公开(公告)号：US20250066848A1

公开(公告)日：2025-02-27

申请号：US18944861

申请日：2024-11-12

Applicant: The Trustees of Columbia University in the City of New York

Inventor： Jingyue Ju ,  Shiv Kumar ,  Zengmin Li ,  Chuanjuan Tao ,  Minchen Chien ,  James J. Russo ,  Sergey Kalachikov ,  Ken Shepard ,  Jacob Karl Rosenstein

IPC: C12Q1/6869 ,  C07H19/10 ,  C07H21/00 ,  G01N33/487

Abstract: This disclosure is related to a method of sequencing a single-stranded DNA using deoxynucleotide polyphosphate analogues and translocation of tags from incorporated deoxynucleotide polyphosphate analogues through a nanopore.

公开(公告)号：US20250066846A1

公开(公告)日：2025-02-27

申请号：US18738818

申请日：2024-06-10

Applicant: Cergentis B.V.

Inventor： Wouter Leonard De Laat ,  Max Jan Van Min

IPC: C12Q1/6869 ,  C12Q1/6855

Abstract: The invention relates to methods for determining the sequence of a genomic region of interest comprising a target nucleotide sequence comprising, fragmenting a crosslinked DNA, ligating the fragmented cross linked DNA, reversing the crosslinking and determining at least part of the sequences of ligated DNA fragments which comprise a target nucleotide sequence.

公开(公告)号：US12234512B2

公开(公告)日：2025-02-25

申请号：US18164439

申请日：2023-02-03

Applicant: ACCURAGEN HOLDINGS LIMITED

Inventor： Shengrong Lin ,  Zhaohui Sun ,  Grace Qizhi Zhao ,  Paul Ling-Fung Tang

IPC: C12Q1/6874 ,  C12Q1/6827 ,  C12Q1/6869

Abstract: In some aspects, the present disclosure provides methods for identifying sequence variants in a nucleic acid sample. In some embodiments, a method comprises identifying sequence differences between sequencing reads and a reference sequence, and calling a sequence difference that occurs in at least two different circular polynucleotides, such as two circular polynucleotides having different junctions, as the sequence variant. In some aspects, the present disclosure provides compositions and systems useful in the described methods.

公开(公告)号：US20250061973A1

公开(公告)日：2025-02-20

申请号：US18816205

申请日：2024-08-27

Applicant: Life Technologies Corporation

Inventor： Chao Wang ,  Eugene Ingerman

IPC: G16B40/10 ,  C12Q1/6869 ,  G06N3/045 ,  G06N3/08 ,  G16B30/00

Abstract: An artificial neural network is applied to a plurality of flow predictor features to generate a flow space probability of error for a base call. A base quality value for the base call is determined based on the flow space probability of error. The base call and flow predictor features are based on the flow space signal measurements generated in response to the nucleotide flow to the reaction confinement region. For an array of reaction confinement regions, a plurality of parallel neural networks is applied to produce a probability of error for each reaction confinement region. A given neural network of the parallel neural networks is applied to the plurality of flow predictor features corresponding to a given reaction confinement region in the array to provide the flow space probability of error for the given reaction confinement region.

公开(公告)号：US20250060354A1

公开(公告)日：2025-02-20

申请号：US18912894

申请日：2024-10-11

Applicant: President and Fellows Of Harvard College

Inventor： Daniel Branton ,  Stephen Jordan Fleming ,  Jene A. Golovchenko

IPC: G01N33/487 ,  B01D71/02 ,  B01D71/74 ,  B82Y35/00 ,  C12Q1/6869 ,  G01N27/40

Abstract: A method is provided for deterministically translocating through a nanopore a target polymer molecule of a nucleic acid polymer molecule or a protein polymer molecule. In the method, an enzyme clamp is reversibly bound to a plurality of sequential polymer subunits of the target polymer molecule. The target polymer molecule and the enzyme clamp are disposed at the nanopore. In the method, there is applied a pulse of force operative to deterministically advance the enzyme clamp along the target polymer molecule by no more than one polymer subunit. The pulse of force is then repeatedly applied to cause deterministic translocation of a sequential plurality of polymer subunits of the target polymer molecule through the nanopore.

公开(公告)号：US20250059593A1

公开(公告)日：2025-02-20

申请号：US18776428

申请日：2024-07-18

Applicant: ULTIMA GENOMICS, INC.

Inventor： Linda LEE ,  Steven MENCHEN ,  Theo NIKIFOROV ,  Gilad ALMOGY ,  Florian OBERSTRASS

IPC: C12Q1/6823 ,  C12Q1/6806 ,  C12Q1/6869 ,  G01N21/64

Abstract: The disclosure provides methods for sequencing nucleic acids using, including with nucleotide analogs and subsequently appended labels.

公开(公告)号：US12228539B2

公开(公告)日：2025-02-18

申请号：US17447048

申请日：2021-09-07

Applicant: Roche Sequencing Solutions, Inc.

Inventor： Roger J. A. Chen ,  J. William Maney, Jr. ,  Hui Tian

IPC: G01N27/22 ,  C12Q1/6869 ,  G01N27/447 ,  G01N33/487

Abstract: A method of analyzing a molecule is disclosed. A voltage source is selectively connected to or disconnected from a capacitor using a switch controlled by a reset signal. A charge is stored in a capacitor when the voltage source is connected to the capacitor. The capacitor is discharged through a nanopore in a membrane when the voltage source is disconnected from the capacitor. A duty cycle of the reset signal is determined such that the voltage source and the capacitor is connected for at least a one tenth portion of a reset signal period and disconnected for a remaining portion of the reset signal period, such that a voltage across the nanopore is maintained at a higher level during the portion of the reset signal period in which the connection is maintained than during the remaining portion of the reset signal period in which the connection is not maintained.

公开(公告)号：US12227802B2

公开(公告)日：2025-02-18

申请号：US18488801

申请日：2023-10-17

Applicant: Illumina Cambridge Limited

Inventor： Antoine Francais ,  Elena Cressina ,  Adam Culley ,  Angelica Mariani ,  Xiaolin Wu ,  Xiaohai Liu

IPC: C07H19/06 ,  C07H19/16 ,  C07H21/00 ,  C12Q1/6869

Abstract: Embodiments of the present disclosure relate to nucleotide molecules with a 3′ AOM blocking group. Also provided herein are methods to prepare such nucleotide molecules, and the uses of fully functionalized nucleotides containing the 3′-OH blocking group for sequencing applications.

公开(公告)号：US12227799B2

公开(公告)日：2025-02-18

申请号：US17542343

申请日：2021-12-03

Applicant: Singular Genomics Systems, Inc.

Inventor： Eli N. Glezer ,  Mohammad Vatankhah Varnosfaderani ,  Daan Witters ,  Vahid Karimkhani

IPC: C12Q1/6869 ,  C12Q1/6844 ,  C12Q1/6874 ,  G01N33/53 ,  G01N33/544

Abstract: Provided herein are methods and compositions for improved sequencing techniques using, for example, polymeric particles and/or three-dimensional structures.

公开(公告)号：US20250052717A1

公开(公告)日：2025-02-13

申请号：US18663889

申请日：2024-05-14

Applicant: IsoPlexis Corporation

Inventor： Steven GORDON ,  Thomas HAGEROTT ,  Edmund GOLASKI ,  Jerzy OLEJNIK

IPC: G01N27/447 ,  B01L3/00 ,  C12Q1/6869

Abstract: The invention provides methods and compositions, including, without limitation, algorithms, computer readable media, computer programs, apparatus, and systems for determining the identity of nucleic acids in nucleotide sequences using, for example, data obtained from sequencing by synthesis methods. A plurality of smaller flow cells is employed, each with a relatively small area to be imaged, in order to provide greater flexibility and efficiency.