公开(公告)号：US11739381B2

公开(公告)日：2023-08-29

申请号：US17867223

申请日：2022-07-18

Applicant: 10x Genomics, Inc.

Inventor： Jennifer Chew ,  Joseph Francis Shuga ,  Patrick Roelli ,  Denise Cheung ,  Alexander Hermes ,  Yifeng Yin ,  Naishitha Anaparthy ,  Ryo Hatori ,  Marlon Stoeckius ,  Rapolas Spalinskas ,  Anna-Maria Katsori ,  Cedric Uytingco ,  Mesruh Turkekul ,  David Sukovich ,  Christina Galonska ,  Aleksandra Jurek ,  Octavian Marian Bloju

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

CPC classification number: C12Q1/6874 ,  C12N15/1065 ,  C12Q1/6837

Abstract: Provided herein are methods, compositions, and kits for preparing biological samples for multiplex spatial gene expression and proteomic analysis, such as determining a location of a nucleic acid analyte and a protein analyte in a biological sample.

公开(公告)号：US11592447B2

公开(公告)日：2023-02-28

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 ,  C12Q1/6874 ,  G01N1/30 ,  G01N21/64 ,  G01N33/58

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.

公开(公告)号：US20230002812A1

公开(公告)日：2023-01-05

申请号：US17776769

申请日：2020-11-13

Applicant: 10x Genomics, Inc.

Inventor： Marlon Stoeckius ,  Stefania Giacomello ,  Zachary Bent ,  Meghan L. F. Frey ,  Alexander Gagnon ,  Erik Leonard Henrik Borgstrom

IPC: C12Q1/6837

Abstract: The present disclosure relates to compositions, methods, and kits for generating capture probes on a substrate for identifying the location of analytes in a biological sample. In particular, disclosed is a method of generating a spatial array comprising: (a) providing a substrate comprising a plurality of acceptor oligonucleotides, wherein an acceptor oligonucleotide of the plurality of acceptor oligonucleotides comprises a spatial barcode and a first ligation handle, and wherein the 5′ end of the acceptor oligonucleotide is attached to the substrate; (b) providing a plurality of universal splint oligonucleotides, wherein a universal splint oligonucleotide of the plurality of universal splint oligonucleotides comprises a sequence complementary to the first ligation handle and a sequence complementary to a second ligation handle present in a donor oligonucleotide of a plurality of donor oligonucleotides; and (c) ligating the donor oligonucleotide comprising a capture domain to the 3′ end of the acceptor oligonucleotide to generate a capture probe, wherein the universal splint oligonucleotide is hybridized to the first ligation handle and the second ligation handle, thereby generating a spatial array.

公开(公告)号：US20220389504A1

公开(公告)日：2022-12-08

申请号：US17867223

申请日：2022-07-18

Applicant: 10x Genomics, Inc.

Inventor： Jennifer Chew ,  Joseph Francis Shuga ,  Patrick Roelli ,  Denise Cheung ,  Alexander Hermes ,  Yifeng Yin ,  Naishitha Anaparthy ,  Ryo Hatori ,  Marlon Stoeckius ,  Rapolas Spalinskas ,  Anna-Maria Katsori ,  Cedric Uytingco ,  Mesruh Turkekul ,  David Sukovich ,  Christina Galonska ,  Aleksandra Jurek ,  Octavian Marian Bloju

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

Abstract: Provided herein are methods, compositions, and kits for preparing biological samples for multiplex spatial gene expression and proteomic analysis, such as determining a location of a nucleic acid analyte and a protein analyte in a biological sample.

公开(公告)号：US20220348992A1

公开(公告)日：2022-11-03

申请号：US17858509

申请日：2022-07-06

Applicant: 10x Genomics, Inc.

Inventor： Marlon Stoeckius ,  James Michael Chell ,  Cedric Uytingco ,  Jennifer Chew ,  Felice Alessio Bava

IPC: C12Q1/6811 ,  C12Q1/6837

Abstract: The present disclosure relates to determining the location of analytes in fixed biological samples.

公开(公告)号：US20220195422A1

公开(公告)日：2022-06-23

申请号：US17690628

申请日：2022-03-09

Applicant: 10x Genomics, Inc.

Inventor： Caroline Julie Gallant ,  Marlon Stoeckius ,  Katherine Pfeiffer

IPC: C12N15/10 ,  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：US20250154569A1

公开(公告)日：2025-05-15

申请号：US19023801

申请日：2025-01-16

Applicant: 10x Genomics, Inc.

Inventor： Marlon Stoeckius ,  Stefania Giacomello ,  Zachary Bent ,  Meghan L. F. Frey ,  Alexander Gagnon ,  Erik Leonard Henrik Borgstrom

IPC: C12Q1/6837

Abstract: The present disclosure relates to compositions, methods, and kits for generating capture probes on a substrate for identifying the location of analytes in a biological sample.

公开(公告)号：US11952627B2

公开(公告)日：2024-04-09

申请号：US18448618

申请日：2023-08-11

Applicant: 10x Genomics, Inc.

Inventor： Marlon Stoeckius

IPC: C12Q1/68 ,  C12Q1/48 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6874 ,  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：US20240053351A1

公开(公告)日：2024-02-15

申请号：US18480120

申请日：2023-10-03

Applicant: 10x Genomics, Inc.

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

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

CPC classification number: G01N33/6803 ,  C12N15/1065 ,  C12Q1/6804 ,  C12Q1/6874 ,  G01N1/30 ,  G01N21/6428 ,  G01N21/6456 ,  G01N33/582 ,  G01N2021/6439

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.

公开(公告)号：US11851683B1

公开(公告)日：2023-12-26

申请号：US16789273

申请日：2020-02-12

Applicant: 10X GENOMICS, INC.

Inventor： Arundhati Shamoni Maheshwari ,  Marlon Stoeckius

IPC: G01N33/50 ,  C12Q1/6806 ,  C12N5/09

CPC classification number: C12N5/0693 ,  C12Q1/6806 ,  G01N33/5044

Abstract: Provided herein are methods and systems for analysis of one or more single cells. The disclosed methods may comprise barcoding analytes from cell types of interest, while eliminating undesired cell types from analysis. Barcoding may comprise the use of a targeting agent. A targeting agent may be attached to an inhibitor or an activator, thereby inhibiting or activating analyte barcoding.