JP2018518967A5 - - Google Patents
Download PDFInfo
- Publication number
- JP2018518967A5 JP2018518967A5 JP2017566374A JP2017566374A JP2018518967A5 JP 2018518967 A5 JP2018518967 A5 JP 2018518967A5 JP 2017566374 A JP2017566374 A JP 2017566374A JP 2017566374 A JP2017566374 A JP 2017566374A JP 2018518967 A5 JP2018518967 A5 JP 2018518967A5
- Authority
- JP
- Japan
- Prior art keywords
- nucleic acid
- target
- complementary
- probe
- methylated
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
- Granted
Links
- 108020004707 nucleic acids Proteins 0.000 claims description 373
- 102000039446 nucleic acids Human genes 0.000 claims description 373
- 150000007523 nucleic acids Chemical class 0.000 claims description 372
- 239000000523 sample Substances 0.000 claims description 151
- 238000000034 method Methods 0.000 claims description 129
- 230000000295 complement effect Effects 0.000 claims description 101
- 108020005187 Oligonucleotide Probes Proteins 0.000 claims description 46
- 239000002751 oligonucleotide probe Substances 0.000 claims description 46
- LSNNMFCWUKXFEE-UHFFFAOYSA-M Bisulfite Chemical compound OS([O-])=O LSNNMFCWUKXFEE-UHFFFAOYSA-M 0.000 claims description 40
- 230000035772 mutation Effects 0.000 claims description 37
- 239000011541 reaction mixture Substances 0.000 claims description 36
- 230000003321 amplification Effects 0.000 claims description 28
- 238000004925 denaturation Methods 0.000 claims description 28
- 230000036425 denaturation Effects 0.000 claims description 28
- 238000003199 nucleic acid amplification method Methods 0.000 claims description 28
- DWAQJAXMDSEUJJ-UHFFFAOYSA-M Sodium bisulfite Chemical compound [Na+].OS([O-])=O DWAQJAXMDSEUJJ-UHFFFAOYSA-M 0.000 claims description 16
- 235000010267 sodium hydrogen sulphite Nutrition 0.000 claims description 16
- 101710163270 Nuclease Proteins 0.000 claims description 14
- 108060002716 Exonuclease Proteins 0.000 claims description 12
- 102000013165 exonuclease Human genes 0.000 claims description 12
- 238000009396 hybridization Methods 0.000 claims description 12
- 238000006243 chemical reaction Methods 0.000 claims description 11
- 108091034117 Oligonucleotide Proteins 0.000 claims description 10
- 230000000694 effects Effects 0.000 claims description 8
- 239000003960 organic solvent Substances 0.000 claims description 6
- 238000012163 sequencing technique Methods 0.000 claims description 6
- 238000012408 PCR amplification Methods 0.000 claims description 4
- 230000015572 biosynthetic process Effects 0.000 claims description 4
- 230000015556 catabolic process Effects 0.000 claims description 4
- 238000006731 degradation reaction Methods 0.000 claims description 4
- 238000002844 melting Methods 0.000 claims description 4
- 230000008018 melting Effects 0.000 claims description 4
- 239000012141 concentrate Substances 0.000 claims description 3
- 230000003247 decreasing effect Effects 0.000 claims description 3
- 230000000368 destabilizing effect Effects 0.000 claims description 3
- 101000829171 Hypocrea virens (strain Gv29-8 / FGSC 10586) Effector TSP1 Proteins 0.000 claims description 2
- 108091093037 Peptide nucleic acid Proteins 0.000 claims description 2
- 239000011324 bead Substances 0.000 claims description 2
- 210000001124 body fluid Anatomy 0.000 claims description 2
- 239000010839 body fluid Substances 0.000 claims description 2
- 238000003776 cleavage reaction Methods 0.000 claims description 2
- 230000029087 digestion Effects 0.000 claims description 2
- 238000007847 digital PCR Methods 0.000 claims description 2
- 230000003301 hydrolyzing effect Effects 0.000 claims description 2
- 230000000977 initiatory effect Effects 0.000 claims description 2
- 238000011901 isothermal amplification Methods 0.000 claims description 2
- 238000007854 ligation-mediated PCR Methods 0.000 claims description 2
- 238000007403 mPCR Methods 0.000 claims description 2
- 238000001840 matrix-assisted laser desorption--ionisation time-of-flight mass spectrometry Methods 0.000 claims description 2
- 230000011987 methylation Effects 0.000 claims description 2
- 238000007069 methylation reaction Methods 0.000 claims description 2
- 238000012175 pyrosequencing Methods 0.000 claims description 2
- 238000003753 real-time PCR Methods 0.000 claims description 2
- 238000007894 restriction fragment length polymorphism technique Methods 0.000 claims description 2
- 230000007017 scission Effects 0.000 claims description 2
- 210000002700 urine Anatomy 0.000 claims description 2
- LSNNMFCWUKXFEE-UHFFFAOYSA-N Sulfurous acid Chemical class OS(O)=O LSNNMFCWUKXFEE-UHFFFAOYSA-N 0.000 claims 3
- 239000002773 nucleotide Substances 0.000 claims 2
- 125000003729 nucleotide group Chemical group 0.000 claims 2
- 229910052739 hydrogen Inorganic materials 0.000 claims 1
- 239000001257 hydrogen Substances 0.000 claims 1
- 125000004435 hydrogen atom Chemical class [H]* 0.000 claims 1
- -1 nucleic acids bisulfite Chemical class 0.000 claims 1
- 230000004048 modification Effects 0.000 description 1
- 238000012986 modification Methods 0.000 description 1
- 238000001216 nucleic acid method Methods 0.000 description 1
Applications Claiming Priority (3)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US201562183854P | 2015-06-24 | 2015-06-24 | |
| US62/183,854 | 2015-06-24 | ||
| PCT/US2016/039167 WO2016210224A1 (en) | 2015-06-24 | 2016-06-24 | Selective degradation of wild-type dna and enrichment of mutant alleles using nuclease |
Publications (3)
| Publication Number | Publication Date |
|---|---|
| JP2018518967A JP2018518967A (ja) | 2018-07-19 |
| JP2018518967A5 true JP2018518967A5 (enExample) | 2019-07-25 |
| JP6941568B2 JP6941568B2 (ja) | 2021-09-29 |
Family
ID=57585693
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| JP2017566374A Active JP6941568B2 (ja) | 2015-06-24 | 2016-06-24 | ヌクレアーゼを使用する野生型ｄｎａの選択的分解および突然変異体対立遺伝子の濃縮 |
Country Status (7)
| Country | Link |
|---|---|
| US (2) | US11725230B2 (enExample) |
| EP (1) | EP3313992B1 (enExample) |
| JP (1) | JP6941568B2 (enExample) |
| AU (1) | AU2016281718B2 (enExample) |
| CA (1) | CA2990846C (enExample) |
| ES (1) | ES2917175T3 (enExample) |
| WO (1) | WO2016210224A1 (enExample) |
Families Citing this family (22)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CA2990846C (en) | 2015-06-24 | 2023-09-26 | Dana-Farber Cancer Institute, Inc. | Selective degradation of wild-type dna and enrichment of mutant alleles using nuclease |
| US11371090B2 (en) | 2016-12-12 | 2022-06-28 | Dana-Farber Cancer Institute, Inc. | Compositions and methods for molecular barcoding of DNA molecules prior to mutation enrichment and/or mutation detection |
| US11174511B2 (en) | 2017-07-24 | 2021-11-16 | Dana-Farber Cancer Institute, Inc. | Methods and compositions for selecting and amplifying DNA targets in a single reaction mixture |
| CN107893109B (zh) * | 2017-11-08 | 2021-07-06 | 重庆邮电大学 | 一种基于移除野生型序列的低丰度基因突变富集方法 |
| KR102086689B1 (ko) * | 2018-02-06 | 2020-03-09 | 주식회사 진씨커 | 돌연변이 세포 유리 유전자 분리 키트 및 이를 이용한 돌연변이 세포 유리 유전자 분리 방법 |
| WO2019195268A2 (en) | 2018-04-02 | 2019-10-10 | Grail, Inc. | Methylation markers and targeted methylation probe panels |
| CN108531603A (zh) * | 2018-05-31 | 2018-09-14 | 青岛普泽麦迪生物技术有限公司 | 一种用于braf基因v600e突变检测的引物对、试剂盒及其检测方法 |
| AU2019351130B2 (en) | 2018-09-27 | 2025-10-23 | GRAIL, Inc | Methylation markers and targeted methylation probe panel |
| CN113260451A (zh) * | 2018-10-16 | 2021-08-13 | 辛辛那提大学 | 单分子表观遗传定位 |
| CN109880891B (zh) * | 2019-04-22 | 2021-07-30 | 上海交通大学 | 基于核酸酶偶联pcr原理富集低丰度dna突变的检测技术体系及应用 |
| CA3145319A1 (en) * | 2019-08-21 | 2021-02-25 | Dana-Farber Cancer Institute, Inc. | Multi-site enrichment of deletions in dna microsatellites |
| WO2022032194A1 (en) | 2020-08-06 | 2022-02-10 | Singular Genomics Systems, Inc. | Methods for in situ transcriptomics and proteomics |
| WO2022032195A2 (en) | 2020-08-06 | 2022-02-10 | Singular Genomics Systems, Inc. | Spatial sequencing |
| GB2603203A (en) * | 2021-02-02 | 2022-08-03 | Univ Heriot Watt | Method for enriching nucelic acids |
| EP4337782A4 (en) * | 2021-05-14 | 2025-04-02 | Carmel-Haifa University Economic Corporation Ltd. | A method of identifying ultra-rare genetic variants |
| US11993792B2 (en) | 2021-05-27 | 2024-05-28 | New England Biolabs, Inc. | DNase I variants, compositions, methods, and kits |
| GB202111195D0 (en) * | 2021-08-03 | 2021-09-15 | Cergentis B V | Method for targeted sequencing |
| CN114280128B (zh) * | 2021-12-24 | 2022-11-18 | 清华大学 | 双标记gFET的制备及其在miRNA检测中的应用 |
| CN116240200B (zh) * | 2022-07-01 | 2025-03-11 | 中国科学院基础医学与肿瘤研究所(筹) | 一种基于可编程核酸酶的超灵敏目标核酸富集检测方法 |
| EP4605546A1 (en) * | 2022-10-19 | 2025-08-27 | Biofidelity Ltd | Nucleic acid enrichment and detection |
| WO2024249961A1 (en) | 2023-06-01 | 2024-12-05 | Singular Genomics Systems, Inc. | Methods and probes for detecting polynucleotide sequences in cells and tissues |
| WO2025029475A1 (en) * | 2023-07-28 | 2025-02-06 | Guardant Health, Inc. | Methods to enrich nucleotide variants by negative selection |
Family Cites Families (31)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| AU661505B2 (en) | 1990-05-07 | 1995-07-27 | Tapestry Pharmaceuticals, Inc. | Diagnostic applications of double D-loop formation |
| EP0672185A4 (en) * | 1992-07-17 | 1997-04-23 | Aprogenex Inc | NUCLEIC ACID SAMPLE AND THEIR USE IN DETECTING DOUBLE-STRANDED NUCLEIC ACIDS. |
| US5629178A (en) | 1994-10-28 | 1997-05-13 | Genetics & Ivf Institute | Method for enhancing amplification in the polymerase chain reaction employing peptide nucleic acid (PNA) |
| US6949340B2 (en) * | 2001-03-28 | 2005-09-27 | Creative Mines Llc | Optical phase modulator |
| DE10158516A1 (de) | 2001-11-29 | 2003-06-12 | Focusgenomics Gmbh | Verfahren zum Nachweis von Hybridisierungsereignissen in Nukleinsäuren |
| AU2002346662A1 (en) * | 2001-12-04 | 2003-06-17 | Euregen Llc | Methods and compositions for selectively cleaving dna containing duplex acids in a complex nucleic acid mixture |
| EP1725682B1 (en) | 2004-03-08 | 2015-09-09 | Rubicon Genomics, Inc. | Methods and compositions for generating and amplifying dna libraries for sensitive detection and analysis of dna methylation |
| US7749707B2 (en) | 2005-03-01 | 2010-07-06 | Wako Pure Chemical Industries, Ltd. | Method for obtaining subtraction polynucleotide |
| AU2006316537A1 (en) * | 2005-11-24 | 2007-05-31 | Basf Se | Chimeric keratin-binding effector proteins |
| US7544473B2 (en) | 2006-01-23 | 2009-06-09 | Population Genetics Technologies Ltd. | Nucleic acid analysis using sequence tokens |
| WO2008096146A1 (en) | 2007-02-07 | 2008-08-14 | Solexa Limited | Preparation of templates for methylation analysis |
| US20080254453A1 (en) | 2007-04-12 | 2008-10-16 | Affymetrix, Inc | Analysis of methylation using selective adaptor ligation |
| US7749708B2 (en) | 2007-09-12 | 2010-07-06 | Transgenomic, Inc. | Method for identifying the sequence of one or more variant nucleotides in a nucleic acid molecule |
| US20100216648A1 (en) * | 2009-02-20 | 2010-08-26 | Febit Holding Gmbh | Synthesis of sequence-verified nucleic acids |
| US10636413B2 (en) | 2009-06-13 | 2020-04-28 | Rolr, Inc. | System for communication skills training using juxtaposition of recorded takes |
| EP2272976A1 (en) * | 2009-07-06 | 2011-01-12 | Max-Planck-Gesellschaft zur Förderung der Wissenschaften e.V. | Method for differentiation of polynucleotide strands |
| WO2011057354A1 (en) | 2009-11-13 | 2011-05-19 | Commonwealth Scientific And Industrial Research Organisation | Epigenetic analysis |
| JP5795341B2 (ja) | 2010-03-08 | 2015-10-14 | デイナ ファーバー キャンサー インスティチュート，インコーポレイテッド | 参照ブロック配列によるｆｕｌｌＣＯＬＤ−ＰＣＲ濃縮 |
| US9260753B2 (en) | 2011-03-24 | 2016-02-16 | President And Fellows Of Harvard College | Single cell nucleic acid detection and analysis |
| WO2012135053A2 (en) * | 2011-03-25 | 2012-10-04 | Integrated Dna Technologies, Inc. | Rnase h-based assays utilizing modified rna monomers |
| CA2830361C (en) | 2011-03-31 | 2021-03-16 | Dana-Farber Cancer Institute, Inc. | Methods and compositions to enable multiplex cold-pcr |
| CN103717751A (zh) | 2011-05-19 | 2014-04-09 | 塞昆纳姆股份有限公司 | 用于多重核酸鉴定的产品和方法 |
| US9238836B2 (en) * | 2012-03-30 | 2016-01-19 | Pacific Biosciences Of California, Inc. | Methods and compositions for sequencing modified nucleic acids |
| KR102126744B1 (ko) * | 2013-03-14 | 2020-06-26 | 다카라 바이오 가부시키가이샤 | 내열성 미스매치 엔도뉴클레아제의 이용방법 |
| CN111383715B (zh) | 2013-04-17 | 2024-09-10 | 先锋国际良种公司 | 用于在基因组中表征dna序列组成的方法 |
| US10913977B2 (en) | 2013-07-24 | 2021-02-09 | Dana-Farber Cancer Institute, Inc. | Methods and compositions to enable enrichment of minor DNA alleles by limiting denaturation time in PCR or simply enable enrichment of minor DNA alleles by limiting the denaturation time in PCR |
| US9873908B2 (en) | 2013-11-27 | 2018-01-23 | Roche Molecular Systems, Inc. | Methods for the enrichment of mutated nucleic acid from a mixture |
| EP3378952B1 (en) | 2013-12-28 | 2020-02-05 | Guardant Health, Inc. | Methods and systems for detecting genetic variants |
| CA2990846C (en) | 2015-06-24 | 2023-09-26 | Dana-Farber Cancer Institute, Inc. | Selective degradation of wild-type dna and enrichment of mutant alleles using nuclease |
| US11371090B2 (en) | 2016-12-12 | 2022-06-28 | Dana-Farber Cancer Institute, Inc. | Compositions and methods for molecular barcoding of DNA molecules prior to mutation enrichment and/or mutation detection |
| CA3145319A1 (en) | 2019-08-21 | 2021-02-25 | Dana-Farber Cancer Institute, Inc. | Multi-site enrichment of deletions in dna microsatellites |
-
2016
- 2016-06-24 CA CA2990846A patent/CA2990846C/en active Active
- 2016-06-24 JP JP2017566374A patent/JP6941568B2/ja active Active
- 2016-06-24 EP EP16815352.6A patent/EP3313992B1/en active Active
- 2016-06-24 WO PCT/US2016/039167 patent/WO2016210224A1/en not_active Ceased
- 2016-06-24 AU AU2016281718A patent/AU2016281718B2/en active Active
- 2016-06-24 US US15/739,301 patent/US11725230B2/en active Active
- 2016-06-24 ES ES16815352T patent/ES2917175T3/es active Active
-
2023
- 2023-08-13 US US18/448,941 patent/US20230392191A1/en active Pending
Similar Documents
| Publication | Publication Date | Title |
|---|---|---|
| JP2018518967A5 (enExample) | ||
| US20230392191A1 (en) | Selective degradation of wild-type dna and enrichment of mutant alleles using nuclease | |
| US20220033891A1 (en) | Amplification with primers of limited nucleotide composition | |
| AU2018260633B2 (en) | Compositions and methods for improving sample identification in indexed nucleic acid libraries | |
| EP1456407B1 (en) | Nucleic acid enrichment | |
| US9464318B2 (en) | Methods and compositions for reducing non-specific amplification products | |
| EP2606148B1 (en) | Helicase dependent isothermal amplification using nicking enzymes | |
| CA2504234C (en) | Process for amplifying nucleic acids | |
| CA2618665A1 (en) | Method for in vitro recombination | |
| US20170022551A1 (en) | Methods and compositions for reducing non-specific amplification products | |
| AU2015270774B2 (en) | Optimization of DNA amplification reactions | |
| CN100516234C (zh) | Headloop DNA扩增 | |
| JP7054398B2 (ja) | 改変されたマルチプレックスおよびマルチステップ増幅反応ならびにそのための試薬 | |
| EP4010493B1 (en) | Methods for the multiplexed isothermal amplification of nucleic acid sequences | |
| CN107338240B (zh) | 对样品中目标核酸序列进行偏向扩增的方法和试剂盒 | |
| He et al. | Nickase-dependent isothermal DNA amplification | |
| WO2010064040A1 (en) | Method for use in polynucleotide sequencing | |
| HK40064470A (en) | Amplification with primers of limited nucleotide composition | |
| AU2003209812B2 (en) | Melting temperature dependent DNA amplification | |
| HK40075118B (en) | Methods for the multiplexed isothermal amplification of nucleic acid sequences | |
| HK40075118A (en) | Methods for the multiplexed isothermal amplification of nucleic acid sequences | |
| Whitcombe | 6 Using Scorpion Primers for Genotyping | |
| AU2003212087A1 (en) | Headloop dna amplification |