公开(公告)号：US20230383344A1

公开(公告)日：2023-11-30

申请号：US18448618

申请日：2023-08-11

申请人： 10x Genomics, Inc.

发明人： Marlon Stoeckius

IPC分类号： C12Q1/6874 ,  C12Q1/686 ,  C12Q1/6876 ,  C12Q1/48 ,  C12Q1/6806

CPC分类号： C12Q1/6874 ,  C12Q1/686 ,  C12Q1/6876 ,  C12Q1/485 ,  C12Q1/6806 ,  G01N2333/9015 ,  G01N2333/9126 ,  G01N2333/922 ,  C12Y301/26004 ,  C12Y207/07007 ,  C12Y605/01001

摘要： 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：US20150344950A1

公开(公告)日：2015-12-03

申请号：US14729988

申请日：2015-06-03

申请人： Pacific Biosciences of California, Inc.

发明人： Gene SHEN

IPC分类号： C12Q1/68 ,  C09B23/10 ,  C09B23/06

CPC分类号： C12Q1/6869 ,  C07D209/14 ,  C07D401/14 ,  C07D405/14 ,  C07H19/10 ,  C07K5/0815 ,  C07K5/1019 ,  C09B23/0025 ,  C09B23/0033 ,  C09B23/0066 ,  C09B23/06 ,  C09B23/083 ,  C09B23/105 ,  C09B23/164 ,  C12Q1/6844 ,  C12Q1/6876 ,  G01N33/52 ,  G01N33/582 ,  G01N2333/9126

摘要： The invention provides a novel class of cyanine dyes that are functionalized with a linker moiety that facilitates their conjugation to other species and substituent groups which increase the water-solubility, and optimize the optical properties of the dyes. Also provided are conjugates of the dyes, methods of using the dyes and their conjugates and kits including the dyes and their conjugates.

摘要翻译： 本发明提供了一种新颖的花青染料，其可用连接体部分官能化，这些连接部分有助于它们与增加水溶性的其它物质和取代基结合，并优化染料的光学性质。 还提供了染料的缀合物，使用染料及其缀合物的方法和试剂盒，包括染料及其缀合物。

公开(公告)号：US08906612B2

公开(公告)日：2014-12-09

申请号：US13218382

申请日：2011-08-25

申请人： Gene Shen ,  Lubomir Sebo ,  Stephen Yue ,  Wei-Chuan Sun ,  Louis Brogley ,  Andrei Fedorov

发明人： Gene Shen ,  Lubomir Sebo ,  Stephen Yue ,  Wei-Chuan Sun ,  Louis Brogley ,  Andrei Fedorov

IPC分类号： C12Q1/68 ,  C07H21/00 ,  C07H21/02 ,  C07H21/04 ,  C09B23/06 ,  C07D209/14 ,  C09B23/01 ,  C09B23/08 ,  G01N33/58 ,  C07D401/14 ,  C07D405/14

CPC分类号： C12Q1/6869 ,  C07D209/14 ,  C07D401/14 ,  C07D405/14 ,  C07H19/10 ,  C07K5/0815 ,  C07K5/1019 ,  C09B23/0025 ,  C09B23/0033 ,  C09B23/0066 ,  C09B23/06 ,  C09B23/083 ,  C09B23/105 ,  C09B23/164 ,  C12Q1/6844 ,  C12Q1/6876 ,  G01N33/52 ,  G01N33/582 ,  G01N2333/9126

摘要： The invention provides a novel class of scaffold-based labeled polymerase enzyme substrates. The polymerase enzyme substrates have a multivalent core or scaffold to which is attached fluorescent dye moieties and nucleoside phosphate moities. The polymerase enzyme substrates have multiple fluorescent dye moities and/or multiple nucleoside phosphate moieties. Preferred multivalent cores comprise trifunctional six membered aromatic moities. The invention also provides for sequencing methods and kits with scaffold-based labeled polymerase enzyme substrates.

摘要翻译： 本发明提供了一类新型的基于支架的标记聚合酶底物。 聚合酶底物具有连接有荧光染料部分和核苷磷酸酯多糖的多价核心或支架。 聚合酶底物具有多个荧光染料体系和/或多个核苷磷酸酯部分。 优选的多价核心包括三官能六元芳族部分。 本发明还提供了使用基于支架的标记聚合酶底物的测序方法和试剂盒。

公开(公告)号：US08715927B2

公开(公告)日：2014-05-06

申请号：US13131936

申请日：2009-04-22

申请人： R. Stephen Lloyd ,  Irina G. Minko ,  Amanda K. McCullough

发明人： R. Stephen Lloyd ,  Irina G. Minko ,  Amanda K. McCullough

IPC分类号： C12Q1/68 ,  C12Q1/48 ,  C12N9/10 ,  C07H21/00 ,  C07H21/04

CPC分类号： A61K45/06 ,  A61K31/195 ,  A61K31/56 ,  A61K31/70 ,  A61K33/24 ,  G01N2333/9126 ,  G01N2500/02 ,  A61K2300/00

摘要： Disclosed herein is the identification of human DNA polymerase κ (pol κ) as the polymerase that mediates repair of DNA containing interstrand cros slinks (ICLs). The mechanism of action of a number of chemotherapeutic and antimicrobial agents is the induction of ICLs. Thus, provided herein is a method of enhancing the efficacy of a chemotherapeutic or antimicrobial agent in a subject, including selecting a subject in need of treatment with an ICL -inducing agent and administering to the subject an ICL-inducing agent and a therapeutically effective amount of an inhibitor of pol κ. Also provided is a composition for treating a hyperproliferative disease, an autoimmune disease or an infectious disease, comprising an ICL-inducing agent and an amount of an inhibitor of pol κ sufficient to enhance the efficacy of the ICL-inducing agent. Further provided is a method of identifying a DNA polymerase inhibitor.

摘要翻译： 本文公开了人DNA聚合酶的鉴定; （pol＆kgr））作为介导修复含有串联链的DNA（ICL）的聚合酶。 许多化学治疗和抗微生物剂的作用机制是ICL的诱导。 因此，本文提供的是提高受试者中化学治疗剂或抗微生物剂的功效的方法，包括选择需要用ICL诱导剂治疗的受试者，并向受试者施用ICL诱导剂和治疗有效量 的抑制剂。 还提供了用于治疗过度增殖性疾病，自身免疫性疾病或感染性疾病的组合物，其包含ICL诱导剂和一定量的抑制剂， 足以增强ICL诱导剂的功效。 进一步提供鉴定DNA聚合酶抑制剂的方法。

公开(公告)号：US20090176233A1

公开(公告)日：2009-07-09

申请号：US12315844

申请日：2008-12-05

申请人： Sonya Clark ,  Homero L. Rey ,  Fred Christians ,  Jonas Korlach

发明人： Sonya Clark ,  Homero L. Rey ,  Fred Christians ,  Jonas Korlach

IPC分类号： C12Q1/68 ,  C12N9/00 ,  C12M1/00

CPC分类号： C12N9/1252 ,  C12Q1/48 ,  G01N2333/9126

摘要： Methods of screening for and selecting for improved polymerases suitable for single molecule sequencing are provided.

摘要翻译： 提供了筛选和选择适用于单分子测序的改良聚合酶的方法。

公开(公告)号：US20240301488A1

公开(公告)日：2024-09-12

申请号：US18605197

申请日：2024-03-14

申请人： 10x Genomics, Inc.

发明人： Marlon Stoeckius

IPC分类号： C12Q1/6874 ,  C12Q1/48 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6876

CPC分类号： C12Q1/6874 ,  C12Q1/485 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6876 ,  C12Y207/07007 ,  C12Y301/26004 ,  C12Y605/01001 ,  G01N2333/9015 ,  G01N2333/9126 ,  G01N2333/922

摘要： 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：US20240218443A1

公开(公告)日：2024-07-04

申请号：US18393291

申请日：2023-12-21

申请人： Illumina, Inc.

发明人： Angelica Mariani ,  Antoine Francais ,  Frederick James Topping ,  Christopher Winnard ,  Philip Balding ,  Chol Steven Yun ,  Patrizia Iavicoli ,  Kathryn Hattingh ,  Xiaolin Wu ,  Xiaohai Liu

IPC分类号： C12Q1/6874 ,  B01J23/44 ,  C12Q1/48 ,  C12Q1/6806 ,  G01N21/64

CPC分类号： C12Q1/6874 ,  B01J23/44 ,  C12Q1/485 ,  C12Q1/6806 ,  G01N21/6486 ,  G01N2333/9126

摘要： The present application relates to palladium compositions, methods for sequencing by synthesis using nucleotides with 3′ blocking groups, and sequencing kits, where one or more palladium scavengers were used to improve sequencing metrics such phasing and prephasing values.

公开(公告)号：US20240199948A1

公开(公告)日：2024-06-20

申请号：US18284849

申请日：2022-03-30

申请人： Sumitomo Chemical Co., Ltd.

发明人： Philip Stackhouse ,  Kiran Kamtekar ,  Nazrul Islam

IPC分类号： C09K11/06 ,  C08G61/12 ,  C12Q1/48 ,  C12Q1/6806 ,  C12Q1/6825 ,  C12Q1/6869

CPC分类号： C09K11/06 ,  C08G61/122 ,  C12Q1/485 ,  C12Q1/6806 ,  C12Q1/6825 ,  C12Q1/6869 ,  C08G2261/148 ,  C08G2261/334 ,  C08G2261/52 ,  C08G2261/94 ,  C09K2211/1483 ,  G01N2333/9126

摘要： A conjugated polymer comprising a first repeat unit substituted with at least three ionic groups.

公开(公告)号：US11761038B1

公开(公告)日：2023-09-19

申请号：US17368276

申请日：2021-07-06

申请人： 10x Genomics, Inc.

发明人： Marlon Stoeckius

IPC分类号： C12P19/34 ,  C12Q1/6874 ,  C12Q1/6876 ,  C12Q1/6806 ,  C12Q1/48 ,  C12Q1/686

CPC分类号： C12Q1/6874 ,  C12Q1/485 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6876 ,  C12Y207/07007 ,  C12Y301/26004 ,  C12Y605/01001 ,  G01N2333/9015 ,  G01N2333/9126 ,  G01N2333/922

摘要： 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：US20150197794A1

公开(公告)日：2015-07-16

申请号：US14667869

申请日：2015-03-25

申请人： Pacific Biosciences of California, Inc.

发明人： Gene SHEN

IPC分类号： C12Q1/68 ,  C07K5/09 ,  C07K5/11 ,  C07H19/10

CPC分类号： C12Q1/6869 ,  C07D209/14 ,  C07D401/14 ,  C07D405/14 ,  C07H19/10 ,  C07K5/0815 ,  C07K5/1019 ,  C09B23/0025 ,  C09B23/0033 ,  C09B23/0066 ,  C09B23/06 ,  C09B23/083 ,  C09B23/105 ,  C09B23/164 ,  C12Q1/6844 ,  C12Q1/6876 ,  G01N33/52 ,  G01N33/582 ,  G01N2333/9126

摘要： In various embodiments, the present invention provides fluorescent dyes that are linked to another species through an amino acid or peptide linker. In an exemplary embodiment, the dye is linked to a polyphosphate nucleic acid through an amino acid or peptide linker. These conjugates find use in single molecule DNA sequencing and other applications. In various embodiments, the dye moiety is a cyanine dye. Cyanine dyes that are highly charged, such as those including multiple sulfonate, alkylsulfonate, carboxylate and/or alkylcarboxylate moieties are examples of cyanine dyes of use in the compounds of the invention.

摘要翻译： 在各种实施方案中，本发明提供通过氨基酸或肽接头与另一种物质连接的荧光染料。 在一个示例性实施方案中，染料通过氨基酸或肽接头与多磷酸核酸连接。 这些缀合物可用于单分子DNA测序和其他应用。 在各种实施方案中，染料部分是花青染料。 高度带电的花青染料，例如包括多种磺酸盐，烷基磺酸盐，羧酸盐和/或烷基羧酸盐部分的花青染料是本发明化合物中使用的花青染料的实例。