公开(公告)号：US12259391B2

公开(公告)日：2025-03-25

申请号：US16708956

申请日：2019-12-10

Applicant: Quantum-Si Incorporated

Inventor： Brian Reed ,  Jeremy Lackey ,  Haidong Huang

IPC: G01N33/68 ,  C07K14/47 ,  C07K19/00 ,  C12Q1/6806 ,  G01N1/28 ,  G01N21/64 ,  G01N33/58 ,  G16B25/10 ,  G16B30/00 ,  G16B40/00 ,  G16B40/10 ,  G16B50/30 ,  G16B50/00

Abstract: Aspects of the application provide methods of identifying and sequencing proteins, polypeptides, and amino acids, and compositions useful for the same. In some aspects, the application provides methods of obtaining data during a degradation process of a polypeptide, and outputting a sequence representative of the polypeptide. In some aspects, the application provides amino acid recognition molecules having a shielding element that enhances photostability in polypeptide sequencing reactions.

公开(公告)号：US20250002877A1

公开(公告)日：2025-01-02

申请号：US18603163

申请日：2024-03-12

Applicant: Quantum-Si Incorporated

Inventor： Brian Reed ,  Manjula Pandey

IPC: C12N9/12 ,  C12N11/00 ,  C12P19/34 ,  C12Q1/6806

Abstract: Compositions comprising modified recombinant polymerizing enzymes are provided, along with nucleic acid molecules encoding the modified polymerizing enzymes. In some aspects, methods of using such polymerizing enzymes to synthesize a nucleic acid molecule or to sequence a nucleic acid template are provided.

公开(公告)号：US20240344122A1

公开(公告)日：2024-10-17

申请号：US18599113

申请日：2024-03-07

Applicant: Quantum-Si Incorporated

Inventor： Matthew Dyer ,  Brian Reed

IPC: C12Q1/6869

CPC classification number: C12Q1/6869 ,  C12Q2563/185

Abstract: Provided herein are methods of single-cell polypeptide and/or polynucleic acid sequencing, which facilitate the direct sequencing of a single cell without amplification. Also provided herein are compositions, kits and devices useful for the same.

公开(公告)号：US20240272170A1

公开(公告)日：2024-08-15

申请号：US18365185

申请日：2023-08-03

Applicant: Quantum-Si Incorporated

Inventor： Brian Reed ,  Manjula Pandey ,  Marco Ribezzi-Crivellari ,  Douglas Pike ,  Jennifer Tullman ,  Kristin Blacklock ,  Adeline Pichard-Kostuch ,  Ahmed Rehan ,  Mohammad Wadud Bhuiya

IPC: G01N33/68 ,  C07K14/37

CPC classification number: G01N33/6824 ,  C07K14/37

Abstract: There is provided amino acid recognizers with improved binding properties, allowing for more structural information to be obtained from polypeptides based on the kinetics of on-off binding between recognizer and polypeptide. An amino acid recognizer may comprise an amino acid binding protein with an engineered binding pocket having one or more modifications relative to a homologous protein. The modified binding pocket may increase the number of interactions formed between the binding pocket and an amino acid ligand as compared to an unmodified binding pocket of the homologous protein, increase the number of types of amino acid ligands capable of being detectably bound as compared to an unmodified binding pocket of the homologous protein, and improve the kinetics of binding (e.g., KD, koff, kon) toward one or more types of amino acid ligands, which advantageously increases the amount of, or confidence in, structural information that may be derived from polypeptide analysis.

公开(公告)号：US20240228671A1

公开(公告)日：2024-07-11

申请号：US18491727

申请日：2023-10-20

Applicant: Quantum-Si Incorporated

Inventor： Brian Reed ,  Haidong Huang ,  Manjula Pandey ,  Andrzej Wilczynski

IPC: C07K19/00 ,  C07K7/04 ,  C12Q1/37 ,  G01N33/68

CPC classification number: C07K19/00 ,  C07K7/04 ,  C12Q1/37 ,  G01N33/6818

Abstract: Provided herein are compounds of Formulae (I) and (II), which comprise polypeptidyl groups. Also provided herein are methods of preparing compounds of Formulae (I) and (II). Further provided herein are methods of sequencing a polypeptide by reaction of compounds of Formula (II) with peptidases.

公开(公告)号：US11970729B2

公开(公告)日：2024-04-30

申请号：US17314626

申请日：2021-05-07

Applicant: Quantum-Si Incorporated

Inventor： Jonathan M. Rothberg ,  Jeremy Lackey ,  Brian Reed ,  Xinghua Shi ,  Haidong Huang

IPC: C12Q1/6818 ,  C12Q1/6869 ,  C12Q1/6874 ,  G01N21/64

CPC classification number: C12Q1/6818 ,  C12Q1/6869 ,  C12Q1/6874 ,  G01N21/6408 ,  G01N21/6428 ,  G01N21/6454 ,  G01N21/648 ,  G01N2021/6419 ,  G01N2021/6421 ,  G01N2021/6439 ,  G01N2201/06113 ,  G01N2201/0697 ,  C12Q1/6874 ,  C12Q2563/103

Abstract: Methods of sequencing molecules based on luminescence lifetimes and/or intensities are provided. In some aspects, methods of sequencing nucleic acids involve determining the luminescence lifetimes, and optionally luminescence intensities, of a series of luminescently labeled nucleotides incorporated during a nucleic acid sequencing reaction.

公开(公告)号：US20240124918A1

公开(公告)日：2024-04-18

申请号：US18190455

申请日：2023-03-27

Applicant: Quantum-Si Incorporated

Inventor： Jonathan M. Rothberg ,  Jeremy Lackey ,  Brian Reed ,  Xinghua Shi ,  Haidong Huang ,  David Dodd

IPC: C12Q1/6818 ,  C12Q1/6869 ,  G01N21/64

CPC classification number: C12Q1/6818 ,  C12Q1/6869 ,  G01N21/6428 ,  G01N2021/6439 ,  G01N2458/00

Abstract: Compositions useful for the detection of single molecules in a sample are provided. In some aspects, the disclosure provides a nucleotide connected to a nucleic acid comprising a FRET label comprising at least three luminescent molecules. In some embodiments, the nucleic acids described herein comprise one or more structural features that provide enhanced fluorescence intensity. In some aspects, methods of sequencing using the labeled nucleotides of the disclosure are provided.

公开(公告)号：US20240035081A1

公开(公告)日：2024-02-01

申请号：US17935082

申请日：2022-09-23

Applicant: Quantum-Si Incorporated

Inventor： Jonathan M. Rothberg ,  Jeremy Lackey ,  Brian Reed ,  Xinghua Shi ,  Haidong Huang ,  David Dodd

IPC: C12Q1/6869 ,  C07H21/00 ,  C12Q1/6816

CPC classification number: C12Q1/6869 ,  C07H21/00 ,  C12Q1/6816 ,  C12Q2525/301 ,  C12Q2563/103

Abstract: Methods of sequencing molecules based on luminescence lifetimes and/or intensities are provided. In some aspects, methods of sequencing nucleic acids involve determining the luminescence lifetimes, and optionally luminescence intensities, of a series of luminescently labeled nucleotides incorporated during a nucleic acid sequencing reaction. In some aspects, the disclosure provides compositions comprising luminescently labeled nucleotides.

公开(公告)号：US20230192761A1

公开(公告)日：2023-06-22

申请号：US17837360

申请日：2022-06-10

Applicant: Quantum-Si Incorporated

Inventor： Haidong Huang ,  Roger Nani ,  Omer Ad ,  Brian Reed ,  Matthew Dyer ,  Robert E. Boer

IPC: C07K1/12 ,  C07K14/195

CPC classification number: C07K1/128 ,  C07K14/195

Abstract: The present disclosure relates to compounds and methods for selective C-terminal functionalization of peptides. In certain embodiments, the compounds have improved water-solubility, and are suitable for use in connection with peptide sequencing methodologies.

公开(公告)号：US20210379591A1

公开(公告)日：2021-12-09

申请号：US17236826

申请日：2021-04-21

Applicant: Quantum-Si Incorporated

Inventor： Jonathan M. Rothberg ,  John H. Leamon ,  Jonathan C. Schultz ,  Michele Millham ,  Caixia Lv ,  Haidong Huang ,  Roger Nani ,  Omer Ad ,  Brian Reed ,  Matthew Dyer ,  Robert E. Boer

IPC: B01L3/00 ,  C12Q1/6806

Abstract: Methods and devices for preparing target molecules (e.g., target nucleic acids or target proteins) from a biological sample are provided herein. In some embodiments, methods and devices involve sample lysis, sample fragmentation, enrichment of target molecule(s), and/or functionalization of target molecule(s).