HRP20240189T1 - Postupak i komplet za utvrđivanje odumiranja stanica ili tkiva ili tkivnog ili staničnog podrijetla dnk-a analizom metilacije dnk-a - Google Patents
Postupak i komplet za utvrđivanje odumiranja stanica ili tkiva ili tkivnog ili staničnog podrijetla dnk-a analizom metilacije dnk-a Download PDFInfo
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- HRP20240189T1 HRP20240189T1 HRP20240189TT HRP20240189T HRP20240189T1 HR P20240189 T1 HRP20240189 T1 HR P20240189T1 HR P20240189T T HRP20240189T T HR P20240189TT HR P20240189 T HRP20240189 T HR P20240189T HR P20240189 T1 HRP20240189 T1 HR P20240189T1
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- 238000000034 method Methods 0.000 title claims 11
- 230000007067 DNA methylation Effects 0.000 title 1
- 210000004027 cell Anatomy 0.000 claims 20
- 210000001519 tissue Anatomy 0.000 claims 20
- 230000011987 methylation Effects 0.000 claims 13
- 238000007069 methylation reaction Methods 0.000 claims 13
- 108091092356 cellular DNA Proteins 0.000 claims 11
- 108020004414 DNA Proteins 0.000 claims 8
- 108091028043 Nucleic acid sequence Proteins 0.000 claims 4
- 108091034117 Oligonucleotide Proteins 0.000 claims 4
- 102000053602 DNA Human genes 0.000 claims 3
- 239000008280 blood Substances 0.000 claims 3
- 210000004369 blood Anatomy 0.000 claims 3
- 239000002773 nucleotide Substances 0.000 claims 3
- 125000003729 nucleotide group Chemical group 0.000 claims 3
- JLCPHMBAVCMARE-UHFFFAOYSA-N [3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-[[3-[[3-[[3-[[3-[[3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-[[5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxyoxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(5-methyl-2,4-dioxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(6-aminopurin-9-yl)oxolan-2-yl]methoxy-hydroxyphosphoryl]oxy-5-(4-amino-2-oxopyrimidin-1-yl)oxolan-2-yl]methyl [5-(6-aminopurin-9-yl)-2-(hydroxymethyl)oxolan-3-yl] hydrogen phosphate Polymers Cc1cn(C2CC(OP(O)(=O)OCC3OC(CC3OP(O)(=O)OCC3OC(CC3O)n3cnc4c3nc(N)[nH]c4=O)n3cnc4c3nc(N)[nH]c4=O)C(COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3COP(O)(=O)OC3CC(OC3CO)n3cnc4c(N)ncnc34)n3ccc(N)nc3=O)n3cnc4c(N)ncnc34)n3ccc(N)nc3=O)n3ccc(N)nc3=O)n3ccc(N)nc3=O)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cc(C)c(=O)[nH]c3=O)n3cc(C)c(=O)[nH]c3=O)n3ccc(N)nc3=O)n3cc(C)c(=O)[nH]c3=O)n3cnc4c3nc(N)[nH]c4=O)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)n3cnc4c(N)ncnc34)O2)c(=O)[nH]c1=O JLCPHMBAVCMARE-UHFFFAOYSA-N 0.000 claims 2
- 210000001124 body fluid Anatomy 0.000 claims 2
- 239000010839 body fluid Substances 0.000 claims 2
- 210000000481 breast Anatomy 0.000 claims 2
- 210000001072 colon Anatomy 0.000 claims 2
- 210000002027 skeletal muscle Anatomy 0.000 claims 2
- 210000001685 thyroid gland Anatomy 0.000 claims 2
- 210000002237 B-cell of pancreatic islet Anatomy 0.000 claims 1
- LSNNMFCWUKXFEE-UHFFFAOYSA-M Bisulfite Chemical compound OS([O-])=O LSNNMFCWUKXFEE-UHFFFAOYSA-M 0.000 claims 1
- 210000001789 adipocyte Anatomy 0.000 claims 1
- 210000000577 adipose tissue Anatomy 0.000 claims 1
- 230000003321 amplification Effects 0.000 claims 1
- 210000004958 brain cell Anatomy 0.000 claims 1
- 210000005013 brain tissue Anatomy 0.000 claims 1
- 210000004413 cardiac myocyte Anatomy 0.000 claims 1
- 210000001175 cerebrospinal fluid Anatomy 0.000 claims 1
- 238000006243 chemical reaction Methods 0.000 claims 1
- 230000001419 dependent effect Effects 0.000 claims 1
- 210000002907 exocrine cell Anatomy 0.000 claims 1
- 210000005003 heart tissue Anatomy 0.000 claims 1
- 210000003494 hepatocyte Anatomy 0.000 claims 1
- 210000005260 human cell Anatomy 0.000 claims 1
- 210000003292 kidney cell Anatomy 0.000 claims 1
- 210000005228 liver tissue Anatomy 0.000 claims 1
- 210000004072 lung Anatomy 0.000 claims 1
- 210000005265 lung cell Anatomy 0.000 claims 1
- 210000004080 milk Anatomy 0.000 claims 1
- 239000008267 milk Substances 0.000 claims 1
- 235000013336 milk Nutrition 0.000 claims 1
- 238000003199 nucleic acid amplification method Methods 0.000 claims 1
- 150000007523 nucleic acids Chemical group 0.000 claims 1
- 210000004923 pancreatic tissue Anatomy 0.000 claims 1
- 210000002307 prostate Anatomy 0.000 claims 1
- 210000005267 prostate cell Anatomy 0.000 claims 1
- 210000005084 renal tissue Anatomy 0.000 claims 1
- 210000003296 saliva Anatomy 0.000 claims 1
- 238000012163 sequencing technique Methods 0.000 claims 1
- 210000002700 urine Anatomy 0.000 claims 1
Classifications
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6881—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for tissue or cell typing, e.g. human leukocyte antigen [HLA] probes
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
- C12Q1/6886—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2600/00—Oligonucleotides characterized by their use
- C12Q2600/154—Methylation markers
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- Chemical & Material Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Health & Medical Sciences (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Organic Chemistry (AREA)
- Analytical Chemistry (AREA)
- Zoology (AREA)
- Engineering & Computer Science (AREA)
- Wood Science & Technology (AREA)
- Immunology (AREA)
- Genetics & Genomics (AREA)
- Pathology (AREA)
- Molecular Biology (AREA)
- General Health & Medical Sciences (AREA)
- Biotechnology (AREA)
- Biophysics (AREA)
- Biochemistry (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- Microbiology (AREA)
- Physics & Mathematics (AREA)
- Hospice & Palliative Care (AREA)
- Oncology (AREA)
- Cell Biology (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
- Apparatus Associated With Microorganisms And Enzymes (AREA)
- Investigating Or Analysing Biological Materials (AREA)
Claims (9)
1. Postupak otkrivanja odumiranja određene vrste stanice ili tkiva u ispitanika koji sadrži određivanje potječe li nestanična DNK sadržana u uzorku krvi ispitanika od te vrste stanice ili tkiva, pri čemu na navedeno određivanje utječe utvrđivanje statusa metilacije najmanje četiriju mjesta metilacije na kontinuiranoj sekvenci na istoj molekuli nestanične DNK, pri čemu navedena sekvenca ne sadrži više od 300 nukleotida, pri čemu status metilacije svakog od navedenih barem četiriju mjesta metilacije na navedenoj kontinuiranoj sekvenci navedene iste molekule DNK-a karakteristične za navedenu vrstu stanice ili tkiva ukazuje na odumiranje te vrste stanice ili tkiva.
2. Postupak određivanja potječe li DNK iz vrste stanice ili tkiva koji se promatraju u uzorku, pri čemu postupak sadrži:
utvrđivanje statusa metilacije najmanje četiriju mjesta metilacije na kontinuiranoj sekvenci na istoj molekuli DNK-a, pri čemu navedena sekvenca ne sadrži više od 300 nukleotida, pri čemu status metilacije svakog od navedenih barem četiriju mjesta metilacije na navedenoj kontinuiranoj sekvenci iste molekule DNK-a ukazuje na to da DNK potječe od vrste stanice ili tkiva koji se promatraju.
3. Postupak prema zahtjevu 1 ili 2, pri čemu
a. navedeni status metilacije karakterističan je za zdravu vrstu stanice ili tkivo koji se promatraju;
b. navedena sekvenca sadrži između 50 i 250 nukleotida;
c. navedena vrsta stanice ili tkivo ljudska je vrsta stanice ili ljudsko tkivo;
d. navedena vrsta stanice odabrana je iz skupine koja se sastoji od beta stanice gušterače, egzokrine stanice gušterače, hepatocita, moždane stanice, plućne stanice, stanice maternice, bubrežne stanice, stanice dojke, adipocita, stanice debelog crijeva, stanice rektuma, kardiomiocita, stanice skeletnih mišića, stanice prostate i stanice štitnjače; ili
e. navedeno tkivo odabrano je iz skupine koja se sastoji od tkiva gušterače, tkiva jetre, tkiva pluća, moždanog tkiva, tkiva maternice, bubrežnog tkiva, tkiva dojke, masnog tkiva, tkiva debelog crijeva, tkiva rektuma, srčanog tkiva, tkiva skeletnih mišića, tkiva prostate i tkiva štitnjače.
4. Postupak prema zahtjevu 2, pri čemu je navedena DNK nestanična DNK ili stanična DNK.
5. Postupak prema zahtjevu 2, pri čemu uzorak sadrži tjelesnu tekućinu ili se radi o uzorku krvi.
6. Postupak prema zahtjevu 5, pri čemu je navedena tjelesna tekućina odabrana iz skupine koja se sastoji od krvi, plazme, sperme, mlijeka, mokraće, sline i cerebrospinalne tekućine.
7. Postupak prema zahtjevu 1 – 2, 4 i 5, pri čemu na navedeno utvrđivanje ili određivanje utječe:
a. uporaba barem jednog oligonukleotida ovisnog o metilaciji;
b. uporaba oligonukleotida neovisnog o metilaciji;
c. uporaba barem dvaju oligonukleotida neovisnih o metilaciji;
d. uporaba višestruke reakcije; ili
e. sljedeće:
(i) izlaganje DNK-a u uzorku bisulfitu da bi se demetilirani citozini iz DNK-a konvertirali u uracile;
(ii) klonska amplifikacija navedene kontinuirane sekvence DNK-a s pomoću oligonukleotida koji hibridiziraju u sekvencu nukleinske kiseline koja je spojena s prvim i zadnjim od navedenih barem četiriju mjesta metilacije na navedenoj kontinuiranoj sekvenci DNK-a; i
(iii) sekvenciranje navedene klonski amplificirane kontinuirane sekvence DNK-a.
8. Postupak prema zahtjevu 1 ili 4, pri čemu uzorak sadrži nestaničnu DNK koja potječe iz druge stanice koja nije identična navedenoj vrsti stanice ili tkivu.
9. Postupak prema zahtjevu 8, koji nadalje sadrži analiziranje količine nestanične DNK koja potječe iz navedene vrste stanice ili tkiva, odnosno količine nestanične DNK koja potječe iz navedene druge stanice, ili analiziranje količine nestanične DNK koja potječe iz navedene vrste stanice ili tkiva, odnosno ukupne količine nestanične DNK u uzorku; ili sadrži analiziranje količine nestanične DNK koja potječe iz navedene vrste stanice ili tkiva, odnosno ukupne količine nestanične DNK u uzorku.
Applications Claiming Priority (2)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US201461979233P | 2014-04-14 | 2014-04-14 | |
| EP22158931.0A EP4026917B1 (en) | 2014-04-14 | 2015-04-14 | A method and kit for determining the death of cells or tissue or the tissue or cell origin of dna by dna methylation analysis |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| HRP20240189T1 true HRP20240189T1 (hr) | 2024-04-26 |
Family
ID=53051869
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| HRP20240189TT HRP20240189T1 (hr) | 2014-04-14 | 2015-04-14 | Postupak i komplet za utvrđivanje odumiranja stanica ili tkiva ili tkivnog ili staničnog podrijetla dnk-a analizom metilacije dnk-a |
Country Status (14)
| Country | Link |
|---|---|
| US (3) | US11203784B2 (hr) |
| EP (4) | EP3132055A2 (hr) |
| JP (1) | JP6750879B2 (hr) |
| CN (1) | CN106574296B (hr) |
| DK (2) | DK3643795T3 (hr) |
| ES (1) | ES2974838T3 (hr) |
| FI (1) | FI4026917T3 (hr) |
| HR (1) | HRP20240189T1 (hr) |
| IL (1) | IL248299B (hr) |
| LT (1) | LT4026917T (hr) |
| PL (1) | PL4026917T3 (hr) |
| PT (1) | PT4026917T (hr) |
| SI (1) | SI4026917T1 (hr) |
| WO (2) | WO2015159293A2 (hr) |
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| Publication number | Priority date | Publication date | Assignee | Title |
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| US11913065B2 (en) | 2012-09-04 | 2024-02-27 | Guardent Health, Inc. | Systems and methods to detect rare mutations and copy number variation |
| US10876152B2 (en) | 2012-09-04 | 2020-12-29 | Guardant Health, Inc. | Systems and methods to detect rare mutations and copy number variation |
| EP2893040B1 (en) | 2012-09-04 | 2019-01-02 | Guardant Health, Inc. | Methods to detect rare mutations and copy number variation |
| US20160040229A1 (en) | 2013-08-16 | 2016-02-11 | Guardant Health, Inc. | Systems and methods to detect rare mutations and copy number variation |
| JP6571665B2 (ja) | 2013-12-28 | 2019-09-04 | ガーダント ヘルス， インコーポレイテッド | 遺伝的バリアントを検出するための方法およびシステム |
| CN106574296B (zh) | 2014-04-14 | 2021-03-02 | 耶路撒冷希伯来大学伊森姆研究发展公司 | 用于测定dna的组织或细胞来源的方法和试剂盒 |
| TW202409295A (zh) | 2014-07-18 | 2024-03-01 | 香港中文大學 | Dna混合物中之組織甲基化模式分析 |
| HUE059407T2 (hu) | 2015-07-20 | 2022-11-28 | Univ Hong Kong Chinese | Szövetekben lévõ haplotípusok metilációs mintázatelemzése DNS-keverékekben |
| WO2017106768A1 (en) | 2015-12-17 | 2017-06-22 | Guardant Health, Inc. | Methods to determine tumor gene copy number by analysis of cell-free dna |
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| WO2017201606A1 (en) * | 2016-05-04 | 2017-11-30 | Queen's University At Kingston | Cell-free detection of methylated tumour dna |
| CN109196120B (zh) | 2016-05-30 | 2022-08-02 | 香港中文大学 | 使用血液中的无细胞dna检测血液病症 |
| US11499196B2 (en) | 2016-06-07 | 2022-11-15 | The Regents Of The University Of California | Cell-free DNA methylation patterns for disease and condition analysis |
| WO2018035340A1 (en) | 2016-08-17 | 2018-02-22 | The Regents Of The University Of California | A novel immunoprobe-based method to assess organ injury status through a biofluid-based cell-free dna (cfdna) assay |
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| CA3051509A1 (en) | 2017-01-25 | 2018-08-02 | The Chinese University Of Hong Kong | Diagnostic applications using nucleic acid fragments |
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| WO2015159292A2 (en) | 2015-10-22 |
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