JPWO2022087309A5 - - Google Patents
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- JPWO2022087309A5 JPWO2022087309A5 JP2023524623A JP2023524623A JPWO2022087309A5 JP WO2022087309 A5 JPWO2022087309 A5 JP WO2022087309A5 JP 2023524623 A JP2023524623 A JP 2023524623A JP 2023524623 A JP2023524623 A JP 2023524623A JP WO2022087309 A5 JPWO2022087309 A5 JP WO2022087309A5
- Authority
- JP
- Japan
- Prior art keywords
- dna
- target regions
- nucleobase
- aliquot
- item
- 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.)
- Pending
Links
- 238000000034 method Methods 0.000 claims description 114
- 108020004414 DNA Proteins 0.000 claims description 93
- OPTASPLRGRRNAP-UHFFFAOYSA-N cytosine Chemical compound NC=1C=CNC(=O)N=1 OPTASPLRGRRNAP-UHFFFAOYSA-N 0.000 claims description 26
- 239000000523 sample Substances 0.000 claims description 25
- 206010028980 Neoplasm Diseases 0.000 claims description 24
- 201000011510 cancer Diseases 0.000 claims description 24
- 230000011987 methylation Effects 0.000 claims description 17
- 238000007069 methylation reaction Methods 0.000 claims description 17
- 238000012163 sequencing technique Methods 0.000 claims description 14
- UORVGPXVDQYIDP-BJUDXGSMSA-N borane Chemical class [10BH3] UORVGPXVDQYIDP-BJUDXGSMSA-N 0.000 claims description 11
- 229910000085 borane Inorganic materials 0.000 claims description 11
- 239000003638 chemical reducing agent Substances 0.000 claims description 11
- UORVGPXVDQYIDP-UHFFFAOYSA-N trihydridoboron Substances B UORVGPXVDQYIDP-UHFFFAOYSA-N 0.000 claims description 11
- 230000001973 epigenetic effect Effects 0.000 claims description 10
- 229940104302 cytosine Drugs 0.000 claims description 9
- 230000004048 modification Effects 0.000 claims description 8
- 238000012986 modification Methods 0.000 claims description 8
- 238000012360 testing method Methods 0.000 claims description 8
- QHXLIQMGIGEHJP-UHFFFAOYSA-N boron;2-methylpyridine Chemical group [B].CC1=CC=CC=N1 QHXLIQMGIGEHJP-UHFFFAOYSA-N 0.000 claims description 7
- NNTOJPXOCKCMKR-UHFFFAOYSA-N boron;pyridine Chemical compound [B].C1=CC=NC=C1 NNTOJPXOCKCMKR-UHFFFAOYSA-N 0.000 claims description 7
- 238000006243 chemical reaction Methods 0.000 claims description 6
- 108020004707 nucleic acids Proteins 0.000 claims description 6
- 102000039446 nucleic acids Human genes 0.000 claims description 6
- 150000007523 nucleic acids Chemical class 0.000 claims description 6
- 238000000638 solvent extraction Methods 0.000 claims description 5
- RYVNIFSIEDRLSJ-UHFFFAOYSA-N 5-(hydroxymethyl)cytosine Chemical compound NC=1NC(=O)N=CC=1CO RYVNIFSIEDRLSJ-UHFFFAOYSA-N 0.000 claims description 4
- 102000016897 CCCTC-Binding Factor Human genes 0.000 claims description 4
- 108010014064 CCCTC-Binding Factor Proteins 0.000 claims description 4
- 108700009124 Transcription Initiation Site Proteins 0.000 claims description 4
- JBANFLSTOJPTFW-UHFFFAOYSA-N azane;boron Chemical compound [B].N JBANFLSTOJPTFW-UHFFFAOYSA-N 0.000 claims description 4
- GKFJEDWZQZKYHV-UHFFFAOYSA-N borane;2-methylpropan-2-amine Chemical compound B.CC(C)(C)N GKFJEDWZQZKYHV-UHFFFAOYSA-N 0.000 claims description 4
- LRSASMSXMSNRBT-UHFFFAOYSA-N 5-methylcytosine Chemical compound CC1=CNC(=O)N=C1N LRSASMSXMSNRBT-UHFFFAOYSA-N 0.000 claims description 3
- 101710163270 Nuclease Proteins 0.000 claims description 2
- 230000003321 amplification Effects 0.000 claims description 2
- 230000000593 degrading effect Effects 0.000 claims description 2
- 238000003199 nucleic acid amplification method Methods 0.000 claims description 2
- 238000011176 pooling Methods 0.000 claims 1
- 238000011282 treatment Methods 0.000 description 5
- LSNNMFCWUKXFEE-UHFFFAOYSA-M Bisulfite Chemical compound OS([O-])=O LSNNMFCWUKXFEE-UHFFFAOYSA-M 0.000 description 2
- 210000004027 cell Anatomy 0.000 description 2
- 230000009615 deamination Effects 0.000 description 2
- 238000006481 deamination reaction Methods 0.000 description 2
- 210000004881 tumor cell Anatomy 0.000 description 2
- 102000004190 Enzymes Human genes 0.000 description 1
- 108090000790 Enzymes Proteins 0.000 description 1
- 230000015572 biosynthetic process Effects 0.000 description 1
- 239000003153 chemical reaction reagent Substances 0.000 description 1
- 230000013595 glycosylation Effects 0.000 description 1
- 238000006206 glycosylation reaction Methods 0.000 description 1
- 238000013507 mapping Methods 0.000 description 1
- 125000002496 methyl group Chemical group [H]C([H])([H])* 0.000 description 1
- 238000012545 processing Methods 0.000 description 1
- 239000007787 solid Substances 0.000 description 1
Applications Claiming Priority (3)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US202063105184P | 2020-10-23 | 2020-10-23 | |
| US63/105,184 | 2020-10-23 | ||
| PCT/US2021/056106 WO2022087309A1 (en) | 2020-10-23 | 2021-10-21 | Compositions and methods for analyzing dna using partitioning and base conversion |
Publications (3)
| Publication Number | Publication Date |
|---|---|
| JP2023547620A JP2023547620A (ja) | 2023-11-13 |
| JPWO2022087309A5 true JPWO2022087309A5 (https=) | 2024-10-28 |
| JP2023547620A5 JP2023547620A5 (https=) | 2024-10-28 |
Family
ID=78622081
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| JP2023524623A Pending JP2023547620A (ja) | 2020-10-23 | 2021-10-21 | 分配および塩基変換を使用してｄｎａを解析するための組成物および方法 |
Country Status (5)
| Country | Link |
|---|---|
| US (2) | US12234518B2 (https=) |
| EP (1) | EP4232599A1 (https=) |
| JP (1) | JP2023547620A (https=) |
| CA (1) | CA3195797A1 (https=) |
| WO (1) | WO2022087309A1 (https=) |
Families Citing this family (4)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2022221853A1 (en) * | 2021-04-13 | 2022-10-20 | Elegen Corp. | Methods and compositions for cell-free cloning |
| AU2022318379A1 (en) * | 2021-07-27 | 2024-02-08 | Ludwig Institute For Cancer Research Ltd | Compositions and methods related to tet-assisted pyridine borane sequencing for cell-free dna |
| JP2025522763A (ja) * | 2022-06-30 | 2025-07-17 | ガーダント ヘルス， インコーポレイテッド | 異常にメチル化されたｄｎａの富化 |
| WO2025207924A1 (en) * | 2024-03-28 | 2025-10-02 | Guardant Health, Inc. | Methods for selective deamination using cpg-binding proteins |
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| US7169560B2 (en) | 2003-11-12 | 2007-01-30 | Helicos Biosciences Corporation | Short cycle methods for sequencing polynucleotides |
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| DE102005034628B4 (de) | 2005-07-19 | 2007-08-23 | Epigenomics Ag | Verfahren zur Untersuchung von Cytosin-Methylierungen in DNA |
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| EP2694686B2 (en) | 2011-04-06 | 2023-07-19 | The University of Chicago | COMPOSITION AND METHODS RELATED TO MODIFICATION OF 5-METHYLCYTOSINE (5mC) |
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| JP7136899B2 (ja) * | 2018-01-08 | 2022-09-13 | ルドウイグ インスティテュート フォー キャンサー リサーチ エルティーディー | シトシン修飾の、亜硫酸水素塩非含有、塩基分解能特定 |
| WO2020006369A1 (en) | 2018-06-29 | 2020-01-02 | Guardant Health, Inc. | Methods and systems for analysis of ctcf binding regions in cell-free dna |
| EP4567131A3 (en) * | 2019-01-31 | 2025-09-03 | Guardant Health, Inc. | Compositions and methods for isolating cell-free dna |
| US11891653B2 (en) | 2019-09-30 | 2024-02-06 | Guardant Health, Inc. | Compositions and methods for analyzing cell-free DNA in methylation partitioning assays |
| US20220154285A1 (en) | 2020-09-30 | 2022-05-19 | Guardant Health, Inc. | Analysis of methylated dna comprising methylation-sensitive or methylation-dependent restrictions |
-
2021
- 2021-10-21 US US17/507,697 patent/US12234518B2/en active Active
- 2021-10-21 WO PCT/US2021/056106 patent/WO2022087309A1/en not_active Ceased
- 2021-10-21 EP EP21807429.2A patent/EP4232599A1/en active Pending
- 2021-10-21 CA CA3195797A patent/CA3195797A1/en active Pending
- 2021-10-21 JP JP2023524623A patent/JP2023547620A/ja active Pending
-
2024
- 2024-10-21 US US18/922,116 patent/US20250188546A1/en active Pending
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