公开(公告)号：US10662480B2

公开(公告)日：2020-05-26

申请号：US15116452

申请日：2015-02-04

Applicant: THOMAS JEFFERSON UNIVERSITY

Inventor： Yohei Kirino ,  Shozo Honda

IPC: C12Q1/68 ,  C12Q1/6886 ,  C12Q1/6874

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.

公开(公告)号：US20210355548A1

公开(公告)日：2021-11-18

申请号：US17313524

申请日：2021-05-06

Applicant: Thomas Jefferson University

Inventor： Yohei Kirino ,  Shozo Honda ,  Megumi Shigematsu

IPC: C12Q1/6886 ,  C12Q1/6874

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).

公开(公告)号：US11001897B2

公开(公告)日：2021-05-11

申请号：US16802107

申请日：2020-02-26

Applicant: Thomas Jefferson University

Inventor： Yohei Kirino ,  Shozo Honda

IPC: C12Q1/6886 ,  C12Q1/6874

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.

公开(公告)号：US11535888B2

公开(公告)日：2022-12-27

申请号：US15754194

申请日：2016-08-22

Applicant: THOMAS JEFFERSON UNIVERSITY

Inventor： Yohei Kirino ,  Shozo Honda

IPC: C12Q1/6853 ,  C12Q1/6851 ,  C12Q1/6811

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.

公开(公告)号：US20170314076A1

公开(公告)日：2017-11-02

申请号：US15116452

申请日：2015-02-04

Applicant: THOMAS JEFFERSON UNIVERSITY

Inventor： Yohei Kirino ,  Shozo Honda

IPC: C12Q1/68

CPC classification number: C12Q1/6886 ,  C12Q1/6874 ,  C12Q2600/112 ,  C12Q2600/158 ,  C12Q2600/178

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.