Patents by Inventor Andrei Fedorov

Andrei Fedorov has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).

  • Publication number: 20250002989
    Abstract: Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
    Type: Application
    Filed: May 28, 2024
    Publication date: January 2, 2025
    Applicant: Pacific Biosciences of California, Inc.
    Inventors: Lubomir SEBO, Gene SHEN, Stephen YUE, Honey OSUNA, Yuri LAPIN, Louis BROGLEY, Andrei FEDOROV
  • Publication number: 20240394144
    Abstract: The technology described herein involves encoding data representing an array of finite field elements for performing calculations when creating RAID storage systems, characterized in that the bits encoding each element of the Galois field are not arranged sequentially, one after the other, but in increments of n bits, where n>1.
    Type: Application
    Filed: May 16, 2024
    Publication date: November 28, 2024
    Inventor: Andrey Fedorov
  • Patent number: 12060383
    Abstract: Protected fluorescent reagent compounds and their methods of synthesis are provided. The compounds are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The compounds contain fluorescent dye elements, that allow the compounds to be detected with high sensitivity at desirable wavelengths, binding elements, that allow the compounds to be recognized specifically by target biomolecules, and protective shield elements, that decrease undesirable contacts between the fluorescent dye elements and the bound target biomolecules and that therefore decrease photodamage of the bound target biomolecules by the fluorescent dye elements.
    Type: Grant
    Filed: February 10, 2023
    Date of Patent: August 13, 2024
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Lubomir Sebo, Jeremiah Hanes, Gene Shen, Louis Brogley, Stephen Yue, Frank Zheng, Yuri Lapin, John Lyle, Honey Osuna, Andrei Fedorov
  • Patent number: 12026145
    Abstract: Disclosed herein are systems and methods for providing percentile-based alerts from historical event-occurrence data. An embodiment of a method includes identifying a baseline result of an aggregation operation performed with respect to a detection set of attributes of event records. Each baseline result corresponds to a baseline set of one or more event records from a baseline time period within a baseline time window. The method includes determining a subject result of the aggregation operation performed with respect to the detection set of attributes of a subject set of the event records corresponding to a subject time period. The method includes determining, based on the baseline result and the subject result, whether the subject result indicates an alert condition for the detection set for the subject time period, and if so then outputting one or more alerts.
    Type: Grant
    Filed: May 31, 2022
    Date of Patent: July 2, 2024
    Assignee: Snowflake Inc.
    Inventors: Andrey Fedorov, Maria Polyakova, Omer Singer
  • Patent number: 12000000
    Abstract: Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
    Type: Grant
    Filed: October 10, 2022
    Date of Patent: June 4, 2024
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Lubomir Sebo, Gene Shen, Stephen Yue, Honey Osuna, Yuri Lapin, Louis Brogley, Andrei Fedorov
  • Patent number: 11913314
    Abstract: A method is offered to predict and prevent the event of fracture hit (direct fluid communication) between a parent well and a child (active) well. The growth of a child well creates 3D stress field in the vicinity of a parent well. The growth of a child well is simulated using the geomechanic-transport model. A model of interaction between the child well and parent well is provided. The simulations for different job designs create a set of pressure scenario in the parent both for the cases with and without fracture hit (fracture hit catalogue). Comparison (matching) of actual pressure data in the parent and child well with the pre-calculated pressure scenarios indicate the risk of fracture development with a fracture hit, which means a stop in fracturing stimulation.
    Type: Grant
    Filed: December 16, 2020
    Date of Patent: February 27, 2024
    Assignee: SCHLUMBERGER TECHNOLOGY CORPORATION
    Inventors: Roman Korkin, Andrey Fedorov, Artem Kabannik, Kira Vladimirovna Yudina, Dmitry Badazhkov, Jared Bruns, Xiaowei Weng, Aleksandra Khudorozhkova
  • Publication number: 20230366018
    Abstract: Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
    Type: Application
    Filed: October 10, 2022
    Publication date: November 16, 2023
    Applicant: Pacific Biosciences of California, Inc.
    Inventors: Lubomir SEBO, Gene SHEN, Stephen YUE, Honey OSUNA, Yuri LAPIN, Louis BROGLEY, Andrei FEDOROV
  • Publication number: 20230192749
    Abstract: Protected fluorescent reagent compounds and their methods of synthesis are provided. The compounds are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The compounds contain fluorescent dye elements, that allow the compounds to be detected with high sensitivity at desirable wavelengths, binding elements, that allow the compounds to be recognized specifically by target biomolecules, and protective shield elements, that decrease undesirable contacts between the fluorescent dye elements and the bound target biomolecules and that therefore decrease photodamage of the bound target biomolecules by the fluorescent dye elements.
    Type: Application
    Filed: February 10, 2023
    Publication date: June 22, 2023
    Applicant: Pacific Biosciences of California, Inc.
    Inventors: Lubomir SEBO, Jeremiah HANES, Gene SHEN, Louis BROGLEY, Stephen YUE, Frank ZHENG, Yuri LAPIN, John LYLE, Honey OSUNA, Andrei FEDOROV
  • Patent number: 11578093
    Abstract: Protected fluorescent reagent compounds and their methods of synthesis are provided. The compounds are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The compounds contain fluorescent dye elements, that allow the compounds to be detected with high sensitivity at desirable wavelengths, binding elements, that allow the compounds to be recognized specifically by target biomolecules, and protective shield elements, that decrease undesirable contacts between the fluorescent dye elements and the bound target biomolecules and that therefore decrease photodamage of the bound target biomolecules by the fluorescent dye elements.
    Type: Grant
    Filed: August 28, 2020
    Date of Patent: February 14, 2023
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Lubomir Sebo, Jeremiah Hanes, Gene Shen, Louis Brogley, Stephen Yue, Frank Zheng, Yuri Lapin, John Lyle, Honey Osuna, Andrei Fedorov
  • Publication number: 20230020671
    Abstract: A method is offered to predict and prevent the event of fracture hit (direct fluid communication) between a parent well and a child (active) well. The growth of a child well creates 3D stress field in the vicinity of a parent well. The growth of a child well is simulated using the geomechanic-transport model. A model of interaction between the child well and parent well is provided. The simulations for different job designs create a set of pressure scenario in the parent both for the cases with and without fracture hit (fracture hit catalogue). Comparison (matching) of actual pressure data in the parent and child well with the pre-calculated pressure scenarios indicate the risk of fracture development with a fracture hit, which means a stop in fracturing stimulation.
    Type: Application
    Filed: December 16, 2020
    Publication date: January 19, 2023
    Inventors: Roman KORKIN, Andrey FEDOROV, Artem KABANNIK, Kira Vladimirovna YUDINA, Dmitry BADAZHKOV, Jared BRUNS, Xiaowei WENG, Aleksandra KHUDOROZHKOVA
  • Publication number: 20220396811
    Abstract: The present disclosure provides for methods of delivering cargo material to a cell(s) in vivo or in vitro, devices configured to deliver cargo material to the cell, systems configured to deliver cargo material to the cell, and the like. The present disclosure can synergistically combine multiple technologies to improve the rate of cargo material introduction and utility of physical cellular modification in a transformative way compared to the current microinjection state-of-the art.
    Type: Application
    Filed: November 23, 2020
    Publication date: December 15, 2022
    Inventor: Andrei Fedorov
  • Patent number: 11466319
    Abstract: Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
    Type: Grant
    Filed: August 28, 2020
    Date of Patent: October 11, 2022
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Lubomir Sebo, Gene Shen, Stephen Yue, Honey Osuna, Yuri Lapin, Louis Brogley, Andrei Fedorov
  • Publication number: 20220292071
    Abstract: Disclosed herein are systems and methods for providing percentile-based alerts from historical event-occurrence data. An embodiment of a method includes identifying a baseline result of an aggregation operation performed with respect to a detection set of attributes of event records. Each baseline result corresponds to a baseline set of one or more event records from a baseline time period within a baseline time window. The method includes determining a subject result of the aggregation operation performed with respect to the detection set of attributes of a subject set of the event records corresponding to a subject time period. The method includes determining, based on the baseline result and the subject result, whether the subject result indicates an alert condition for the detection set for the subject time period, and if so then outputting one or more alerts.
    Type: Application
    Filed: May 31, 2022
    Publication date: September 15, 2022
    Inventors: Andrey Fedorov, Maria Polyakova, Omer Singer
  • Patent number: 11379459
    Abstract: Disclosed herein are systems and methods for providing percentile-based alerts from historical event-occurrence data. An embodiment of a method includes identifying a baseline result of an aggregation operation performed with respect to a detection set of attributes of event records. Each baseline result corresponds to a baseline set of one or more event records from a baseline time period within a baseline time window. The method includes determining a subject result of the aggregation operation performed with respect to the detection set of attributes of a subject set of the event records corresponding to a subject time period. The method includes determining, based on the baseline result and the subject result, whether the subject result indicates an alert condition for the detection set for the subject time period, and if so then outputting one or more alerts.
    Type: Grant
    Filed: January 31, 2020
    Date of Patent: July 5, 2022
    Assignee: Snowflake Inc.
    Inventors: Andrey Fedorov, Maria Polyakova, Omer Singer
  • Publication number: 20210147465
    Abstract: Protected fluorescent reagent compounds and their methods of synthesis are provided. The compounds are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The compounds contain fluorescent dye elements, that allow the compounds to be detected with high sensitivity at desirable wavelengths, binding elements, that allow the compounds to be recognized specifically by target biomolecules, and protective shield elements, that decrease undesirable contacts between the fluorescent dye elements and the bound target biomolecules and that therefore decrease photodamage of the bound target biomolecules by the fluorescent dye elements.
    Type: Application
    Filed: August 28, 2020
    Publication date: May 20, 2021
    Applicant: Pacific Biosciences of California, Inc.
    Inventors: Lubomir SEBO, Jeremiah HANES, Gene SHEN, Louis BROGLEY, Stephen YUE, Frank ZHENG, Yuri LAPIN, John LYLE, Honey OSUNA, Andrei FEDOROV
  • Publication number: 20210147928
    Abstract: Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
    Type: Application
    Filed: August 28, 2020
    Publication date: May 20, 2021
    Applicant: Pacific Biosciences of California, Inc.
    Inventors: Lubomir SEBO, Gene SHEN, Stephen YUE, Honey OSUNA, Yuri LAPIN, Louis BROGLEY, Andrei FEDOROV
  • Patent number: 10995365
    Abstract: Compositions, devices, systems and methods for increasing the signal to noise ratio (SNR) and/or enhancing photoprotection in an illuminated analytical reaction by addition of one or more signal detection assay (SDA)-enhancing agents to the reaction mixture.
    Type: Grant
    Filed: October 25, 2018
    Date of Patent: May 4, 2021
    Inventors: Stephen Yue, Andrei Fedorov, Gene Shen, Sophia Wu
  • Patent number: 10800805
    Abstract: Protected fluorescent reagent compounds and their methods of synthesis are provided. The compounds are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The compounds contain fluorescent dye elements, that allow the compounds to be detected with high sensitivity at desirable wavelengths, binding elements, that allow the compounds to be recognized specifically by target biomolecules, and protective shield elements, that decrease undesirable contacts between the fluorescent dye elements and the bound target biomolecules and that therefore decrease photodamage of the bound target biomolecules by the fluorescent dye elements.
    Type: Grant
    Filed: April 30, 2018
    Date of Patent: October 13, 2020
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Lubomir Sebo, Jeremiah Hanes, Gene Shen, Louis Brogley, Stephen Yue, Frank Zheng, Yuri Lapin, John Lyle, Honey Osuna, Andrei Fedorov
  • Patent number: 10787573
    Abstract: Multimeric protected fluorescent reagents and their methods of synthesis are provided. The reagents are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The reagents contain fluorescent dye elements, that allow the compounds to be detected with high sensitivity at desirable wavelengths, binding elements, that allow the compounds to be recognized specifically by target biomolecules, and protective shield elements, that decrease undesirable contacts between the fluorescent dye elements and the bound target biomolecules and that therefore decrease photodamage of the bound target biomolecules by the fluorescent dye elements. The reagents also contain coupling elements connect monomeric compounds into multimeric forms, thereby increasing brightness.
    Type: Grant
    Filed: December 4, 2018
    Date of Patent: September 29, 2020
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Frank Zheng, Jeremiah Hanes, Gene Shen, Louis Brogley, Stephen Yue, Yuri Lapin, John Lyle, Honey Osuna, Andrei Fedorov, Lubomir Sebo
  • Patent number: 10781483
    Abstract: Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
    Type: Grant
    Filed: November 21, 2016
    Date of Patent: September 22, 2020
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Lubomir Sebo, Gene Shen, Stephen Yue, Honey Osuna, Yuri Lapin, Louis Brogley, Andrei Fedorov