C12Y605/01001 ,  G01N2333/9015 ,  G01N2333/9126 ,  G01N2333/922

Abstract: Provided herein are methods of identifying a location of an RNA in a sample that include: (a) contacting the sample with an array comprising capture probes, where a capture probe comprises a capture domain and a spatial barcode; (b) releasing the RNA from the sample; (c) extending a 3′ end of the capture probe using the capture domain-bound RNA as a template; (d) generating nick(s) in the extended capture probe-hybridized RNA and performing random-primed DNA synthesis; (e) performing end repair on the second strand DNA molecule; (f) adding a single adenosine nucleotide to the 3′ end of the extended capture probe; (g) ligating a double-stranded sequencing adaptor to the double-stranded DNA product; and (h) determining all or a part of the sequence of the RNA, and the sequence of the spatial barcode, or complements thereof, and using the determined sequences to identify the location of the RNA in the sample.

公开(公告)号：US20240052343A1

公开(公告)日：2024-02-15

申请号：US18492344

申请日：2023-10-23

Applicant: 10x Genomics, Inc.

Inventor： Caroline Julie Gallant ,  Marlon Stoeckius ,  Katherine Pfeiffer

IPC: C12N15/10 ,  C12Q1/6837 ,  C12Q1/6874

CPC classification number: C12N15/1093 ,  C12Q1/6837 ,  C12Q1/6874

Abstract: Provided herein are methods, compositions, and kits for removing a portion of a sequence in a member of a nucleic acid library.

公开(公告)号：US11840687B2

公开(公告)日：2023-12-12

申请号：US18319889

申请日：2023-05-18

Applicant: 10x Genomics, Inc.

Inventor： Caroline Julie Gallant ,  Marlon Stoeckius ,  Katherine Pfeiffer

IPC: C12Q1/6837 ,  C12Q1/6874 ,  C12N15/10

CPC classification number: C12N15/1093 ,  C12Q1/6837 ,  C12Q1/6874

Abstract: Provided herein are methods, compositions, and kits for removing a portion of a sequence in a member of a nucleic acid library.

公开(公告)号：US20230323453A1

公开(公告)日：2023-10-12

申请号：US18323079

申请日：2023-05-24

Applicant: 10x Genomics, Inc.

Inventor： Marlon Stoeckius

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

CPC classification number: C12Q1/6876 ,  C12Q1/6841 ,  C12Q1/6874 ,  C12Q2521/327 ,  C12Q2521/501 ,  C12Q2523/109 ,  C12Q2525/161 ,  C12Q2537/163

Abstract: Methods for enhancing specificity of an analyte binding moiety or probe oligonucleotide to an analyte are provided herein. For example, methods provided herein include blocking a capture binding domain, thereby preventing hybridization to the capture domain of the capture probe affixed to a substrate. Further methods include releasing the block from the capture binding domain, thereby allowing the capture binding domain to specifically bind to the capture domain of the capture probe on the substrate.

公开(公告)号：US20230313279A1

公开(公告)日：2023-10-05

申请号：US18023963

申请日：2021-09-16

Applicant: 10x Genomics, Inc.

Inventor： Stefania Giacomello ,  Paulius Mielinis ,  Marlon Stoeckius

IPC: C12Q1/6841 ,  C12Q1/6874

CPC classification number: C12Q1/6841 ,  C12Q1/6874 ,  C12Q2600/16 ,  C12Q1/6876

Abstract: Provided herein are methods of determining a location of an analyte in a biological sample and devices that include a plurality of wells, where a well of the plurality of wells comprises a surface comprising a plurality of capture probes.

公开(公告)号：US11761038B1

公开(公告)日：2023-09-19

申请号：US17368276

申请日：2021-07-06

Applicant: 10x Genomics, Inc.

Inventor： Marlon Stoeckius

IPC: C12P19/34 ,  C12Q1/6874 ,  C12Q1/6876 ,  C12Q1/6806 ,  C12Q1/48 ,  C12Q1/686

CPC classification number: C12Q1/6874 ,  C12Q1/485 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6876 ,  C12Y207/07007 ,  C12Y301/26004 ,  C12Y605/01001 ,  G01N2333/9015 ,  G01N2333/9126 ,  G01N2333/922

Abstract: Provided herein are methods of identifying a location of an RNA in a sample that include: (a) contacting the sample with an array comprising capture probes, where a capture probe comprises a capture domain and a spatial barcode; (b) releasing the RNA from the sample; (c) extending a 3′ end of the capture probe using the capture domain-bound RNA as a template; (d) generating nick(s) in the extended capture probe-hybridized RNA and performing random-primed DNA synthesis; (e) performing end repair on the second strand DNA molecule; (f) adding a single adenosine nucleotide to the 3′ end of the extended capture probe; (g) ligating a double-stranded sequencing adaptor to the double-stranded DNA product; and (h) determining all or a part of the sequence of the RNA, and the sequence of the spatial barcode, or complements thereof, and using the determined sequences to identify the location of the RNA in the sample.

公开(公告)号：US20230287399A1

公开(公告)日：2023-09-14

申请号：US18319889

申请日：2023-05-18

Applicant: 10x Genomics, Inc.

Inventor： Caroline Julie Gallant ,  Marlon Stoeckius ,  Katherine Pfeiffer

IPC: C12N15/10 ,  C12Q1/6874 ,  C12Q1/6837

CPC classification number: C12N15/1093 ,  C12Q1/6874 ,  C12Q1/6837

Abstract: Provided herein are methods, compositions, and kits for removing a portion of a sequence in a member of a nucleic acid library.

公开(公告)号：US20230080543A1

公开(公告)日：2023-03-16

申请号：US17882241

申请日：2022-08-05

Applicant: 10x Genomics, Inc.

Inventor： Layla Katiraee ,  Michael Schnall-Levin ,  Christina Galonska ,  Marlon Stoeckius

IPC: C12Q1/6837 ,  C12Q1/6806 ,  C12Q1/6876

Abstract: Provided herein are methods of identifying a methylation status of an analyte in a biological sample. Also provided herein are methods that combine identifying the methylation status with spatial technology to identify the location of a methylation status in a biological sample.

公开(公告)号：US20230064372A1

公开(公告)日：2023-03-02

申请号：US17896520

申请日：2022-08-26

Applicant: 10x Genomics, Inc.

Inventor： James Michael Chell ,  Marlon Stoeckius ,  Jonathan Alles ,  Caroline Julie Gallant ,  Christina Galonska ,  Layla Katiraee

IPC: C12Q1/6876 ,  C12Q1/6811 ,  C12Q1/25 ,  C12Q1/6816 ,  C12Q1/6841 ,  C12Q1/6851

Abstract: Provided herein are methods of detecting an analyte of interest to interrogate spatial gene expression in a sample using RNA-templated ligation.

公开(公告)号：US20220326251A1

公开(公告)日：2022-10-13

申请号：US17738808

申请日：2022-05-06

Applicant: 10x Genomics, Inc.

Inventor： Cedric Uytingco ,  James Michael Chell ,  Marlon Stoeckius ,  Albert Kim ,  Dulce Ovando Morales ,  Andrej Hartnett ,  Yifeng Yin ,  Jennifer Chew

IPC: G01N33/68 ,  C12N15/10 ,  C12Q1/6804 ,  G01N33/58 ,  C12Q1/6874 ,  G01N1/30 ,  G01N21/64

Abstract: Provided herein are methods for preparing biological samples for spatial proteomic analysis, methods of determining a location of a protein analyte in a biological sample, and methods of determining a location of a protein analyte and a nucleic acid analyte in a biological sample.