HRP20200764T1 - Metode za kvantifikaciju cirkulirajuće slobodne dnk - Google Patents
Metode za kvantifikaciju cirkulirajuće slobodne dnk Download PDFInfo
- Publication number
- HRP20200764T1 HRP20200764T1 HRP20200764TT HRP20200764T HRP20200764T1 HR P20200764 T1 HRP20200764 T1 HR P20200764T1 HR P20200764T T HRP20200764T T HR P20200764TT HR P20200764 T HRP20200764 T HR P20200764T HR P20200764 T1 HRP20200764 T1 HR P20200764T1
- Authority
- HR
- Croatia
- Prior art keywords
- sample
- patient
- cfdna
- amplification
- length
- Prior art date
Links
- 238000000034 method Methods 0.000 title claims 12
- 239000000523 sample Substances 0.000 claims 9
- 108091093088 Amplicon Proteins 0.000 claims 7
- 108020004414 DNA Proteins 0.000 claims 5
- 230000003321 amplification Effects 0.000 claims 5
- 238000003199 nucleic acid amplification method Methods 0.000 claims 5
- 238000007847 digital PCR Methods 0.000 claims 3
- 206010028980 Neoplasm Diseases 0.000 claims 2
- 210000004369 blood Anatomy 0.000 claims 2
- 239000008280 blood Substances 0.000 claims 2
- 201000011510 cancer Diseases 0.000 claims 2
- 238000004519 manufacturing process Methods 0.000 claims 2
- 210000002381 plasma Anatomy 0.000 claims 2
- 210000002966 serum Anatomy 0.000 claims 2
- 238000000605 extraction Methods 0.000 claims 1
- 210000003754 fetus Anatomy 0.000 claims 1
- 239000002773 nucleotide Substances 0.000 claims 1
- 125000003729 nucleotide group Chemical group 0.000 claims 1
- 239000013610 patient sample Substances 0.000 claims 1
- 230000008685 targeting Effects 0.000 claims 1
- 238000002054 transplantation Methods 0.000 claims 1
Classifications
-
- 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
- C12Q1/6844—Nucleic acid amplification reactions
- C12Q1/686—Polymerase chain reaction [PCR]
Landscapes
- Chemical & Material Sciences (AREA)
- Organic Chemistry (AREA)
- Life Sciences & Earth Sciences (AREA)
- Health & Medical Sciences (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Engineering & Computer Science (AREA)
- Chemical Kinetics & Catalysis (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Molecular Biology (AREA)
- Immunology (AREA)
- Microbiology (AREA)
- Biotechnology (AREA)
- Biochemistry (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- General Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Analytical Chemistry (AREA)
- Biophysics (AREA)
- Physics & Mathematics (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
Claims (10)
1. Metoda za kvantifikaciju kimerne cfDNK u uzorku pacijenta, pri čemu se metoda sastoji od:
(a) dobivanja uzorka cirkulirajuće slobodne DNK (cfDNK) iz uzorka krvi, seruma ili plazme dobivenog od pacijenta;
(b) provođenja multipleks digitalnog PCR-a koji se sastoji najmanje od prve amplifikacije i druge amplifikacije, naznačeno time, što prva amplifikacija cilja prvi genomski lokus jedinstvene kopije i dovodi do proizvodnje prvog amplikona, a druga amplifikacija cilja drugi genomski lokus jedinstvene kopije i dovodi do proizvodnje drugog amplikona, naznačeno time, što se prvi i drugi amplikon razlikuju po dužini za najmanje 50 baznih parova;
(c) utvrđivanja omjera prvog ili drugog amplikona u ukupnom amplificiranom proizvodu dobivenom pomoću digitalnog PCR-a iz koraka (b) radi pružanja faktora korekcije za dio uzorka cfDNK pogodan za amplifikaciju, i
(d) korekcije dijagnostičkog digitalnog PCR-a provedenog na uzorku cfDNK radi procjene razine kimerne DNK prisutne u uzorku primjenom faktora korekcije utvrđenog u koraku (c).
2. Metoda prema patentnom zahtjevu 1, naznačena time, što se korak (b) dodatno sastoji od amplifikacije reakcije koja cilja DNK koja je dodana uzorku krvi, seruma ili plazme prije ekstrakcije.
3. Metoda prema patentnom zahtjevu 1 ili 2, naznačena time, što se prvi i drugi amplikon razlikuju po dužini za 100 ili više nukleotida.
4. Metoda prema bilo kojem patentnom zahtjevu od 1 do 3, naznačena time, što duži od prvog i drugog amplikona ima dužinu od 150 do 400 baznih parova, a kraći od prvog i drugog amplikona ima dužinu od 50 do 150 baznih parova.
5. Metoda prema bilo kojem patentnom zahtjevu od 1 do 4, naznačena time, što je uzorak cfDNK dobiven od pacijenta koji je imao transplantaciju.
6. Metoda prema bilo kojem patentnom zahtjevu od 1 do 4, naznačena time, što je uzorak cfDNK dobiven od pacijenta koji ima rak.
7. Metoda prema bilo kojem patentnom zahtjevu od 1 do 4, naznačena time, što je uzorak cfDNK dobiven od trudne pacijentice.
8. Metoda prema bilo kojem patentnom zahtjevu od 1 do 7, naznačena time, što je pacijent čovjek.
9. Metoda prema bilo kojem patentnom zahtjevu od 1 do 8, naznačena time, što je kimerna DNK dobivena od darivatelja za transplantaciju ili fetusa.
10. Metoda prema bilo kojem patentnom zahtjevu od 1 do 8, naznačena time, što kimerna DNK potječe iz stanica raka.
Applications Claiming Priority (3)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US201462058261P | 2014-10-01 | 2014-10-01 | |
| EP15848055.8A EP3201361B1 (en) | 2014-10-01 | 2015-09-30 | Methods of quantifying cell-free dna |
| PCT/US2015/053304 WO2016054255A1 (en) | 2014-10-01 | 2015-09-30 | Methods of quantifying cell-free dna |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| HRP20200764T1 true HRP20200764T1 (hr) | 2020-07-24 |
Family
ID=55631452
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| HRP20200764TT HRP20200764T1 (hr) | 2014-10-01 | 2020-05-12 | Metode za kvantifikaciju cirkulirajuće slobodne dnk |
Country Status (12)
| Country | Link |
|---|---|
| US (1) | US10570443B2 (hr) |
| EP (1) | EP3201361B1 (hr) |
| CY (1) | CY1122952T1 (hr) |
| DK (1) | DK3201361T3 (hr) |
| ES (1) | ES2791328T3 (hr) |
| HR (1) | HRP20200764T1 (hr) |
| HU (1) | HUE049094T2 (hr) |
| LT (1) | LT3201361T (hr) |
| PL (1) | PL3201361T3 (hr) |
| PT (1) | PT3201361T (hr) |
| SI (1) | SI3201361T1 (hr) |
| WO (1) | WO2016054255A1 (hr) |
Families Citing this family (20)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2016168844A1 (en) | 2015-04-17 | 2016-10-20 | The Translational Genomics Research Institute | Quality assessment of circulating cell-free dna using multiplexed droplet digital pcr |
| WO2017190067A1 (en) | 2016-04-28 | 2017-11-02 | Impact Genomics, Inc. | Methods of assessing and monitoring tumor load |
| US20210277457A1 (en) * | 2016-08-12 | 2021-09-09 | Grail, Inc. | Method for accurate quantification of genomic copies in cell-free dna |
| CN110100013A (zh) | 2016-10-24 | 2019-08-06 | 香港中文大学 | 用于肿瘤检测的方法和系统 |
| CA3051509A1 (en) | 2017-01-25 | 2018-08-02 | The Chinese University Of Hong Kong | Diagnostic applications using nucleic acid fragments |
| US11646100B2 (en) | 2017-08-04 | 2023-05-09 | Billiontoone, Inc. | Target-associated molecules for characterization associated with biological targets |
| ES2923478T3 (es) | 2017-08-04 | 2022-09-27 | Billiontoone Inc | Determinación y análisis de resultados de una secuenciación con moléculas asociadas a una diana en una cuantificación asociada con dianas biológicas |
| US11519024B2 (en) | 2017-08-04 | 2022-12-06 | Billiontoone, Inc. | Homologous genomic regions for characterization associated with biological targets |
| BR112020013636A2 (pt) | 2018-01-05 | 2020-12-01 | Billiontoone, Inc. | método para facilitar o diagnóstico pré-natal de um distúrbio genético a partir de uma amostra materna associada à gestante, método para identificação de contaminação associada a pelo menos um entre preparação de biblioteca de sequenciamento e sequenciamento de alto rendimento e método para caracterização associada a pelo menos um entre preparação de biblioteca de sequenciamento e sequenciamento |
| DE202019005627U1 (de) | 2018-04-02 | 2021-05-31 | Grail, Inc. | Methylierungsmarker und gezielte Methylierungssondenpanels |
| EP3833776A4 (en) | 2018-08-06 | 2022-04-27 | Billiontoone, Inc. | DILUTION MARKER FOR QUANTIFICATION OF BIOLOGICAL TARGETS |
| EP3853373A4 (en) * | 2018-09-17 | 2022-06-22 | The University of North Carolina at Chapel Hill | PROCEDURE FOR QUANTIFICATION OF DNA FRAGMENTS IN A SAMPLE BY SIZE |
| CA3111887A1 (en) | 2018-09-27 | 2020-04-02 | Grail, Inc. | Methylation markers and targeted methylation probe panel |
| WO2020236625A2 (en) * | 2019-05-17 | 2020-11-26 | The Johns Hopkins University | Rapid aneuploidy detection |
| US11475981B2 (en) | 2020-02-18 | 2022-10-18 | Tempus Labs, Inc. | Methods and systems for dynamic variant thresholding in a liquid biopsy assay |
| US11211144B2 (en) | 2020-02-18 | 2021-12-28 | Tempus Labs, Inc. | Methods and systems for refining copy number variation in a liquid biopsy assay |
| US11211147B2 (en) | 2020-02-18 | 2021-12-28 | Tempus Labs, Inc. | Estimation of circulating tumor fraction using off-target reads of targeted-panel sequencing |
| EP4127214A4 (en) * | 2020-03-27 | 2024-05-29 | Chronix Biomedical | METHODS FOR PRECISE AND BIAS-FREE QUANTIFICATION OF CELL-FREE DNA |
| WO2023055824A1 (en) * | 2021-09-29 | 2023-04-06 | Chronix Biomedical | Methods for bias-free quantification of rna |
| AU2023240345A1 (en) | 2022-03-21 | 2024-10-10 | Billion Toone, Inc. | Molecule counting of methylated cell-free dna for treatment monitoring |
Family Cites Families (9)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US5955589A (en) | 1991-12-24 | 1999-09-21 | Isis Pharmaceuticals Inc. | Gapped 2' modified oligonucleotides |
| YU187991A (sh) | 1990-12-11 | 1994-09-09 | Hoechst Aktiengesellschaft | 3-(2)-amino-ali tiol-modifikovani, s fluorescentnom bojom vezani nukleozidi, nukleotidi i oligonukleotidi, postupak za njihovo dobijanje i njihova upotreba |
| US5652099A (en) | 1992-02-12 | 1997-07-29 | Conrad; Michael J. | Probes comprising fluorescent nucleosides and uses thereof |
| US5446137B1 (en) | 1993-12-09 | 1998-10-06 | Behringwerke Ag | Oligonucleotides containing 4'-substituted nucleotides |
| DE4415370A1 (de) | 1994-05-02 | 1995-11-09 | Hoechst Ag | Modifizierte Oligonukleotide, deren Herstellung sowie deren Verwendung |
| DE4438918A1 (de) | 1994-11-04 | 1996-05-09 | Hoechst Ag | Modifizierte Oligonukleotide, deren Herstellung sowie deren Verwendung |
| ATE280177T1 (de) | 1997-03-20 | 2004-11-15 | Hoffmann La Roche | Modifizierte primer |
| US6440706B1 (en) | 1999-08-02 | 2002-08-27 | Johns Hopkins University | Digital amplification |
| WO2012058316A1 (en) | 2010-10-26 | 2012-05-03 | Stanford University | Non-invasive fetal genetic screening by sequencing analysis |
-
2015
- 2015-09-30 US US15/516,014 patent/US10570443B2/en active Active
- 2015-09-30 WO PCT/US2015/053304 patent/WO2016054255A1/en active Application Filing
- 2015-09-30 HU HUE15848055A patent/HUE049094T2/hu unknown
- 2015-09-30 DK DK15848055.8T patent/DK3201361T3/da active
- 2015-09-30 PL PL15848055T patent/PL3201361T3/pl unknown
- 2015-09-30 PT PT158480558T patent/PT3201361T/pt unknown
- 2015-09-30 EP EP15848055.8A patent/EP3201361B1/en active Active
- 2015-09-30 SI SI201531200T patent/SI3201361T1/sl unknown
- 2015-09-30 ES ES15848055T patent/ES2791328T3/es active Active
- 2015-09-30 LT LTEP15848055.8T patent/LT3201361T/lt unknown
-
2020
- 2020-05-12 CY CY20201100440T patent/CY1122952T1/el unknown
- 2020-05-12 HR HRP20200764TT patent/HRP20200764T1/hr unknown
Also Published As
| Publication number | Publication date |
|---|---|
| DK3201361T3 (da) | 2020-05-18 |
| PT3201361T (pt) | 2020-05-13 |
| CY1122952T1 (el) | 2021-10-29 |
| EP3201361A4 (en) | 2018-04-18 |
| EP3201361B1 (en) | 2020-02-12 |
| HUE049094T2 (hu) | 2020-09-28 |
| US20170327869A1 (en) | 2017-11-16 |
| PL3201361T3 (pl) | 2020-09-07 |
| US10570443B2 (en) | 2020-02-25 |
| WO2016054255A1 (en) | 2016-04-07 |
| LT3201361T (lt) | 2020-06-10 |
| EP3201361A1 (en) | 2017-08-09 |
| SI3201361T1 (sl) | 2020-07-31 |
| ES2791328T3 (es) | 2020-11-03 |
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