Granted Patent
B2
US 12,359,257 · App. 16/315,609 · Granted Jul 15, 2025
Liver cancer methylation markers and uses thereof
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Abstract
Disclosed herein are methods and kits for identifying a subject as having liver cancer. Also provided herein are methods and kits for determining the prognosis of a subject having liver cancer and for determining the progression of liver cancer in a subject.
Claims (25)
1. A method of treating a liver cancer in a subject,
the method comprising:
(a) obtaining a treated genomic DNA sample derived from a cell-free DNA (cfDNA) sample from the subject, the cfDNA sample wherein the treated genomic DNA sample is suitable for a methylation analysis;
(b) performing a next-generation sequencing technique on the treated genomic DNA;
(c) mapping sequencing reads from the next-generation sequencing technique to a reference genome using a software tool to determine a methylation status of cg10673833;
(d) generating a methylation profile comprising data of the methylation status of cg10673833;
(e) identifying the subject as having the liver cancer by comparing the methylation profile with a control; and
(f) administering to the subject having the liver cancer an effective amount of a therapeutic agent selected from the group consisting of sorafenib tosylate, doxorubicin, fluorouracil, cisplatin, and a combination thereof.
2. The method of claim 1 , wherein the cfDNA sample is derived from a blood sample.
3. The method of claim 1 , wherein the methylation status is a methylation rate.
4. The method of claim 3 , wherein the methylation rate is a proportion of sequence reads showing methylation at cg10673833 divided by the total number of reads covering cg10673833.
5. The method of claim 1 , wherein the liver cancer is a relapsed or refractory liver cancer.
6. The method of claim 1 , wherein the liver cancer is a metastatic liver cancer.
7. The method of claim 1 , where the liver cancer is hepatocellular carcinoma (HCC), fibrolamellar HCC, cholangiocarcinoma, angiosarcoma, or hepatoblastoma.
8. The method of claim 1 , further comprising extracting genomic DNA from the cfDNA sample to obtain an extracted genomic DNA.
9. The method of claim 8 , further comprising treating the extracted genomic DNA to generate the treated genomic DNA, wherein the treated genomic DNA is suitable for use in a methylation analysis procedure for detecting the methylation status.
10. The method of claim 9 , wherein the treating of the extracted genomic DNA comprises processing the extracted genomic DNA with a deaminating agent.
11. The method of claim 1 , wherein the next-generation sequencing technique is a digital PCR sequencing method.
12. The method of claim 1 , further comprising processing an extracted genomic DNA from the biological sample to convert unmethylated cytosines to uracil.
13. The method of claim 1 , wherein the methylation profile further comprises data of the methylation status of one or more of cg07360250, cg08550839, cg13499300, ch.7.135065R, or cg14054357.
14. The method of claim 13 , wherein the methylation profile further comprises data of the methylation status of cg07360250.
15. The method of claim 13 , wherein the methylation profile further comprises data of the methylation status of cg08550839.
16. The method of claim 13 , wherein the methylation profile further comprises data of the methylation status of cg13499300.
17. The method of claim 13 , wherein the methylation profile further comprises data of the methylation status of ch.7.135065R.
18. The method of claim 13 , wherein the methylation profile further comprises data of the methylation status of cg14054357.
Assignments (4)
ASSIGNMENT OF ASSIGNOR'S INTEREST
Recorded Oct 15, 2024
From: YOUHEALTH ONCOTECH, LIMITED
To: HELIO HEALTH INC.
Reel/Frame 068906/0059 →
ASSIGNMENT OF ASSIGNOR'S INTEREST
Recorded Dec 20, 2023
From: HOU, RUI; ZHENG, LIANGHONG
To: YOUHEALTH BIOTECH, LIMITED
Reel/Frame 065920/0888 →
ASSIGNMENT OF ASSIGNOR'S INTEREST
Recorded Dec 20, 2023
From: ZHANG, KANG
To: THE REGENTS OF THE UNIVERSITY OF CALIFORNIA
Reel/Frame 065920/0960 →
ASSIGNMENT OF ASSIGNOR'S INTEREST
Recorded Dec 20, 2023
From: YOUHEALTH BIOTECH, LIMITED
To: YOUHEALTH ONCOTECH, LIMITED
Reel/Frame 066127/0030 →
Continuity (2)
Provisional Application
62358780
· Jul 6, 2016
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