Patents by Inventor Yohei Kirino

Yohei Kirino 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).

  • TRNA FRAGMENTS AND METHODS OF USE
    Publication number: 20230416758
    Abstract: The present invention provides fragments of tRNA molecules and methods of use thereof to modulate toll like receptor (TLR) signaling, for immunotherapy and for other therapeutic applications.
    Type: Application
    Filed: November 23, 2021
    Publication date: December 28, 2023
    Inventors: Yohei Kirino, Kamlesh Ganesh Pawar
  • Dumbbell PCR: A Method To Quantify Specific Small RNA Variants With A Single Nucleotide Resolution At Terminal Sequences
    Publication number: 20230220457
    Abstract: A method for specifically and efficiently quantifying the expression of targeted RNA variants with specific terminal sequences suitable to identify multiple isoforms bearing complex heterogeneity in terminal sequences by hybridizing a 5?-Dbs-adapter to the 5?-end of target RNAs, wherein the 5?-Dbs-adapter has a stem-loop structure whose protruding 5?-end base-pairs with the 5?-end of target RNAs, and wherein the loop region of 5?-Dbs-adapter contains a base-lacking spacer which will terminate reverse transcription in a subsequent step; hybridizing a 3?db-adapter to the 3?-end of target RNAs, wherein the 3?-db-adapter has a stem-loop structure whose protruding 3?-end base-pairs with the 3?-end of target RNAs; ligating both adapters with target RNAs by RN12 ligation to form a “dumbbell-like” structure; and, amplifying and quantifying the ligation product by RT-PCR.
    Type: Application
    Filed: November 10, 2022
    Publication date: July 13, 2023
    Applicant: Thomas Jefferson University
    Inventors: Yohei KIRINO, Shozo HONDA
  • Dumbbell-PCR: a method to quantify specific small RNA variants with a single nucleotide resolution at terminal sequences
    Patent number: 11535888
    Abstract: A method for specifically and efficiently quantifying the expression of targeted RNA variants with specific terminal sequences suitable to identify multiple isoforms bearing complex heterogeneity in terminal sequences by hybridizing a 5?-Dbs-adapter to the 5?-end of target RNAs, wherein the 5?-Dbs-adapter has a stem-loop structure whose protruding 5?-end base-pairs with the 5?-end of target RNAs, and wherein the loop region of 5?-Dbs-adapter contains a base-lacking spacer which will terminate reverse transcription in a subsequent step; hybridizing a 3?Db-adapter to the 3?-end of target RNAs, wherein the 3?-Db-adapter has a stem-loop structure whose protruding 3?-end base-pairs with the 3?-end of target RNAs; ligating both adapters with target RNAs by RN12 ligation to form a “dumbbell-like” structure; and, amplifying and quantifying the ligation product by RT-PCR.
    Type: Grant
    Filed: August 22, 2016
    Date of Patent: December 27, 2022
    Assignee: THOMAS JEFFERSON UNIVERSITY
    Inventors: Yohei Kirino, Shozo Honda
  • SPECIFIC EXPRESSION OF HALF-TRNA IN CANCERS
    Publication number: 20210355548
    Abstract: The present invention relates to systems, devices and methods for diagnosing cancer. In various embodiments, the present invention provides a method for performing sequencing of 5?-htRNA in an RNA sample including obtaining a DNA library of 5?-htRNA and sequencing the DNA library of 5?-htRNAs in the RNA sample. The invention also teaches a method for quantifying 5?-htRNA half molecules in an RNA sample including (a) treating an RNA sample containing 5?-htRNAs half molecules having a 3? cyclic phosphate with a T4 polynucleotide kinase to form 3?-dephosphrylated 5?-tRNA halves, (b) 3?-AD ligating the 3?-dephosphrylated 5?-tRNA halves to form ligated RNA products, and (c) quantifying the ligated RNA products by RT-qPCR using a plurality of target primers and probes configured to simultaneously quantify at least two cP-containing 5?-tRNA half species. The treating of step (a) is simultaneously performed as one step in a single tube with the 3?-AD ligating of step (b).
    Type: Application
    Filed: May 6, 2021
    Publication date: November 18, 2021
    Applicant: Thomas Jefferson University
    Inventors: Yohei Kirino, Shozo Honda, Megumi Shigematsu
  • Specific expression of half-tRNA in cancers
    Patent number: 11001897
    Abstract: The present invention relates to systems, devices and methods for diagnosing cancer. In various embodiments, the present invention provides a method for quantifying a 5?-htRNA; a method for quantifying a 3?-htRNA; a method for obtaining a DNA library of 5?-htRNAs and a DNA library of 5?-htRNAs obtained therefrom; and a method for obtaining a DNA library of 3?-htRNAs and a DNA library of 3?-htRNAs obtained therefrom. The invention also teaches a method for determining the presence or absence of a cancer cell in a biological sample; a method of diagnosing cancer in a subject; and a method of prognosing cancer in a subject.
    Type: Grant
    Filed: February 26, 2020
    Date of Patent: May 11, 2021
    Assignee: Thomas Jefferson University
    Inventors: Yohei Kirino, Shozo Honda
  • Four-leaf clover qRT-PCR: an efficient and convenient method for selective quantification of mature tRNA
    Patent number: 10844427
    Abstract: A method for quantifying individual mature tRNA species, comprising: incubating mature tRNA in a buffer to remove the amino acids from the 3? end; annealing a DNA/RNA stem-loop adapter; ligating the annealed hybrid stem-loop adapter to the mature tRNA; and amplifying and quantifying the ligation product by TaqMan qRT-PCR.
    Type: Grant
    Filed: May 2, 2016
    Date of Patent: November 24, 2020
    Assignee: Thomas Jefferson University
    Inventors: Yohei Kirino, Shozo Honda
  • SPECIFIC EXPRESSION OF HALF-TRNA IN CANCERS
    Publication number: 20200190604
    Abstract: The present invention relates to systems, devices and methods for diagnosing cancer. In various embodiments, the present invention provides a method for quantifying a 5?-htRNA; a method for quantifying a 3?-htRNA; a method for obtaining a DNA library of 5?-htRNAs and a DNA library of 5?-htRNAs obtained therefrom; and a method for obtaining a DNA library of 3?-htRNAs and a DNA library of 3?-htRNAs obtained therefrom. The invention also teaches a method for determining the presence or absence of a cancer cell in a biological sample; a method of diagnosing cancer in a subject; and a method of prognosing cancer in a subject.
    Type: Application
    Filed: February 26, 2020
    Publication date: June 18, 2020
    Applicant: Thomas Jefferson University
    Inventors: Yohei Kirino, Shozo Honda
  • Specific expression of half-tRNA in cancers
    Patent number: 10662480
    Abstract: The present invention relates to systems, devices and methods for diagnosing cancer. In various embodiments, the present invention provides a method for quantifying a 5?-htRNA; a method for quantifying a 3?-htRNA; a method for obtaining a DNA library of 5?-htRNAs and a DNA library of 5?-htRNAs obtained therefrom; and a method for obtaining a DNA library of 3?-htRNAs and a DNA library of 3?-htRNAs obtained therefrom. The invention also teaches a method for determining the presence or absence of a cancer cell in a biological sample; a method of diagnosing cancer in a subject; and a method of prognosing cancer in a subject.
    Type: Grant
    Filed: February 4, 2015
    Date of Patent: May 26, 2020
    Assignee: Thomas Jefferson University
    Inventors: Yohei Kirino, Shozo Honda
  • FOUR-LEAF CLOVER QRT-PCR: AN EFFICIENT AND CONVENIENT METHOD FOR SELECTIVE QUANTIFICATION OF MATURE TRNA
    Publication number: 20190032111
    Abstract: A method for quantifying individual mature tRNA species, comprising: incubating mature tRNA in a buffer to remove the amino acids from the 3? end; annealing a DNA/RNA stem-loop adapter; ligating the annealed hybrid stem-loop adapter to the mature tRNA; and amplifying and quantifying the ligation product by TaqMan qRT-PCR.
    Type: Application
    Filed: May 2, 2016
    Publication date: January 31, 2019
    Applicant: THOMAS JEFFERSON UNIVERSITY
    Inventors: Yohei KIRINO, Shozo HONDA
  • DUMBBELL- PCR: A METHOD TO QUANTIFY SPECIFIC SMALL RNA VARIANTS WITH A SINGLE NUCLEOTIDE RESOLUTION AT TERMINAL SEQUENCES
    Publication number: 20180251830
    Abstract: A method for specifically and efficiently quantify the expression of targeted RNA variants with specific terminal sequences suitable to identify multiple isoforms bearing complex heterogeneity in terminal sequences by hybridizing a 5?-Dbs-adapter to the 5?-end of target RNAs, wherein the 5?-Dbs-adapter has a stem-loop structure whose protruding 5?-end base-pairs 5?-end of target RNAs, and wherein the loop region of 5?-Dbs-adapter contains a base-lacking spacer which will terminate reverse transcription in a subsequent step; hybridizing a 3?-Db-adapter to the 3?-end of target RNAs, wherein the 3?-Db-adapter has a stem-loop structure whose protruding 3?-end base-pairs 3?-end of target RNAs; ligating the both adapters with target RNAs by Rnl2 ligation to form “dumbbell-like” structure; and, amplifying and quantifying the ligation product by TaqMan RT-PCR.
    Type: Application
    Filed: August 22, 2016
    Publication date: September 6, 2018
    Applicant: THOMAS JEFFERSON UNIVERSITY
    Inventors: Yohei KIRINO, Shozo HONDA
  • SPECIFIC EXPRESSION OF HALF-TRNA IN CANCERS
    Publication number: 20170314076
    Abstract: The present invention relates to systems, devices and methods for diagnosing cancer. In various embodiments, the present invention provides a method for quantifying a 5?-htRNA; a method for quantifying a 3?-htRNA; a method for obtaining a DNA library of 5?-htRNAs and a DNA library of 5?-htRNAs obtained therefrom; and a method for obtaining a DNA library of 3?-htRNAs and a DNA library of 3?-htRNAs obtained therefrom. The invention also teaches a method for determining the presence or absence of a cancer cell in a biological sample; a method of diagnosing cancer in a subject; and a method of prognosing cancer in a subject.
    Type: Application
    Filed: February 4, 2015
    Publication date: November 2, 2017
    Applicant: THOMAS JEFFERSON UNIVERSITY
    Inventors: Yohei Kirino, Shozo Honda