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公开(公告)号：US11954614B2
公开(公告)日：2024-04-09
申请号：US16442800
申请日：2019-06-17
申请人： 10X Genomics, Inc.
发明人： Alexander Y. Wong , Jeffrey Mellen , Kevin J. Wu , Paul Ryvkin , Preyas Shah , Patrick Marks , Niranjan Srinivas
CPC分类号： G06N7/01 , G06F16/285 , G06F16/904 , G16B25/10 , G16B40/00 , G16B45/00 , G16B50/30
摘要： A visualization system comprising a persistent memory, storing a dataset, and a non-persistent memory implements a pattern visualizing method. The dataset contains discrete attribute values for each first entity of a first type in a plurality of first entities of the first type and discrete attribute values for each first entity of a second type in a plurality of first entities of the second type for each second entity in a plurality of second entities. The dataset is compressed by blocked compression and represents discrete attribute values in both compressed sparse row and column formats. The discrete attribute values are clustered to assign each second entity to a cluster in a plurality of clusters.
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公开(公告)号：US11884962B2
公开(公告)日：2024-01-30
申请号：US17095578
申请日：2020-11-11
申请人： 10X GENOMICS, INC.
发明人： Zachary Bent , Elliott Meer , Daniel Riordan , Paul Ryvkin , Niranjan Srinivas , Jessica Terry , Alex Gagnon
IPC分类号： C12Q1/6806 , C12Q1/6811 , C12Q1/6834 , C40B20/04 , C40B50/16 , C40B50/18 , G06K19/06
CPC分类号： C12Q1/6806 , C12Q1/6811 , C12Q1/6834 , C40B20/04 , C40B50/16 , C40B50/18 , G06K19/06093 , C12Q1/6806 , C12Q2521/319 , C12Q2521/501 , C12Q2525/155 , C12Q2525/191 , C12Q2535/122 , C12Q2563/149 , C12Q2563/159 , C12Q2563/179 , C12Q2565/537 , C12Q2565/629
摘要： The present disclosure provides methods of generating supports (e.g., beads) comprising barcode molecules coupled thereto. A barcode molecule coupled to a support may comprise a barcode sequence and a functional sequence. A barcode molecule may be generated using two or more ligation reactions in a combinatorial fashion. A support comprising two or more different barcode molecules may be useful for analyzing or processing one or more analytes such as nucleic acid molecules, proteins, and/or perturbation agents.
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公开(公告)号：US20210102936A1
公开(公告)日：2021-04-08
申请号：US16897126
申请日：2020-06-09
申请人： 10X Genomics, Inc.
发明人： Zahra Kamila Belhocine , Jason Bell , Zachary Bent , Rajiv Bharadwaj , Christopher Hindson , Mohammad Rahimi Lenji , Bill 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分类号： 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
摘要： 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).
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公开(公告)号：US20200140944A1
公开(公告)日：2020-05-07
申请号：US16692631
申请日：2019-11-22
申请人： 10X GENOMICS, INC.
发明人： Phillip Belgrader , Zachary Bent , Rajiv Bharadwaj , Vijay Kumar Sreenivasa Gopalan , Josephine Harada , Christopher Hindson , Mohamad 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
IPC分类号： C12Q1/6874 , C12N15/10 , C12Q1/683 , C12Q1/6804 , C12Q1/6806
摘要： 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.
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公开(公告)号：US20200063191A1
公开(公告)日：2020-02-27
申请号：US16680343
申请日：2019-11-11
申请人： 10X GENOMICS, INC.
发明人： Zachary Bent , Elliott Meer , Daniel Riordan , Paul Ryvkin , Niranjan Srinivas , Jessica Terry , Alex Gagnon
IPC分类号： C12Q1/6806 , G06K19/06 , C40B50/18 , C40B50/16 , C40B20/04 , C12Q1/6834 , C12Q1/6811
摘要： The present disclosure provides methods of generating supports (e.g., beads) comprising barcode molecules coupled thereto. A barcode molecule coupled to a support may comprise a barcode sequence and a functional sequence. A barcode molecule may be generated using two or more ligation reactions in a combinatorial fashion. A support comprising two or more different barcode molecules may be useful for analyzing or processing one or more analytes such as nucleic acid molecules, proteins, and/or perturbation agents.
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公开(公告)号：US20190383798A1
公开(公告)日：2019-12-19
申请号：US16375110
申请日：2019-04-04
申请人： 10X Genomics, Inc.
发明人： 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分类号： G01N33/50 , G01N33/543 , G01N33/53 , G01N33/569 , C12N15/10
摘要： 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.
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公开(公告)号：US20240218445A1
公开(公告)日：2024-07-04
申请号：US18406946
申请日：2024-01-08
申请人： 10X Genomics, Inc.
发明人： Alexander Y. Wong , Jeffrey Mellen , Kevin Wu , Paul Ryvkin
IPC分类号： C12Q1/6881 , C07K14/725 , C07K16/28 , G16B30/00 , G16B40/30 , G16B45/00 , C12Q1/6806 , C12Q1/686 , C12Q1/6883 , G16B30/10
CPC分类号： C12Q1/6881 , C07K14/7051 , C07K16/2809 , G16B30/00 , G16B40/30 , G16B45/00 , C07K2317/565 , C12Q1/6806 , C12Q1/686 , C12Q1/6883 , C12Q2600/156 , C12Q2600/158 , C12Q2600/16 , G16B30/10
摘要： Methods for screening clonotypes are provided. Data representing a plurality of cells from a single subject is obtained. The data represents a plurality of clonotypes. The data includes a plurality of contigs for each respective clonotype in the plurality of clonotypes. Each respective contig in the plurality of contigs comprises (i) an indication of chain type for the respective contig and (ii) a contig sequence of an mRNA of the respective cell. There is determined, using the data, for each respective clonotype in the plurality of clonotypes, a number of the plurality of cells that represent the respective clonotype. In some instances, more than one cell in the plurality of cells have the same clonotype in the plurality of clonotypes. In some instances, the plurality of clonotypes comprises 25 clonotypes and where the plurality of cells includes at least one cell for each clonotype in the plurality of clonotypes.
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公开(公告)号：US20210372998A1
公开(公告)日：2021-12-02
申请号：US17209045
申请日：2021-03-22
申请人： 10X Genomics, Inc.
发明人： 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分类号： 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
摘要： 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.
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公开(公告)号：US20210285044A1
公开(公告)日：2021-09-16
申请号：US16818437
申请日：2020-03-13
申请人： 10X Genomics, Inc.
IPC分类号： C12Q1/6874 , C12Q1/6806 , C12Q1/6851
摘要： Provided herein are compositions, systems and methods for tagging molecular events, reactions, species, etc., but without the need for complex, highly diverse libraries of tagging molecules. Provided are tagging moieties that can have a smaller number, a few, or even a single original “tagging” structure that may be transformed or transformable, in situ, into a collection of larger numbers of unique tagging or “barcode” moieties.
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公开(公告)号：US10793905B2
公开(公告)日：2020-10-06
申请号：US16692631
申请日：2019-11-22
申请人： 10X GENOMICS, INC.
发明人： Zachary Bent , Josephine Harada , Christopher Hindson , Elliott Meer , Tarjei Sigurd Mikkelsen , Christopher Joachim O'Keeffe , Katherine Pfeiffer , Andrew D. Price , Paul Ryvkin , Serge Saxonov , John R. Stuelpnagel , Jessica Michele Terry , Solongo Batjargal Ziraldo
IPC分类号： C12Q1/68 , C12N15/10 , C12Q1/6874 , C12Q1/683 , C12Q1/6804 , C12Q1/6806
摘要： 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.
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