公开(公告)号：US20220186300A1

公开(公告)日：2022-06-16

申请号：US17547925

申请日：2021-12-10

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA

IPC: C12Q1/6841 ,  C12Q1/6886

Abstract: The present disclosure in some aspects relates to methods for assessing multi-modal in situ transcriptomics by combining microscopy and sequencing technologies and methods. In some aspects, the methods provided herein involve analyzing one or more analyte panels in a sample using a first imaging modality or set of imaging modalities. Based on said analysis, a different analyte panel and/or one or more different imaging modalities can be selected for subsequent analysis.

公开(公告)号：US20220136049A1

公开(公告)日：2022-05-05

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

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：US20210238674A1

公开(公告)日：2021-08-05

申请号：US17165802

申请日：2021-02-02

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA

IPC: 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 subcellular resolution which involve correlating signals associated with analytes with specific spatial locations in a biological sample.

公开(公告)号：US20240272044A1

公开(公告)日：2024-08-15

申请号：US18643684

申请日：2024-04-23

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA

IPC: G01N1/30 ,  G01N1/40

CPC classification number: G01N1/30 ,  G01N1/4077 ,  G01N2001/4083

Abstract: Particles can bind to the surface of cells, wherein the particles comprise a property that can prevent the cells from adhering to one another.

公开(公告)号：US20230167496A1

公开(公告)日：2023-06-01

申请号：US17957781

申请日：2022-09-30

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA

IPC: C12Q1/6874 ,  C12N15/10

CPC classification number: C12Q1/6874 ,  C12N15/1065

Abstract: This invention provides methods, compositions, kits and systems for isolating and/or enriching nucleic acid molecules. In some aspects, this disclosure provides methods for enriching nucleic acid molecules that can be used for transcriptomics. Methods of this invention can detect nucleic acid molecules of a sample that may be masked by highly expressed molecules.

公开(公告)号：US20230037182A1

公开(公告)日：2023-02-02

申请号：US17877700

申请日：2022-07-29

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA ,  Jorge Iván HERNÁNDEZ NEUTA ,  Malte KÜHNEMUND ,  Jessica ÖSTLIN ,  Xiaoyan QIAN ,  Toon VERHEYEN

IPC: C12Q1/6841 ,  C12Q1/6853 ,  C12Q1/6876

Abstract: The present disclosure relates in some aspects to methods for analyzing a target nucleic acid in a biological sample. In some aspects, provided herein are methods and compositions for detecting a region of interest in a target nucleic acid.

公开(公告)号：US20220403458A1

公开(公告)日：2022-12-22

申请号：US17843758

申请日：2022-06-17

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA

IPC: C12Q1/6841 ,  C12Q1/682 ,  C12Q1/6844 ,  C12P19/34

Abstract: The present disclosure relates in some aspects to methods, probes, kits, and compositions for analysis of a target nucleic acid, such as in situ generation of a circular probe for detection of a target nucleic acid in a tissue sample.

公开(公告)号：US20220228200A1

公开(公告)日：2022-07-21

申请号：US17578296

申请日：2022-01-18

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA

IPC: C12Q1/6827 ,  C12Q1/6876 ,  C12Q1/6853 ,  C12Q1/6841

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 polynucleotides, including one or more polynucleotides (e.g., a detection padlock probe) for detecting a region of interest and one or more polynucleotides (e.g., a control padlock probe) as an internal control, for analyzing target nucleic acids. In some aspects, the presence, amount, and/or identity of a 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：US20210388424A1

公开(公告)日：2021-12-16

申请号：US17346079

申请日：2021-06-11

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA

IPC: C12Q1/6841 ,  C12Q1/6874

Abstract: The present disclosure, among other things, provides 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 comprising three polynucleotides, for assessing target nucleic acids. In some aspects, the presence, amount and/or sequence of the target nucleic acid is analyzed in situ. In some aspects, the methods involve anchoring or linking a portion of the set of polynucleotides to a scaffold or other nucleic acids. Also provided are polynucleotides, set of polynucleotides, compositions, kits, devices and systems for use in accordance with the methods.

公开(公告)号：US20210388423A1

公开(公告)日：2021-12-16

申请号：US17346077

申请日：2021-06-11

Applicant: 10x Genomics, Inc.

Inventor： Felice Alessio BAVA ,  David M. PATTERSON ,  Meiliana TJANDRA ,  Yi LUO

IPC: C12Q1/6841 ,  C12Q1/6876

Abstract: Provided herein are methods of sequencing comprising click chemistry bioconjugation. In some embodiments, target polynucleotide sequences on the same or different molecules are contacted with and hybridize to probes comprising click functional groups. Probes (e.g., reading probes) hybridizing to adaptor sequences adjacent to different sequences of interest (e.g., barcodes to be sequenced) can be hybridized simultaneously in large pools. In some embodiments, the provided methods achieve multiplexing without requiring separate hybridization of probes (e.g., reading probes) for each sequencing-by-ligation cycle, thereby reducing total hybridization time which is typically a most time-consuming step in in situ technologies. In some aspects, the hybridized probes (e.g., reading probes) are clicked onto detectable probes to analyze a sequence of a target polynucleotide in a sequencing-by-ligation fashion.