公开(公告)号：US20190383804A1

公开(公告)日：2019-12-19

申请号：US16375119

申请日：2019-04-04

Applicant: 10X Genomics, Inc.

Inventor： Kamila Belhocine ,  Jason Bell ,  Zachary Bent ,  Rajiv Bharadwaj ,  Christopher Hindson ,  Mohammad Rahimi Lenji ,  Bill Kengli Lin ,  Anthony Makarewicz ,  Geoffrey McDermott ,  Elliott Meer ,  Francesca Meschi ,  Tarjei Sigurd Mikkelsen ,  Christopher Joachim O'Keeffe ,  Katherine Pfeiffer ,  Andrew D. Price ,  Paul Ryvkin ,  Michael Schnall-Levin ,  Sarah Taylor ,  Jessica Michele Terry ,  Tobias Daniel Wheeler ,  Yifeng Yin ,  Xinying Zheng ,  Solongo Batjargal Ziraldo ,  Eswar Prasad Ramachandran Iyer ,  Luigi Jhon Alvarado Martinez

IPC: G01N33/53 ,  G01N33/543 ,  C12N15/11

Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing and analyte characterization from a single cell. Such polynucleotide processing may be useful for a variety of applications. The compositions, methods, systems, and devices disclosed herein generally describe barcoded oligonucleotides, which can be bound to a bead, such as a gel bead, useful for characterizing one or more analytes including, for example, protein (e.g., cell surface or intracellular proteins), genomic DNA, epigenetic information (e.g., accessible chromatin, DNA methylation), and RNA molecules (e.g., mRNA or CRISPR guide RNAs). In some cases, the disclosed methods comprise analysis of analytes from a cell using a cell bead.

公开(公告)号：US20190367969A1

公开(公告)日：2019-12-05

申请号：US16375093

申请日：2019-04-04

Applicant: 10X Genomics, Inc.

Inventor： Kamila Belhocine ,  Jason Bell ,  Zachary Bent ,  Rajiv Bharadwaj ,  Christopher Hindson ,  Mohammad Rahimi Lenji ,  Bill Kengli Lin ,  Anthony Makarewicz ,  Geoffrey McDermott ,  Elliott Meer ,  Francesca Meschi ,  Tarjei Sigurd Mikkelsen ,  Christopher Joachim O'Keeffe ,  Katherine Pfeiffer ,  Andrew D. Price ,  Paul Ryvkin ,  Michael Schnall-Levin ,  Sarah Taylor ,  Jessica Michele Terry ,  Tobias Daniel Wheeler ,  Yifeng Yin ,  Xinying Zheng ,  Solongo Batjargal Ziraldo ,  Eswar Prasad Ramachandran Iyer ,  Luigi Jhon Alvarado Martinez

IPC: C12Q1/6818 ,  C12Q1/6827

Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing and analyte characterization from a single cell. Such polynucleotide processing may be useful for a variety of applications. The compositions, methods, systems, and devices disclosed herein generally describe barcoded oligonucleotides, which can be bound to a bead, such as a gel bead, useful for characterizing one or more analytes including, for example, protein (e.g., cell surface or intracellular proteins) and chromatin (e.g., accessible chromatin).

公开(公告)号：US20190127731A1

公开(公告)日：2019-05-02

申请号：US16196684

申请日：2018-11-20

Applicant: 10X Genomics, Inc.

Inventor： Geoffrey McDermott

IPC: C12N15/10 ,  C12Q1/6806 ,  C12Q1/6853 ,  C12Q1/6874

Abstract: Provided herein are methods for preparing nucleic acid molecules for sequencing. The methods may include generation of individual partitions (e.g., droplets or wells) including a biological particle and a bead comprising a nucleic acid barcode molecule. The preparation of barcoded nucleic acid molecules for sequencing can include subjecting the nucleic acid molecule to DNase treatment followed by attachment of a nucleic acid barcode molecule.

公开(公告)号：US12298314B2

公开(公告)日：2025-05-13

申请号：US17497135

申请日：2021-10-08

Applicant: 10x Genomics, Inc.

Inventor： Wyatt James McDonnell ,  Michael John Terry Stubbington ,  Geoffrey McDermott

IPC: G01N33/68 ,  G01N33/532

Abstract: The present disclosure relates in some aspects to methods and compositions for assessing the target binding capacity of a binding molecule, such as an antigen binding molecule, e.g., a monoclonal antibody. In some embodiments, provided herein is a method of analyzing binding of a barcode-labeled antibody to a target antigen expressed by a cell, wherein cells expressing the candidate antigens are partitioned and wherein detection of the barcoded nucleic acid molecule is indicative of the binding between the antibody or antigen-binding fragment thereof and the candidate antigen or epitope of the cell.

公开(公告)号：US12275993B2

公开(公告)日：2025-04-15

申请号：US18929514

申请日：2024-10-28

Applicant: 10x Genomics, Inc.

Inventor： Solongo B. Ziraldo ,  Geoffrey McDermott ,  Shea Thompson Lance

IPC: C12Q1/6883 ,  C12Q1/6827 ,  G16B30/00 ,  G16B30/10 ,  G16B30/20

Abstract: The present disclosure relates to methods, compositions and systems for droplet processing. For example, methods can include (a) providing a first emulsion comprising a first droplet population, wherein droplets of the first droplet population comprise a lysis reagent, and a second emulsion comprising a second droplet population, wherein a droplet of the second droplet population comprises i) a cell or a nucleus, and ii) a plurality of nucleic acid barcode molecules; (b) subjecting the first emulsion and second emulsion to conditions sufficient to transfer the lysis reagent to the second droplet population via micelles comprising the lysis reagent; and (c) lysing the cell or the nucleus within the droplet of the second droplet population with the lysis reagent.

公开(公告)号：US11773389B2

公开(公告)日：2023-10-03

申请号：US17492536

申请日：2021-10-01

Applicant: 10X GENOMICS, INC.

Inventor： Zahra Kamila Belhocine ,  Geoffrey McDermott ,  Francesca Meschi ,  Xinying Zheng

IPC: C12N15/10

CPC classification number: C12N15/1065 ,  C12N15/1068 ,  C12N15/1075 ,  C12N15/1096

Abstract: Methods and systems for sample preparation techniques that allow amplification (e.g., whole genome amplification) and sequencing of chromatin accessible regions of single cells are provided. The methods and systems generally operate by forming or providing partitions (e.g., droplets) including a single biological particle and a single bead comprising a barcoded oligonucleotide. The preparation of barcoded next-generation sequencing libraries prepared from a single cell is facilitated by the transposon-mediated transposition and fragmentation of a target nucleic acid sequence. The methods and systems may be configured to allow the implementation of single-operation or multi-operation chemical and/or biochemical processing within the partitions.

公开(公告)号：US20220025438A1

公开(公告)日：2022-01-27

申请号：US17397775

申请日：2021-08-09

Applicant: 10X Genomics, Inc.

Inventor： Solongo B. Ziraldo ,  Geoffrey McDermott ,  Shea Thompson Lance

IPC: C12Q1/6806 ,  C12Q1/6804

Abstract: The disclosure provides systems and methods for droplet processing. For example, a method can include providing a first droplet and a second droplet. In some cases, the first droplet may have a first concentration of a reagent and the second droplet may have a second concentration of the reagent. The second droplet may comprise a bead or a biological particle. The method can also include subjecting the first droplet and the second droplet to conditions sufficient to transfer the reagent from the first droplet to the second droplet, thereby decreasing the first concentration in the first droplet and increasing the second concentration in the second droplet.

公开(公告)号：US20210372998A1

公开(公告)日：2021-12-02

申请号：US17209045

申请日：2021-03-22

Applicant: 10X Genomics, Inc.

Inventor： Zahra Kamila Belhocine ,  Jason Bell ,  Zachary Bent ,  Rajiv Bharadwaj ,  Christopher Hindson ,  Mohammad Rahimi Lenji ,  Bill Kengli Lin ,  Anthony Makarewicz ,  Geoffrey McDermott ,  Elliott Meer ,  Francesca Meschi ,  Tarjei Sigurd Mikkelsen ,  Christopher Joachim O'Keeffe ,  Katherine Pfeiffer ,  Andrew D. Price ,  Paul Ryvkin ,  Michael Schnall-Levin ,  Sarah Taylor ,  Jessica Michele Terry ,  Tobias Daniel Wheeler ,  Yifeng Yin ,  Xinying Zheng ,  Solongo Batjargal Ziraldo ,  Eswar Prasad Ramachandran Iyer ,  Luigi Jhon Alvarado Martinez

IPC: G01N33/532 ,  C07K14/74 ,  C12N15/85 ,  G01N33/543 ,  G01N33/548 ,  C12N15/10 ,  C12Q1/6804 ,  C12Q1/6806 ,  G01N33/50 ,  G01N33/53 ,  G01N33/58 ,  C12Q1/6818 ,  C12Q1/6827 ,  C12Q1/6881 ,  C12N15/11 ,  G01N33/569

Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing and antigen screening. Polynucleotide processing may be useful for a variety of applications. Antigen screening may comprise the use of one or more engineered cells. Engineered cells may be useful for characterizing one or more analytes including, for example, a polypeptide antigen.

公开(公告)号：US11155810B2

公开(公告)日：2021-10-26

申请号：US16841411

申请日：2020-04-06

Applicant: 10X GENOMICS, INC.

Inventor： Zahra Kamila Belhocine ,  Geoffrey McDermott ,  Francesca Meschi ,  Xinying Zheng

IPC: C12N15/10

Abstract: Methods and systems for sample preparation techniques that allow amplification (e.g., whole genome amplification) and sequencing of chromatin accessible regions of single cells are provided. The methods and systems generally operate by forming or providing partitions (e.g., droplets) including a single biological particle and a single bead comprising a barcoded oligonucleotide. The preparation of barcoded next-generation sequencing libraries prepared from a single cell is facilitated by the transposon-mediated transposition and fragmentation of a target nucleic acid sequence. The methods and systems may be configured to allow the implementation of single-operation or multi-operation chemical and/or biochemical processing within the partitions.

公开(公告)号：US20200002764A1

公开(公告)日：2020-01-02

申请号：US16443638

申请日：2019-06-17

Applicant: 10X Genomics, Inc.

Inventor： Phillip Belgrader ,  Zachary Bent ,  Rajiv Bharadwaj ,  Vijay Kumar Sreenivasa Gopalan ,  Josephine Harada ,  Christopher Hindson ,  Mohammad Rahimi Lenji ,  Michael Ybarra Lucero ,  Geoffrey McDermott ,  Elliott Meer ,  Tarjei Sigurd Mikkelsen ,  Christopher Joachim O'Keeffe ,  Katherine Pfeiffer ,  Andrew D. Price ,  Paul Ryvkin ,  Serge Saxonov ,  John R. Stuelpnagel ,  Jessica Michele Terry ,  Tobias Daniel Wheeler ,  Indira Wu ,  Solongo Batjargal Ziraldo ,  Stephane Claude Boutet ,  Sarah Taylor ,  Niranjan Srinivas

IPC: C12Q1/6874 ,  C12Q1/683 ,  C12Q1/6806

Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing and analyte characterization. Such polynucleotide processing may be useful for a variety of applications, including analyte characterization by polynucleotide sequencing. The compositions, methods, systems, and devices disclosed herein generally describe barcoded oligonucleotides, which can be bound to a bead, such as a gel bead, useful for characterizing one or more analytes including, for example, protein (e.g., cell surface or intracellular proteins), genomic DNA, and RNA (e.g., mRNA or CRISPR guide RNAs). Also described herein, are barcoded labelling agents and oligonucleotide molecules useful for “tagging” analytes for characterization.