公开(公告)号：US20210238675A1

公开(公告)日：2021-08-05

申请号：US17167559

申请日：2021-02-04

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio Bava

IPC: C12Q1/6874 ,  C12N15/10

Abstract: Disclosed herein are methods of amplifying an analyte in a biological sample using a bridging oligonucleotide that hybridizes to a captured analyte.

公开(公告)号：US12188085B2

公开(公告)日：2025-01-07

申请号：US17192746

申请日：2021-03-04

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio Bava

IPC: C12Q1/6869 ,  C12Q1/6832

Abstract: In some embodiments described herein are methods for three-dimensional analysis of a biological sample, comprising migrating a population of spatial probes into the biological sample in each of three dimensions, wherein each spatial probe comprises a targeting domain and a migration domain. Also provided are kits and compositions for use according to any of the methods described herein.

公开(公告)号：US20240416315A1

公开(公告)日：2024-12-19

申请号：US18819856

申请日：2024-08-29

Applicant: 10X Genomics, Inc.

Inventor： Felice Alessio Bava

IPC: B01J19/00

Abstract: Disclosed are extended and/or branched oligonucleotide capture probe assemblies for use in spatial transcriptomics systems, and methods for making the capture probe assemblies.

公开(公告)号：US20240360494A1

公开(公告)日：2024-10-31

申请号：US18763579

申请日：2024-07-03

Applicant: 10x Genomics, Inc.

Inventor： Justin Costa ,  Felice Alessio Bava

IPC: C12Q1/6837 ,  C12Q1/6876

CPC classification number: C12Q1/6837 ,  C12Q1/6876

Abstract: Provided herein are methods, compositions, and kits for capturing a ligation product, in which the method can include covalently reacting a capture moiety of a capture probe with a reactive moiety of the ligation product to form a captured ligation product.

公开(公告)号：US12110548B2

公开(公告)日：2024-10-08

申请号：US17165802

申请日：2021-02-02

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio Bava

IPC: C12Q1/6874 ,  C12Q1/6876

CPC classification number: C12Q1/6874 ,  C12Q1/6876

Abstract: In some aspects, provided herein are methods for analyzing a nucleic acid comprising first and second regions of interest flanking an adaptor region, comprising hybridizing an anchor to the adaptor region, analyzing the first region of interest from one end of the anchor using probe ligation (e.g., sequencing-by-ligation), and binding a polymerase to the other end of the anchor and optionally incorporating a nucleotide and/or analog thereof into the anchor by the polymerase using the second region of interest or a probe bound thereto as a template. In some embodiments, the second region of interest is used as a template for sequencing-by-synthesis. In some embodiments, spatially resolved detections of analytes are performed at a cellular or sub-cellular resolution which involve correlating signals associated with analytes with specific spatial locations in a biological sample.

公开(公告)号：US12076701B2

公开(公告)日：2024-09-03

申请号：US17161007

申请日：2021-01-28

Applicant: 10X Genomics, Inc.

Inventor： Felice Alessio Bava

IPC: B01J19/00

CPC classification number: B01J19/0046 ,  B01J2219/00608 ,  B01J2219/00722

Abstract: Disclosed are extended and/or branched oligonucleotide capture probe assemblies for use in spatial transcriptomics systems, and methods for making the capture probe assemblies.

公开(公告)号：US12071667B2

公开(公告)日：2024-08-27

申请号：US17518264

申请日：2021-11-03

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio Bava ,  Eswar Prasad Ramachandran Iyer

IPC: C12Q1/6876 ,  C12Q1/6855

CPC classification number: C12Q1/6876 ,  C12Q1/6855 ,  C12Q2600/156

Abstract: The present disclosure relates in some aspects to methods for analyzing a target nucleic acid in a biological sample. In some aspects, the methods involve the use of a set of probe polynucleotides, for example a set of three or more probe polynucleotides, for assessing target nucleic acids. In some aspects, the presence, amount, and/or identity of region of interest in a target nucleic acid is analyzed in situ. Also provided are polynucleotides, sets of polynucleotides, compositions, and kits for use in accordance with the methods.

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：US20210238680A1

公开(公告)日：2021-08-05

申请号：US17165342

申请日：2021-02-02

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio Bava

IPC: C12Q1/6876 ,  C12Q1/6837

Abstract: This disclosure relates to methods for increasing capture efficiency of a spatial array using rolling circle amplification of a padlock probe that hybridizes to a capture probe. Also provided are methods for using such spatial arrays to detect a biological analyte in a biological sample.

公开(公告)号：US20210238664A1

公开(公告)日：2021-08-05

申请号：US17165453

申请日：2021-02-02

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio Bava

IPC: C12Q1/6837 ,  C12Q1/6874

Abstract: Provided herein are methods of preparing a spatial array and methods for associating specific sample analytes with spatial locations in the spatial array. Provided herein are methods for preparing a spatial array using a plurality of primers attached to a substrate to guide a plurality of features to specific locations on the spatial array. In a non-limiting example, a plurality of primers on a substrate can be used to guide a plurality of first features that include capture probes onto the substrate. A plurality of second features that are configured to hybridize to the first features and also include capture probes are added to the substrate.