Patents Examined by Narayan K Bhat
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Patent number: 11891657Abstract: A method for analyzing a target nucleic acid includes diluting nucleic acid targets and filling pico to femto-liter sized wells such that they contain a single target nucleic acid and one or more amplification reagents, amplifying the target in the individual wells, distinguishing wells containing amplicon from the target and amplicon from a variant of the target generated by polymerase error by using two differently labeled-hybridization probes, one hybridizing to the target and one hybridizing to a specific variant of the target; and analyzing target amplicons.Type: GrantFiled: November 9, 2020Date of Patent: February 6, 2024Assignee: Orflo Technologies LLCInventors: Harold E. Ayliffe, Donald O'Neil
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Patent number: 11884967Abstract: This disclosure relates DNA based movement of objects. In certain embodiments, particles, pairs of particles, or rods are conjugated with single stranded DNA that hybridizes to a single stranded RNA that is conjugated to a substrate. When the DNA particle, pair of particles, or rod interacts with the surface RNA in the presence of an endonuclease, such as RNase H and the DNA hybridizes to the RNA, then the particle, pair of particles, or rod moves along the surface. The complementarity of the DNA and RNA affect the velocity.Type: GrantFiled: July 7, 2020Date of Patent: January 30, 2024Assignee: Emory UniversityInventors: Khalid Salaita, Kevin Yehl
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Patent number: 11879155Abstract: Methods and compositions for characterizing a target polynucleotide, including, characterizing the sequence of the target polynucleotide, using the fractional translocation steps of the target polynucleotide's translocation through a pore.Type: GrantFiled: May 25, 2021Date of Patent: January 23, 2024Assignee: Illumina, Inc.Inventors: Eric Stava, Jens H. Gundlach, Jeffrey G. Mandell, Kevin L. Gunderson, Ian M. Derrington, Hosein Mohimani
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Patent number: 11873529Abstract: The invention relates to a kit of parts for detecting one or more polymorphisms in a plurality of target nucleotide sequences in a plurality of samples, wherein the kit of parts comprises (i) a first probe and a second probe, wherein the first probe comprises a first target specific section and a first tag section that is non-complementary to the target nucleotide sequence and that comprises a first universal primer binding site, wherein the second probe comprises a second target specific section and a second tag section that is non-complementary to the target nucleotide sequence; and (ii) a first primer and optionally a second primer wherein the first primer comprises a sample-specific identifier sequence and wherein the first primer can hybridize to the first universal primer binding site.Type: GrantFiled: March 22, 2021Date of Patent: January 16, 2024Assignee: Keygene N.V.Inventors: Michael Josephus Theresia Van Eijk, Rene Cornelis Josephus Hogers
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Patent number: 11873484Abstract: Electrically controlled hybridization is used to selectively assemble oligonucleotides on the surface of a microelectrode array. Controlled activation of individual electrodes in the microelectrode array attracts oligonucleotides in solution to specific regions of the array where they hybridize to other oligonucleotides anchored on the array. The oligonucleotides that hybridize may provide locations for subsequent oligonucleotides to hybridize. The active electrodes and the oligonucleotides in solution may be varied during each round of synthesis. This allows for multiple oligonucleotides each with different and specific sequences to be created in parallel. This is accomplished without the use of phosphoramidite chemical synthesis or template-independent DNA polymerase enzymatic synthesis. Oligonucleotides created with these techniques may be used to encode digital data. Fully assembled oligonucleotides may be separated from the array and sequenced, stored, or otherwise processed.Type: GrantFiled: November 27, 2019Date of Patent: January 16, 2024Assignee: MICROSOFT TECHNOLOGY LICENSING, LLCInventors: Yuan-Jyue Chen, Bichlien Nguyen, Jake Smith, Karin Strauss
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Patent number: 11865508Abstract: Described herein are in situ synthesized arrays and methods of making the them, wherein array signal sensitivity and robustness is enhanced by carrying out conditioning steps and/or generating linkers during synthesis. An array comprises a surface with a collection of features, wherein the features comprise molecules or polymers attached to the surface. In certain embodiments of the invention, carrying out conditioning steps during array synthesis can yield arrays with improved signal. In other embodiments, linkers are synthesized on the array surface prior to synthesis of functional molecules, wherein increasing linker length can correspond to an improvement in the signal generated by the array.Type: GrantFiled: August 31, 2020Date of Patent: January 9, 2024Assignee: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITYInventors: Neal Woodbury, Zhang-Gong Zhao
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Patent number: 11866766Abstract: A system and method for target material capture, the method comprising: receiving a set of target cells into an array of wells defined at a surface plane of a substrate; receiving a set of particles into the array of wells, thereby co-capturing the set of target cells and the set of particles; achieving a desired state for the array of wells upon receiving a washing fluid into a cavity in communication with the array of wells; receiving a lysis buffer into the cavity; receiving a partitioning fluid into the cavity, thereby displacing the lysis buffer from the cavity and partitioning each of the array of wells from adjacent wells, at the surface plane; and retaining intercellular material of the set of target cells, individually with the set of particles within the array of wells.Type: GrantFiled: October 21, 2022Date of Patent: January 9, 2024Assignee: Bio-Rad Laboratories, Inc.Inventors: Kalyan Handique, John Stark, Yadwinder Deol, Vishal Sharma
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Patent number: 11860123Abstract: An apparatus comprising: a membrane with a first side, a second side, and a pore that extends through the membrane; a processing system including a processor; and a memory that stores executable instructions that, when executed by the processing system, facilitate performance of operations, the operations comprising: electronic sensing of an electrical characteristic associated with a translocation of a test DNA through the pore, resulting in a sensed electrical characteristic; comparing the sensed electrical characteristic with a plurality of reference electrical characteristics, wherein each of the plurality of reference electrical characteristics is associated with a respective one of a plurality of reference features, and wherein the comparing results in a comparison result; and determining, based upon the comparison result, with which of the plurality of reference features a feature of the test DNA corresponds. Additional embodiments are disclosed.Type: GrantFiled: April 16, 2020Date of Patent: January 2, 2024Assignee: THE BOARD OF TRUSTEES OF THE UNIVERSITY OF ILLINOISInventors: Jean-Pierre Leburton, Lav Raj Varshney, Aditya Sarathy, Nagendra B. Athreya
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Patent number: 11851701Abstract: A probe comprising a reporter region for detecting a first single nucleotide polymorphism, an anchor region for detecting a second single nucleotide polymorphism, and a linker region is disclosed. The reporter region comprises an oligonucleotide consisting of a sequence perfectly matching with the first target sequence, and a fluorescent dye that quenches when hybridized to the first target sequence where the first single nucleotide polymorphism is present. The anchor region comprises an oligonucleotide consisting of a sequence perfectly matching with a second target sequence where the second single nucleotide polymorphism is present. A length of the oligonucleotide of the reporter region is shorter than a length of the oligonucleotide of the anchor region.Type: GrantFiled: March 12, 2019Date of Patent: December 26, 2023Assignee: EIKEN KAGAKU KABUSHIKI KAISHAInventor: Atsuka Matsui
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Patent number: 11845984Abstract: A method for sequencing a biological molecule, such as a nucleic acid molecule, and a method for detecting and/or correcting sequencing error(s) in the sequencing results are provided. Kits and systems based on the above methods are also provided.Type: GrantFiled: July 13, 2020Date of Patent: December 19, 2023Assignee: CYGNUS BIOSCIENCES (BEIJING) CO., LTD.Inventors: Yanyi Huang, Zitian Chen, Wenxiong Zhou, Haifeng Duan, Li Kang, Shuo Qiao
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Patent number: 11840715Abstract: A switchable hydrophilic surface is created by attaching electrochemically switchable hydrophilicity polymers to the surface of a microelectrode array. Ferrocene polymers are one example of electrochemically switchable hydrophilicity polymers. Activation of electrodes in the microelectrode array changes the oxidation state of metal ions which switches the polymers between hydrophobic and hydrophilic conformations. Selective activation of electrodes can create patterns of wettability on the microelectrode array that may be varied in real time. The switchable hydrophilic surface may be used to control solid-phase synthesis of polymers. Growing polymers may be selectively extended at locations on the microelectrode array that are hydrophilic. The pattern of hydrophobic and hydrophilic regions can be changed during sequential rounds of synthesis to create a variety of different polymers at different locations on the surface of the microelectrode array.Type: GrantFiled: June 30, 2020Date of Patent: December 12, 2023Assignee: MICROSOFT TECHNOLOGY LICENSING, LLCInventors: Bichlien Nguyen, Jake Smith
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Patent number: 11835533Abstract: Embodiments disclosed herein relate to methods and systems for performing automated assays, and particularly to performing sequential assays on a sample on an automated instrument.Type: GrantFiled: September 21, 2020Date of Patent: December 5, 2023Assignee: BECTON, DICKINSON AND COMPANYInventors: Celine Roger Dalbert, Joel Daniel Krayer, Adam Bruce Steel, Denis Roy
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Patent number: 11833515Abstract: Provided are microfluidics systems, devices, and networks for generating partitions. The microfluidics systems, devices, and networks may facilitate efficient merging of one or more channels in a microfluidic network and prevent blockage of a channel segment, such as by gas (e.g., air) bubbles or by one or more particles in a fluid.Type: GrantFiled: April 27, 2020Date of Patent: December 5, 2023Assignee: 10x Genomics, Inc.Inventors: Tobias Daniel Wheeler, Bill Kengli Lin, Mohammad Rahimi Lenji, Anthony Makarewicz, Rajiv Bharadwaj
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Patent number: 11834714Abstract: The disclosure provides compositions, methods, and systems for implementation of highly multiplexed molecular diagnostic assays involving color combinatorics, stimulus-responsive probes, tandem probes, conjugated polymer probes, and other mechanisms for increasing the number of targets that can be simultaneously detected in a digital assay. Multiplexed detection of targets is achieved in a rapid manner, with respect to sample partitioning and target detection using multiple color channels for detection. Implementation of methods described also achieve detection with significantly improved signal-to-noise ratio (SNR) values.Type: GrantFiled: December 20, 2022Date of Patent: December 5, 2023Assignee: ENUMERIX, INC.Inventors: Eleen Yee Lam Shum, Hei Mun Christina Fan, Stephen P. A. Fodor, Janice Hoiyi Lai, Jung Won Keum, Haeun Grace Lee
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Patent number: 11821026Abstract: The present disclosure relates to chemical compositions, kits, and apparatuses and methods for using these compositions, kits and apparatuses in various assays.Type: GrantFiled: March 7, 2023Date of Patent: November 21, 2023Assignee: NanoString Technologies, Inc.Inventors: Dwayne L. Dunaway, Elizabeth A. Manrao, Joseph M. Beechem, Rustem Khafizov, Sanghamithra Korukonda, Yi Deng, Dae Kim, Mark Gregory, Margaret Hoang
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Patent number: 11821024Abstract: The present disclosure provides methods and assay systems for use in spatially encoded biological assays, including assays to determine a spatial pattern of abundance, expression, and/or activity of one or more biological targets across multiple sites in a sample. In particular, the biological targets comprise proteins, and the methods and assay systems do not depend on imaging techniques for the spatial information of the targets. The present disclosure provides methods and assay systems capable of high levels of multiplexing where reagents are provided to a biological sample in order to address tag the sites to which reagents are delivered; instrumentation capable of controlled delivery of reagents; and a decoding scheme providing a readout that is digital in nature.Type: GrantFiled: March 31, 2023Date of Patent: November 21, 2023Assignee: Prognosys Biosciences, Inc.Inventors: Mark S. Chee, David A. Routenberg
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Patent number: 11815512Abstract: Disclosed herein are formulations, substrates, and arrays. Also disclosed herein are methods for manufacturing and methods of assuring a uniformly high quality of a microarray of features that are attached to a surface of the microarray at positionally-defined locations.Type: GrantFiled: July 9, 2020Date of Patent: November 14, 2023Assignee: Vibrant Holdings, LLCInventors: John J. Rajasekaran, Vasanth Jayaraman, Tianhao Wang, Kang Bei, Hari Krishnan Krishnamurthy
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Patent number: 11814671Abstract: A system and method for target material capture, the method comprising: receiving a set of target cells into an array of wells defined at a surface plane of a substrate; receiving a set of particles into the array of wells, thereby co-capturing the set of target cells and the set of particles; achieving a desired state for the array of wells upon receiving a washing fluid into a cavity in communication with the array of wells; receiving a lysis buffer into the cavity; receiving a partitioning fluid into the cavity, thereby displacing the lysis buffer from the cavity and partitioning each of the array of wells from adjacent wells, at the surface plane; and retaining intercellular material of the set of target cells, individually with the set of particles within the array of wells.Type: GrantFiled: February 8, 2021Date of Patent: November 14, 2023Assignee: Bio-Rad Laboratories, Inc.Inventors: Kalyan Handique, John Stark, Yadwinder Deol, Vishal Sharma
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Patent number: 11802306Abstract: Methods of detecting unknown genetic modifications in a DNA sample from an organism are disclosed.Type: GrantFiled: October 12, 2018Date of Patent: October 31, 2023Assignee: The Charles Stark Draper Laboratory, Inc.Inventors: Kirsty A. McFarland, Andrew P. Magyar, Ting Pang, Michael Springer
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Patent number: 11786872Abstract: The invention describes a method for isolating one or more genetic elements encoding a gene product having a desired activity, comprising the steps of: (a) compartmentalising genetic elements into microcapsules; and (b) sorting the genetic elements which express the gene product having the desired activity; wherein at least one step is under microfluidic control. The invention enables the in vitro evolution of nucleic acids and proteins by repeated mutagenesis and iterative applications of the method of the invention.Type: GrantFiled: May 1, 2020Date of Patent: October 17, 2023Assignees: UNITED KINGDOM RESEARCH AND INNOVATION, PRESIDENT AND FELLOWS OF HARVARD COLLEGEInventors: Andrew David Griffiths, David A. Weitz, Darren Roy Link, Keunho Ahn, Jerome Bibette