Nucleotides Or Polynucleotides, Or Derivatives Thereof Patents (Class 506/16)
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Patent number: 10947581Abstract: 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: March 17, 2020Date of Patent: March 16, 2021Assignee: Bio-Rad Laboratories, Inc.Inventors: Kalyan Handique, John Stark, Yadwinder Deol, Vishal Sharma
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Patent number: 10947587Abstract: A short tandem repeat (STR) typing method and system are developed for forensic identification of individual cells. Agarose-in-oil droplets are produced with a high frequency using a microfluidic droplet generator. Statistically dilute single cells, along with primer-functionalized microbeads, are randomly compartmentalized in the droplets. Massively parallel single-cell droplet PCR is performed to transfer replicas of desired STR targets from the single-cell genomic DNA onto a coencapsulated microbead. These DNA-conjugated beads are subsequently harvested and reamplified under statistically dilute conditions for conventional capillary electrophoresis STR fragment size analysis. The methods and systems described herein are valuable for the STR analysis of samples containing mixtures of cells/DNA from multiple contributors and for low concentration samples.Type: GrantFiled: November 5, 2014Date of Patent: March 16, 2021Assignee: The Regents of the University of CaliforniaInventors: Tao Geng, Richard Novak, Richard A. Mathies
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Patent number: 10934636Abstract: The present invention provides a novel method for preparing a sequencing library and studying molecular interactions involving a nucleic acid. In particular, the invention relates to a method for preparing a sequencing library, the method comprising the addition of an agent binding to chromatin to a sample comprising a nucleic acid; isolating chromatin bound by said agent; addition of transposase to the isolated chromatin; isolating nucleic acid from chromatin; and obtaining a sequencing library. Moreover, the present invention relates to a method for mapping of molecular interactions involving a nucleic acid, the method comprising the addition of an agent binding to chromatin to a sample comprising a nucleic acid; isolating chromatin bound by said agent; addition of transposase to the isolated chromatin; isolating nucleic acid from chromatin; amplification of nucleic acid; sequencing of amplified nucleic acid; and identifying molecular interactions.Type: GrantFiled: August 11, 2016Date of Patent: March 2, 2021Assignee: CEMM—Forschungszentrum für Molekulare Medizin GmbHInventors: Christoph Bock, Christian Schmidl
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Patent number: 10894990Abstract: Disclosed are methods for screening biological samples for the presence unknown microbes, such as bacteria and archaea or unknown eukaryotes using rRNA gene sequences or other highly conserved genetic regions, across multiple biological samples using a unique sequence tag (barcode) corresponding to the sample. The screening process tracks the unknown microbe or eukaryote in a diluted sample where the DNA has been prepared using whole genome amplification. The whole genome of the unknown microbe or eukaryote is then sequenced and assembled.Type: GrantFiled: May 16, 2017Date of Patent: January 19, 2021Assignee: Shoreline Biome, LLCInventors: Mark Driscoll, Thomas Jarvie
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Patent number: 10876148Abstract: Methods and formulations for preparing low non-specific binding surfaces are described, and the prepared surface can provide improved performance for nucleic acid detection and base calling applications. The surface provides more accurate nucleic acid detection, enhanced contrast to noise ratio, and better data collection.Type: GrantFiled: January 10, 2020Date of Patent: December 29, 2020Assignee: ELEMENT BIOSCIENCES, INC.Inventors: Chunhong Zhou, Sinan Arslan, Molly Min He, Matthew Kellinger, Adeline Huizhen Mah, Michael Previte, Lei Sun
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Patent number: 10858695Abstract: In some embodiments, provided are methods for nucleic acid amplification include subjecting the nucleic acid to be amplified to partially denaturing conditions. In some embodiments, methods for nucleic acid amplification include amplifying without fully denaturing the nucleic acid that is amplified. In some embodiments, the methods for nucleic acid amplification employ an enzyme that catalyzes homologous recombination and a polymerase. In some embodiments, methods for nucleic acid amplification can be conducted in a single reaction vessel. In some embodiments, methods for nucleic acid amplification can be conducted in a single continuous liquid phase of a reaction mixture, without need for compartmentalization of the reaction mixture or immobilization of reaction components. In some embodiments, methods for nucleic acid amplification comprise a amplifying at least one polynucleotide onto a surface under isothermal amplification conditions, optionally in the presence of a polymer.Type: GrantFiled: October 23, 2018Date of Patent: December 8, 2020Assignee: Life Technologies CorporationInventors: Chieh-Yuan Li, David Ruff, Jennifer O'Neil, Rachel Kasinskas, Shiaw-Min Chen, Jonathan M. Rothberg, Bin Li, Kai Qin Lao
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Patent number: 10858691Abstract: Focused acoustic treatment of samples may be used to differentially shear different fragment lengths of DNA or other nucleic acid portions of a sample. Relatively larger fragment lengths may be sheared while smaller fragment lengths are unaffected by the focused acoustic based shearing.Type: GrantFiled: April 17, 2018Date of Patent: December 8, 2020Assignee: Covaris, Inc.Inventors: Hans-Ulrich Thomann, James A. Laugharn, Jr.
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Patent number: 10844435Abstract: The present disclosure relates to a method of treating a patient experiencing hypotension, comprising genotyping for a TT, AA, or AT genotype, and administering a therapeutically effective amount of vasopressin based on genotype to maintain a target blood pressure.Type: GrantFiled: July 17, 2020Date of Patent: November 24, 2020Assignee: PAR PHARMACEUTICAL, INC.Inventor: Saji Vijayan
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Patent number: 10815536Abstract: The present invention provides novel methods, systems, tools, and kits for the simultaneous detection, identification and/or characterization of all viruses known or suspected to infect vertebrates. The methods, systems, tools, and kits described herein are based upon the virome capture sequencing platform (“VirCapSeq-VERT”), a novel platform developed by the inventors. The invention also provides methods and kits for designing and constructing of the virome capture sequencing platform.Type: GrantFiled: September 19, 2016Date of Patent: October 27, 2020Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORKInventors: Walter Ian Lipkin, Omar Jabado, Thomas Briese, Amit Kapoor, Jan Gogarten, Komal Jain, Nischay Mishra
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Patent number: 10792638Abstract: Droplet generation devices and systems that parallelize droplet generation devices are provided. The droplet generation devices can include a symmetric block-and-break system and a tapered droplet generation zone. The symmetric block-and-break system can include a pair of break channels and a pair of bypass channels symmetrically arranged with respect to the dispersed-phase input channel and the output channel. The droplet generation devices can generate monodisperse droplets with a predefined volume over a range of flow rates, pressures, and fluid properties. The droplet generation devices are therefore capable of parallelization to achieve large-capacity droplet generation, e.g. greater than 1 L/hr, with small overall coefficients of variation.Type: GrantFiled: October 7, 2016Date of Patent: October 6, 2020Assignee: KING ABDULLAH UNIVERSITY OF SCIENCE AND TECHNOLOGYInventors: David Conchouso Gonzalez, Armando Arpys Arevalo Carreno, Ian G. Foulds
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Patent number: 10751717Abstract: A microfluidic chip for collecting dielectric particles in a fluid sample to be tested includes an insulating substrate, a first interdigitated electrode, a second interdigitated electrode, and a dielectric layer. The dielectric layer is formed on the first and second interdigitated electrodes and is made from a semiconductive inorganic material having a dielectric constant of from 3.7 F/m to 80 F/m.Type: GrantFiled: June 4, 2018Date of Patent: August 25, 2020Assignee: National Cheng Kung UniversityInventors: Hsien-Chang Chang, Tien-Chun Tsai, Yen-Liang Cho, Zong-Zhan Wu, Peng-Ting Chen
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Patent number: 10722858Abstract: The invention relates to methods of tagging analytes in a sample.Type: GrantFiled: July 23, 2018Date of Patent: July 28, 2020Assignee: Lineage Biosciences, Inc.Inventors: Hei-Mun Christina Fan, Edward A. Hutchins
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Patent number: 10718016Abstract: Short Tandem Repeats are currently used by law enforcement and others, for example, for the identification of individuals by DNA matching. A method is described herein that uses WPD to classify and identify repeating sequences in nucleotide sequences from the position and frequency information contained within nucleotide sequences. This decomposition allows for the quick classification of nucleotide sequences (i.e., reads) into two different classes, including, for example, one class that contains sequencer reads that contain a repeat motif with non-repeat sequence on either flank, and another class that contains sequencer reads that do not contain any repeat sequence.Type: GrantFiled: June 16, 2017Date of Patent: July 21, 2020Assignee: BATTELLE MEMORIAL INSTITUTEInventors: Joseph J. Regensburger, Aaron J. Sander, Jared M. Schuetter, Daniel M. Bornman, Seth A. Faith, Scott C. Nelson, Brian A. Young
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Patent number: 10711271Abstract: This disclosure provides, among other things, a method for making a cDNA library. In some embodiments the method may comprise reverse transcribing mRNA to produce DNA:mRNA hybrids, treating the DNA:mRNA hybrids with RNAseH to produce mRNA fragments, and reverse transcribing the mRNA fragments.Type: GrantFiled: November 20, 2017Date of Patent: July 14, 2020Assignee: BIOO SCIENTIFIC CORPORATIONInventors: Kevin Allen, Adam Morris
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Patent number: 10679724Abstract: A method of modeling a background signal when sequencing a polynucleotide strand using sequencing-by-synthesis includes: flowing a series of nucleotide flows onto a reactor array having multiple reaction confinement regions, one or more copies of the polynucleotide strand being located in a loaded reaction confinement region of the reactor array, the loaded reaction confinement region being located in a vicinity of one or more neighboring reaction confinement regions that may or may not be loaded; receiving output signals from the reactor array; and modeling a background signal for the loaded reaction confinement region using the received output signals and a model adapted to account at least for an exchange of ions between the one or more neighboring reaction confinement regions and a headspace adjacent the loaded reaction confinement region and the one or more neighboring reaction confinement regions.Type: GrantFiled: April 27, 2017Date of Patent: June 9, 2020Assignee: Life Technologies CorporationInventor: Todd Rearick
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Patent number: 10669538Abstract: The present invention relates to a method for synthesising templated molecules. In one aspect of the invention, the templated molecules are linked to the template which templated the synthesis thereof. The invention allows the generation of libraries which can be screened for e.g. therapeutic activity.Type: GrantFiled: October 13, 2016Date of Patent: June 2, 2020Assignee: NUEVOLUTION A/SInventors: Henrik Pedersen, Alex Haahr Gouliaev, Thomas Franch, Christian Klarner Sams, Eva Kampmann Olsen, Frank Abilgaard Slok, Gitte Nystrup Husemoen, Jakob Felding, Lene Hyldtoft, Mads Norregaard-Madsen, Michael Anders Godskesen, Sanne Schroder Glad, Thomas Thisted, Per-Ola Freskgard, Anette Holtmann
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Patent number: 10669580Abstract: The present disclosure relates to compounds comprising a negatively-charged polymer moiety which is capable of entering a nanopore and upon entering a nanopore in the presence of positive ions results in an increased flow of the positive ions through the nanopore. The present disclosure provides methods of preparing the compounds and for their use as nanopore-detectable tags, in particular, for nanopore-based nucleic acid detection and sequencing.Type: GrantFiled: August 23, 2017Date of Patent: June 2, 2020Assignee: Roche Sequencing Solutions, Inc.Inventors: Dmitriy Gremyachinskiy, Peter Crisalli, Andrew Trans, Ashwini Bhat
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Patent number: 10655170Abstract: Methods of coupling adaptors to a target nucleic acid include coupling a first adaptor to a first end of the target nucleic acid to form a coupled first adaptor. A portion of a second adaptor is hybridized to a portion of the coupled first adaptor to form a hybridized second adaptor having a single-stranded 3?-end. The hybridized second adaptor is coupled to a second end of the target nucleic acid to form an adaptor-flanked product having at least a part of the first adaptor coupled to the first end of the target nucleic acid and at least a part of the second adaptor coupled to the second end of the target nucleic acid. These methods can minimize the formation of adaptor-dimers that may be problematic in subsequent complementary nucleic acid strand synthesis, amplification, and sequencing.Type: GrantFiled: July 5, 2017Date of Patent: May 19, 2020Assignee: Takara Bio USA, Inc.Inventors: Konstantinos Charizanis, Marta Gonzalez-Hernandez, Amanda McNulty, Karl Hecker, Emmanuel Kamberov, John Langmore
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Patent number: 10612084Abstract: A mechanism is provided for reducing entropy of a polyelectrolyte before the polyelectrolyte moves through a nanopore. A free-standing membrane has the nanopore formed through the membrane. An agarose gel is formed onto either and/or both sides of the nanopore in the membrane. The agarose gel is a porous material. The polyelectrolyte is uncoiled by driving the polyelectrolyte through the porous material of the agarose gel via an electric field. Driving the polyelectrolyte, having been uncoiled and linearized by the agarose gel, into the nanopore is for sequencing.Type: GrantFiled: December 30, 2014Date of Patent: April 7, 2020Assignee: INTERNATIONAL BUSINESS MACHINES CORPORATIONInventors: Gustavo A. Stolovitzky, George F. Walker, Chao Wang, Deqiang Wang
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Patent number: 10589274Abstract: Methods and systems for manipulating drops in microfluidic channels are provided.Type: GrantFiled: May 22, 2018Date of Patent: March 17, 2020Assignee: Bio-Rad Laboratories, Inc.Inventors: Sepehr Kiani, Joshua Blouwolff, Adnan Esmail, Jason Hung, Tony Hung, Adam R. Abate, Scott Powers, Pascaline Mary
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Patent number: 10557168Abstract: Provided is a sensing apparatus comprising a chip for integrated amplification and sequencing of a template polynucleotide in a sample. The apparatus comprises a chip with at least one ISFET in a well or chamber, amplification means for amplifying the template polynucleotide on a surface of said chip and comprising at least one heating means suitable for conducting amplification of the template polynucleotide at temperatures elevated with respect to room temperature, and sequencing means for sequencing the amplified template polynucleotide in said well or chamber. Methods of use are also provided.Type: GrantFiled: April 24, 2019Date of Patent: February 11, 2020Assignee: DNAE Group Holdings LimitedInventors: Zahid Ansari, Krishna Amin, Ginny Jorgensen, Kurt Kolb, Daniel Morley, Alpesh Patel, Samuel Reed, Leila Shepherd, Christofer Toumazou
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Patent number: 10550393Abstract: An object of the present invention is to provide a convenient and low-cost method for enhancing the stability of a DNA aptamer and/or its capacity to bind to a target molecule, and a DNA aptamer obtained by the method. The object is solved by substituting an internal hairpin structure (stem-loop structure) of the DNA aptamer with a structure called mini-hairpin structure and optionally increasing GC pairs in a stem portion of the DNA aptamer.Type: GrantFiled: March 4, 2016Date of Patent: February 4, 2020Assignee: Tagcyx BiotechnologiesInventors: Ichiro Hirao, Michiko Hirao, Kenichiro Matsunaga
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Patent number: 10526607Abstract: The invention relates to a novel cell derived from the human body, where said cell comprises a Clever-1 receptor; to a method for affecting the immune system of an individual and for treatment of diseases or conditions related to the function of the immune system and to methods for screening of cancer patients that may respond to an anti-Clever-1 therapy or for diagnosing of a pregnancy complication or for estimating the risk of such complication in a pregnant woman.Type: GrantFiled: March 25, 2014Date of Patent: January 7, 2020Assignee: FARON PHARMACEUTICALS OYInventors: Sirpa Jalkanen, Marko Salmi, Markku Jalkanen
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Patent number: 10501767Abstract: The invention relates to a method for modifying a template double stranded polynucleotide, especially for characterization using nanopore sequencing. The method produces from the template a plurality of modified double stranded polynucleotides. These modified polynucleotides can then be characterized.Type: GrantFiled: August 14, 2014Date of Patent: December 10, 2019Assignee: Oxford Nanopore Technologies Ltd.Inventors: David Jackson Stoddart, James White
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Patent number: 10451541Abstract: Systems and methods for performing measurements of one or more materials are provided. One system is configured to transfer one or more materials to an imaging volume of a measurement device from one or more storage vessels. Another system is configured to image one or more materials in an imaging volume of a measurement device. An additional system is configured to substantially immobilize one or more materials in an imaging volume of a measurement device. A further system is configured to transfer one or more materials to an imaging volume of a measurement device from one or more storage vessels, to image the one or more materials in the imaging volume, to substantially immobilize the one or more materials in the imaging volume, or some combination thereof.Type: GrantFiled: June 18, 2014Date of Patent: October 22, 2019Assignee: LUMINSEX CORPORATIONInventors: Charles J. Collins, William R. Deicher, Jarden E. Krager, Adam R. Schilffarth, Ross G. Johnson
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Patent number: 10443094Abstract: Provided herein are methods and kits for isothermal nucleic acid amplifications that use a target nucleic acid template; a reaction mixture comprising a DNA polymerase having a strand displacement activity, a deoxyribonucleoside triphosphate (dNTP) mixture, a primer with a 3? end and a 5? end, a molecular crowding reagent, and a buffer solution for amplifying the target nucleic acid template. The buffer solution maintains a low salt concentration of the reaction mixture, and wherein the salt concentration results in a melting temperature (Tm) of the primer at least 10° C. below the reaction temperature. The amplification is effected under isothermal condition.Type: GrantFiled: January 30, 2017Date of Patent: October 15, 2019Assignee: General Electric CompanyInventors: Ryan Charles Heller, John Richard Nelson, Paresh Lakhubhai Patel, Alison Myfanwy Wakefield, Stephen James Capper, Peter James Tatnell, Jeffrey Kenneth Horton
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Patent number: 10443096Abstract: 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.Type: GrantFiled: December 16, 2011Date of Patent: October 15, 2019Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORKInventors: Jingyue Ju, Shiv Kumar, Zengmin Li, Chuanjuan Tao, Minchen Chien, James J. Russo, Sergey Kalachikov, Ken Shepard, Jacob Karl Rosenstein
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Patent number: 10337063Abstract: Aspects of the present invention include analyzing nucleic acids from single cells using methods that include using tagged polynucleotides containing multiplex identifier sequences.Type: GrantFiled: February 21, 2019Date of Patent: July 2, 2019Assignee: 10X GENOMICS, INC.Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
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Patent number: 10280419Abstract: Methods and products are described related to use of the CRISPR/Cas9 system to introduce a modification into an APP gene, such as guide RNAs and recombinant proteins, for decreasing amyloid beta peptide produced by a cell. Also described are uses of such methods and products for the treatment of Alzheimer's disease and/or age-related cognitive decline in a cell from a subject in need thereof.Type: GrantFiled: May 8, 2015Date of Patent: May 7, 2019Assignee: UNIVERSITÉ LAVALInventors: Jacques P. Tremblay, Joël Rousseau, Pierre Chapdelaine
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Patent number: 10280459Abstract: Aspects of the present invention include analyzing nucleic acids from single cells using methods that include using tagged polynucleotides containing multiplex identifier sequences.Type: GrantFiled: January 29, 2019Date of Patent: May 7, 2019Assignee: 10X GENOMICS, INC.Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
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Patent number: 10208353Abstract: The present invention relates to biomarkers useful for detection of types, grades and stages of human breast cancer. The present invention particularly relates to the development of these identified biomarkers as a miRNA chip for the early and accurate diagnosis of human breast cancer. This patent application highlights the novelty in the utility of these miRNAs, that they could be used as a diagnostic kit (miRNA chip) for early and accurate detection of breast cancer grades, stages and subtypes. Few to hundreds of samples can be checked within a span of 2 to 3 hrs and hence this becomes an easy, fast, robust and high throughput technology for screening program for early detection of breast cancer.Type: GrantFiled: October 17, 2012Date of Patent: February 19, 2019Assignee: Council of Scientific and Industrial ResearchInventors: Lekha Dinesh Kumar, Vinod Kumar Verma, Rekha A. Nair, Jem Prabhakar, Jayasree Kattoor
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Patent number: 10150986Abstract: The present application relates to biosensors, for example comprising an high-molecular weight, tandem repeating, structure-switching nucleic acid aptamers (concatemeric aptamers) to rapidly create patterned sensors via, for example, inkjet printing. These concatemeric aptamer reporters remain immobilized at the point of printing through strong adsorption but retain sufficient segmental mobility to undergo structure switching and reporter signalling to provide both qualitative and quantitative detection of one or more analytes. In certain embodiments, inkjet printing allows for the patterning of internally referenced sensors with multiplexed detection, and provides a generic platform for on-demand printing of sensors even in remote locations.Type: GrantFiled: March 24, 2016Date of Patent: December 11, 2018Assignee: MCMASTER UNIVERSITYInventors: John D. Brennan, Yingfu Li, Carmen Carrasquilla
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Patent number: 10144962Abstract: In various aspects, the present disclosure provides methods, compositions, reactions mixtures, kits, and systems for sequencing both RNA and DNA from a single source sample. In some embodiments, RNA is treated so as to differentiate RNA sequences from DNA sequences derived from the same sample. In some embodiments, the RNA and DNA are cell-free polynucleotides.Type: GrantFiled: June 29, 2017Date of Patent: December 4, 2018Assignee: GRAIL, Inc.Inventors: Matthew Larson, H. John Kim, Nick Eattock, Arash Jamshidi
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Patent number: 10106842Abstract: The present invention provides for novel methods and compositions for nucleic acid sequence detection. Unique, identifying cleavage fragments from probes, bound to target nucleic acids, are produced during PCR by the 5?-nuclease activity of the polymerase. The identity of the targets can be determined by identifying the unique cleavage fragments.Type: GrantFiled: September 17, 2014Date of Patent: October 23, 2018Assignee: Roche Molecular Systems, Inc.Inventor: Amar Gupta
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Patent number: 10017811Abstract: The present invention provides methods, compositions, kits, systems and apparatus that are useful for multiplex PCR of one or more nucleic acids present in a sample. In particular, various target-specific primers are provided that allow for the selective amplification of one or more target sequences. In one aspect, the invention relates to target-specific primers useful for the selective amplification of one or more target sequences associated with cancer or inherited disease. In some aspects, amplified target sequences obtained using the disclosed methods, kits, systems and apparatuses can be used in various downstream processes including nucleic acid sequencing and used to detect the presence of genetic variants.Type: GrantFiled: October 20, 2014Date of Patent: July 10, 2018Assignee: LIFE TECHNOLOGIES CORPORATIONInventors: John Leamon, Mark Andersen, Michael Thornton
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Patent number: 10017815Abstract: A scalable reaction and detection system for automated high throughput sequencing of nucleic acids involving a combination of chemical processes and observation processes independent of the chemistry processes. Discrete functional units may be configured in a manner that allows the system to interchangeably utilize different sequencing reaction components in conjunction with discrete apparatus components for optical image collection and/or analysis.Type: GrantFiled: August 28, 2015Date of Patent: July 10, 2018Assignee: Complete Genomics, Inc.Inventor: Arnold Oliphant
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Patent number: 9994889Abstract: Arrangements for per-well fluidics, gas exchange, and electronic sensors for microplate, microtiter, and microarray technologies are presented. In example implementations, each individual well within in a conventional or specialized microplate can be fully or partially isolated with capping or other arrangements which can include conduits for controlled introduction, removal, and/or exchange of fluids and/or gases. Conduit networks can include small controllable valves that operate under software control, and micro-scale pumps can also be included. Conduit interconnections can include one or more of controllable-valve distribution buses, next-neighbor interconnections, and other active or passive interconnection topologies. Cap arrangements can include or provide one or more sensors of various types, including but not limited to selective gas sensors, chemical sensors, temperature sensors, pH sensors, biosensors, immunosensors, molecular-imprint sensors, optical sensors, fluorescence sensors, bioFETS, etc.Type: GrantFiled: March 15, 2013Date of Patent: June 12, 2018Assignee: NRI R&D PATENT LICENSING, LLCInventors: Pooncharas Tipgunlakant, Lester F. Ludwig
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Patent number: 9952209Abstract: Magnetic-optical iron oxide-gold core-shell nanoparticles are disclosed. Methods for making and using the nanoparticles are also disclosed.Type: GrantFiled: July 1, 2014Date of Patent: April 24, 2018Assignee: The University of Memphis Research FoundationInventors: Xiaohua Huang, Saheel Bhana
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Patent number: 9914957Abstract: A droplet detection system comprises a first channel in fluid communication with a carrier fluid reservoir and a second channel in fluid communication with a sample reservoir. The first channel and second channel can meet at an intersection. The sample reservoir can include a sample or partition thereof. During use, an emulsion comprising one or more droplets can be generated at the intersection. The emulsion flows from the intersection along a detection channel to a collection reservoir. A detection assembly that is coupled to at least a portion of the detection channel is configured to detect a signal from the one or more droplets. An energy providing member can be in thermal communication with at least one of the carrier fluid reservoir, the sample reservoir, the intersection, the detection channel and the detection assembly. The energy providing member is configured to transfer energy to the emulsion.Type: GrantFiled: February 20, 2014Date of Patent: March 13, 2018Assignee: Bio-Rad Laboratories, Inc.Inventors: Amy L. Hiddessen, Erin Rae Chia
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Patent number: 9850526Abstract: The present invention generally relates to droplets and/or emulsions, such as multiple emulsions. In some cases, the droplets and/or emulsions may be used in assays, and in certain embodiments, the droplet or emulsion may be hardened to form a gel. In some aspects, a heterogeneous assay can be performed using a gel. For example, a droplet may be hardened to form a gel, where the droplet contains a cell, DNA, or other suitable species. The gel may be exposed to a reactant, and the reactant may interact with the gel and/or with the cell, DNA, etc., in some fashion. For example, the reactant may diffuse through the gel, or the hardened particle may liquefy to form a liquid state, allowing the reactant to interact with the cell. As a specific example, DNA contained within a gel particle may be subjected to PCR (polymerase chain reaction) amplification, e.g., by using PCR primers able to bind to the gel as it forms. As the DNA is amplified using PCR, some of the DNA will be bound to the gel via the PCR primer.Type: GrantFiled: May 26, 2015Date of Patent: December 26, 2017Assignee: President and Fellows of Harvard CollegeInventors: Jeremy Agresti, Liang-Yin Chu, David A. Weitz, Jin-Woong Kim, Amy Rowat, Morten Sommer, Gautam Dantas, George Church
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Patent number: 9834765Abstract: Provided herein is a new class of nucleic acid tagging molecules which are essentially free of homopolymer stretches. The tagging molecules can tag a plurality of individual target molecules for detection with a high degree of accuracy. The tagging molecules can be used to tag at least 105 or 106 individual target molecules. The tagged individual target molecules can be subjected to high throughput sequence analysis.Type: GrantFiled: March 7, 2014Date of Patent: December 5, 2017Assignee: Roche Diagnostics Operations, Inc.Inventors: Frank Bergmann, Bruno Frey, Dieter Heindl
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Patent number: 9771667Abstract: This invention provides novel compositions and processes for analyte detection, quantification and amplification. Nucleic acid arrays and libraries of analytes are usefully incorporated into such compositions and processes. Universal detection elements, signaling entities and the like are employed to detect and if necessary or desirable, to quantify analytes. Amplification of target analytes are also provided by the compositions and processes of this invention.Type: GrantFiled: October 5, 2016Date of Patent: September 26, 2017Assignee: Enzo Life Sciences, Inc.Inventors: Elazar Rabbani, Jannis G. Stavrianopoulos, James J. Donegan, Jack Coleman
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Patent number: 9688980Abstract: The present invention relates to a method for synthesising templated molecules. In one aspect of the invention, the templated molecules are linked to the template which templated the synthesis thereof. The intion allows the generation of libraries which can be screened for e.g. therapeutic activity.Type: GrantFiled: December 16, 2014Date of Patent: June 27, 2017Assignee: NUEVOLUTIONInventors: Henrik Pedersen, Alex Haahr Gouliaev, Thomas Franch, Christian Klarner Sams, Eva Kampmann Olsen, Frank Abilgaard Slok, Gitte Nystrup Husemoen, Jakob Felding, Lene Hyldtoft, Mads Norregaard-Madsen, Michael Anders Godskesen, Sanne Schroder Glad, Thomas Thisted, Per-Ola Freskgard, Anette Holtmann
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Patent number: 9637799Abstract: The disclosure provides for methods, compositions, and kits for multiplex nucleic acid analysis of single cells. The methods, compositions and systems may be used for massively parallel single cell sequencing. The methods, compositions and systems may be used to analyze thousands of cells concurrently. The thousands of cells may comprise a mixed population of cells (e.g., cells of different types or subtypes, different sizes).Type: GrantFiled: October 1, 2015Date of Patent: May 2, 2017Assignee: Cellular Research, Inc.Inventors: Christina Fan, Stephen P. A. Fodor, Glenn Fu, Geoffrey Richard Facer, Julie Wilhelmy
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Patent number: 9409174Abstract: Microfluidic system, including methods and apparatus, for processing fluid, such as by droplet generation. In some embodiments, the system may include a well and a channel component attached to the well. The channel component may include (a) a body, (b) an input tube (a “fluid pickup”) projecting from a bottom surface of the body and having an open bottom end disposed in the input well, (c) a microchannel, and (d) a passage extending through the input tube and the body and connecting the well to the microchannel. The system may be configured to receive a sample-containing fluid in the well and retain the sample-containing fluid below a top end of the passage, until a pressure differential is created that drives at least a portion of the sample-containing fluid from the well via the passage and through the microchannel.Type: GrantFiled: June 23, 2014Date of Patent: August 9, 2016Assignee: Bio-Rad Laboratories, Inc.Inventors: Anthony J. Makarewicz, Jr., Luc Bousse, Stefano Schiaffino
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Patent number: 9410889Abstract: The present disclosure provides apparatus, systems and method for detecting separately and substantially simultaneously light emissions from a plurality of localized light-emitting analytes. A system according to exemplary embodiments of the present disclosure comprises a sample holder having structures formed thereon for spatially separating and constraining a plurality of light-emitting analytes each having a single nucleic acid molecule or a single nucleic acid polymerizing enzyme, a light source configured to illuminate the sample holder, an optical assembly configured to collect and detect separately and substantially simultaneously light emissions associated with the plurality of light emitting analytes. The system may further include a computer system configured to analyze the light emissions to determine the structures or properties of a target nucleic acid molecule associated with each analyte.Type: GrantFiled: June 9, 2006Date of Patent: August 9, 2016Assignee: Applied Biosystem, LLCInventors: Eric S. Nordman, Mark F. Oldham, Timothy Woudenberg
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Patent number: 9297036Abstract: The invention provides a nucleic acid probe for detecting a polynucleotide. The probe contains a region that base-pairs with a polynucleotide to form a duplex and a Tm enhancement domain that increases the stability of the duplex. The Tm enhancement domain may contain a nucleotide clamp and/or a hairpin structure, for example. Also provided is an array of subject nucleic acid probes bound to a surface of the solid support. Methods of using a subject probe to assess polynucleotides, e.g., small RNAs in a sample are provided, as are kits for use in practicing the subject methods.Type: GrantFiled: July 1, 2005Date of Patent: March 29, 2016Assignee: AGILENT TECHNOLOGIES, INCInventor: Hui Wang
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Patent number: 9284609Abstract: Recurrent gene fusions of androgen regulated genes and ETS family member genes in prostate cancer are described. Compositions and methods having utility in prostate cancer diagnosis, research, and therapy are also provided.Type: GrantFiled: May 30, 2012Date of Patent: March 15, 2016Assignees: THE BRIGHAM AND WOMEN'S HOSPITAL, INC., THE REGENTS OF THE UNIVERSITY OF MICHIGANInventors: Scott Tomlins, Daniel Rhodes, Arul Chinnaiyan, Rohit Mehra, Mark A. Rubin, Xiao-Wei Sun, Sven Perner, Charles Lee, Francesca Demichelis
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Patent number: 9200316Abstract: Compositions, methods and related uses are provided relating to cleaving modified DNA. For example, a set of DNA fragments obtainable by enzymatic cleavage of a large DNA is described where at least 50% are similarly sized and have a centrally positioned modified nucleotide. In addition, an enzyme preparation is provided that includes one or more enzymes that recognize a modified nucleotide in a DNA and cleave the DNA at a site that is at a non-random distance from the modified nucleotide. The one or more enzymes are further characterized by an N-terminal conserved domain with greater than 90% amino acid sequence homology to WXD(X)10YXGD. The related uses include creating a methylome, methods of purifying DNA fragments containing a modified nucleotide and diagnostic applications.Type: GrantFiled: January 30, 2014Date of Patent: December 1, 2015Assignee: New England Biolabs, Inc.Inventors: Yu Zheng, Richard J. Roberts
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Patent number: 9175340Abstract: Methods, reagents, compositions, and kits for reactivity-dependent polymerase chain reaction (RD-PCR) and interaction-dependent polymerase chain reaction (ID-PCR) are provided herein. RD-PCR is a technique useful for determining whether a reactive moiety can form a covalent bond to a target reactive moiety, for example, in screening a library of candidate reactive moieties for reactivity with a target reactive moiety, and in identifying an enzyme substrate, for example, in protease substrate profiling. ID-PCR is a technique useful for determining whether a ligand can non-covalently bind to a target molecule, for example, in screening a library of candidate ligands for non-covalent interaction with a target molecule. RD-PCR and ID-PCR are also useful in detecting the presence of an analyte or an environmental condition.Type: GrantFiled: October 13, 2010Date of Patent: November 3, 2015Assignee: President and Fellows of Harvard CollegeInventors: David R. Liu, David Gorin, Adam Kamlet, Lynn M. McGregor, Christoph E. Dumelin