Patents Examined by Ethan C. Whisenant
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Patent number: 11970746Abstract: A method of processing a fecal sample from a human subject comprising combining a first portion of a collected fecal sample with a stabilizing buffer, combining a second portion of the sample with a solution that prevents denaturation or degradation of blood proteins found in a fecal sample. Embodiments comprise testing nucleic acid extracted from the first portion of the fecal sample for an amount of a human nucleic acid, and testing the second portion of the fecal sample for the presence of human blood.Type: GrantFiled: March 7, 2023Date of Patent: April 30, 2024Assignee: Exact Sciences CorporationInventor: Joost Louwagie
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Patent number: 11959125Abstract: Disclosed herein are methods of extracting genetic material from a diverse population of one or more types of microbes in a sample. Microbes can be prokaryotes or eukaryotes and may include bacteria, archaea, fungi, protozoa, helminths, parasites, viruses, phages, and others. Extraction may be from a single sample and subsequent identification may be through a molecular method such as qPCR, PCR, RFLP, SSCP, allele specific PCR, targeted sequencing, pull down sequencing, whole shotgun sequencing, or other methods. Also provided are methods that include extracting nucleic acid molecules from a variety of organisms such as fungi (i.e., Saccharomyces spp.), animal cells (Bos taurus), plants (e.g., Hordeum vulgare) from the gut of a human subject, performing a metagenomics analysis therefrom, and determining a probiotic treatment or dietary guidance for the subject based on the metagenomics analysis.Type: GrantFiled: April 2, 2019Date of Patent: April 16, 2024Assignee: Sun Genomics, Inc.Inventor: Suneer Jain
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Patent number: 11959130Abstract: Provided herein are methods of detecting an analyte of interest to interrogate spatial gene expression in a sample.Type: GrantFiled: March 7, 2023Date of Patent: April 16, 2024Assignee: 10x Genomics, Inc.Inventors: Christina Galonska, Marco Mignardi
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Patent number: 11946095Abstract: Disclosed herein are methods, compositions, and kits for barcoding nucleic acids. For example, particles for barcoding are provided, where the particle comprises: a first plurality of oligonucleotide barcodes each comprising a target-binding region, and a second plurality of oligonucleotides each comprising a target-specific target-binding region.Type: GrantFiled: December 18, 2018Date of Patent: April 2, 2024Assignee: Becton, Dickinson and CompanyInventors: Gretchen Yinbon Lam, Eleen Shum
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Patent number: 11927591Abstract: The present invention provides methods of identifying neopeptides in abnormal cells, with the methods comprising sequencing long-read messenger RNA (mRNA) isolated from the abnormal cells, identifying splice variants that could be generated from the sequenced long-read mRNA, determining if the abnormal cells contain neopeptides that correlate with the identified splice variants. The methods may also comprise identifying at least one neoantigen on the neopeptides that are present in the abnormal cells.Type: GrantFiled: August 2, 2017Date of Patent: March 12, 2024Assignee: Georgetown UniversityInventor: Anton Wellstein
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Patent number: 11926876Abstract: Embodiments of the present invention relate to a combination of experimental and computational workflows that allow characterization of skin and subcutaneous tissue microbial flora and its associated metabolome, aiming to first evaluate an individual's skin and subcutaneous tissue to determine if any skin condition is as a result of an imbalance or absence of commensal or mutualistic microorganisms or their associated metabolites. In particular, embodiments of the methods and the associated computational platform provided herein relate to conducting a customized or personalized test and obtaining customized or personalized information regarding the skin and subcutaneous tissue flora and its associated metabolome there from. This may be accomplished by simultaneously identifying hundreds of microorganisms or metabolites on an individual's skin and subcutaneous tissue and comparing the resulting profile to a previously compiled healthy profile from our database of skin profiles.Type: GrantFiled: March 9, 2018Date of Patent: March 12, 2024Assignee: PRODERMIQ, INC.Inventors: Sasan Amini, Dana Hosseini
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Patent number: 11891670Abstract: Disclosed are probes, primers, a microarray, a kit and applications for rapid detection of clinical microorganism in ophthalmology, belonging to that technical field of clinical microorganism detection. The probes of that disclosure comprise probes for respectively detect Staphylococcus epidermidis, Staphylococcus aureus, Staphylococcus haemolyticus, Pseudomonas aeruginosa, Staphylococcus hominis, Serratia marcescens, Escherichia coli, Bacillus subtilis and Enterobacter cloacae. The disclosure also discloses primers for amplifying the target bacteria, which comprises primers which can amplify gene sequence fragments with intra-species homology of more than 95 percent (%) and inter-species homology of less than 75%. The disclosure also provides a method for synthesizing the hybridization probe on the microarray, a method for hybridization reaction and a method for scanning detection.Type: GrantFiled: September 6, 2022Date of Patent: February 6, 2024Assignee: AFFILIATED EYE INSTITUTE OF SHANDONG FIRST MEDICAL UNIVERSITYInventors: Yusen Huang, Bining Zhang, Wenfeng Li, Qing Liu, Zhichao Ren, Huabo Chen
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Patent number: 11891656Abstract: Disclosed herein, inter alia, are compositions and methods of use thereof for interrogating a cell.Type: GrantFiled: June 14, 2022Date of Patent: February 6, 2024Assignee: Singular Genomics Systems, Inc.Inventors: Eli N. Glezer, Hu Cang, Zhenmin Hong
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Patent number: 11884692Abstract: The present invention provides, among other things, methods of purifying messenger RNA (mRNA) including the steps of (a) precipitating mRNA from an impure preparation; (b) subjecting the impure preparation comprising precipitated mRNA to a purification process involving membrane filtration such that the precipitated mRNA is captured by a membrane; and (c) eluting the captured precipitated mRNA from the membrane by re-solubilizing the mRNA, thereby resulting in a purified mRNA solution. In some embodiments, a purification process involving membrane filtration suitable for the present invention is tangential flow filtration.Type: GrantFiled: July 6, 2022Date of Patent: January 30, 2024Assignee: TRANSLATE BIO, INC.Inventors: Frank DeRosa, Anusha Dias, Michael Heartlein, Shrirang Karve
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Patent number: 11873318Abstract: Disclosed is a composition comprising dichloroacetic acid, a process for preparing the same and a use thereof. It has been discovered that the novel impurity is glyoxylic acid, and glyoxylic acid in dichloroacetic acid can be detected and its concentration accurately measured, by ion chromatography method.Type: GrantFiled: July 21, 2022Date of Patent: January 16, 2024Assignees: CHANGZHOU SYNTHEALL PHARMACEUTICALS CO., LTD., SHANGHAI STA PHARMACEUTICAL R&D CO., LTD.Inventors: Hu Cheng, Chenchen Hu, Jiaxin Song, Yang Liu, Tingting Qian, Xianzhe Wang, Jimin Yang
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Patent number: 11859242Abstract: Described herein are genetic recognition reagents comprising terminal aromatic moieties that bind specifically to a template nucleic acid and concatenate. Also provided are methods of using the genetic recognition reagents, e.g., to treat or diagnose a repeat expansion disorder, such as DMI.Type: GrantFiled: December 21, 2018Date of Patent: January 2, 2024Assignee: Carnegie Mellon UniversityInventors: Danith H. Ly, Wei-Che Hsieh, Raman Bahal
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Patent number: 11845991Abstract: A method of processing a fecal sample from a human subject comprising removing a portion of a collected fecal sample and adding the removed portion of the sample to a buffer that prevents denaturation or degradation of blood proteins found in the sample, and detecting the presence of human blood in the removed portion of the fecal sample. The method further comprises stabilizing the remaining portion of the fecal sample.Type: GrantFiled: June 27, 2017Date of Patent: December 19, 2023Assignee: Exact Sciences CorporationInventor: Joost Louwagie
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Patent number: 11820977Abstract: The present invention provides, among other things, methods of purifying messenger RNA (mRNA) including the steps of subjecting an impure preparation comprising in vitro synthesized mRNA to a denaturing condition, and purifying the mRNA from the impure preparation from step (a) by tangential flow filtration, wherein the mRNA purified from step (b) is substantially free of prematurely aborted RNA sequences and/or enzyme reagents used in in vitro synthesis.Type: GrantFiled: June 8, 2022Date of Patent: November 21, 2023Assignee: TRANSLATE BIO, INC.Inventors: Frank DeRosa, Anusha Dias, Michael Heartlein, Shrirang Karve
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Patent number: 11808675Abstract: Reagents and methods for extracting and stabilizing metabolites at room temperature and methods in which metabolites and one or more of proteins, lipids and nucleic acids are extracted from a single sample in a unified workflow.Type: GrantFiled: May 14, 2020Date of Patent: November 7, 2023Assignee: AGILENT TECHNOLOGIES, INC.Inventors: Genevieve Van de Bittner, James Alexander Apffel, Steven M. Fischer, Christine A. Miller, Kristin Briana Bernick
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Patent number: 11795496Abstract: A method of determining responsiveness to therapy for rheumatoid arthritis.Type: GrantFiled: June 24, 2016Date of Patent: October 24, 2023Assignee: Oxford Biodynamics PLCInventors: Aroul Ramadass, Ewan Hunter, Alexandre Akoulitchev
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Patent number: 11795499Abstract: The invention provides methods and compositions for separately denaturing a probe and target in hybridization applications. The invention may, for example, eliminate the use of, or reduce the dependence on formamide in hybridization applications. Compositions for use in the invention include an aqueous composition comprising at least one polar aprotic solvent in an amount effective to denature double-stranded nucleotide sequences.Type: GrantFiled: January 4, 2019Date of Patent: October 24, 2023Assignee: Agilent Technologies, Inc.Inventor: Steen Hauge Matthiesen
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Patent number: 11788149Abstract: Single-stranded oligonucleotide probes, systems, kits and methods for chromosome enumeration, gene copy enumeration, or tissue diagnostics. The probes are particularly suited for detecting gene amplification, deletion, or rearrangement in tissue samples in a single, dual, or multiplexed assay. The probes exhibit improved performance compared to industry leading dual-stranded probes; particularly in terms of the rate of hybridization.Type: GrantFiled: May 20, 2020Date of Patent: October 17, 2023Assignee: Ventana Medical Systems, Inc.Inventors: Michael Farrell, Antony Hubbard, Donald Johnson, Brian Kelly, Taylor Shingler, Lei Tang, Wenjun Zhang
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Patent number: 11782059Abstract: Some embodiments disclosed herein provide a plurality of compositions each comprising a protein binding reagent conjugated with an oligonucleotide. The oligonucleotide comprises a unique identifier for the protein binding reagent it is conjugated with, and the protein binding reagent is capable of specifically binding to a protein target. Further disclosed are methods and kits for quantitative analysis of a plurality of protein targets in a sample and for simultaneous quantitative analysis of protein and nucleic acid targets in a sample. Also disclosed herein are systems and methods for preparing a labeled biomolecule reagent, including a labeled biomolecule agent comprising a protein binding reagent conjugated with an oligonucleotide.Type: GrantFiled: July 1, 2019Date of Patent: October 10, 2023Assignee: Becton, Dickinson and CompanyInventors: Christina Fan, Olaf Zoellner
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Patent number: 11773441Abstract: Disclosed herein include systems, methods, compositions, and kits for sample analysis. Nucleic acid fragments comprising a capture sequence (or a complement thereof) can be generated from double-stranded genomic deoxyribonucleic acid (gDNA), barcoded to generate single-stranded DNA (ssDNA) fragments, and sequenced. Information relating to the gDNA (e.g., genome, chromatin accessibility, methylome) can be determined based on the sequences of the ssDNA fragments in the sequencing data obtained.Type: GrantFiled: May 1, 2019Date of Patent: October 3, 2023Assignee: Becton, Dickinson and CompanyInventors: Christina Fan, Elisabeth Marie Walczak
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Patent number: 11773425Abstract: Provided herein are compositions and methods for the multiplexed profiling of RNA and DNA modifications across transcriptomes and genomes, respectively. The methods combine molecular recognition of non-canonical features (e.g., base modifications, backbone modifications, lesions, and/or structural elements) of a target nucleic acid with a step of writing the information from this recognition event into the neighboring genetic sequence of the target nucleic acid using a barcode. The resultant barcoded nucleic acids are then converted into sequencing libraries and read by DNA/RNA sequencing methods. This step reveals the sequence of the barcode, which is correlated with the non-canonical feature in the target nucleic acid(s). The high throughput profiling methods described herein allow for localization of one or more modifications in a target nucleic acid. The methods also allow for identification of the nature and location of several or all DNA/RNA modifications in parallel.Type: GrantFiled: March 28, 2022Date of Patent: October 3, 2023Assignee: Alida Biosciences Inc.Inventors: Gudrun Stengel, Byron Purse, Yu-Hsien Hwang-Fu, Jerome Santos