CA3115281A1 - Normalization controls for managing low sample inputs in next generation sequencing - Google Patents
Normalization controls for managing low sample inputs in next generation sequencing Download PDFInfo
- Publication number
- CA3115281A1 CA3115281A1 CA3115281A CA3115281A CA3115281A1 CA 3115281 A1 CA3115281 A1 CA 3115281A1 CA 3115281 A CA3115281 A CA 3115281A CA 3115281 A CA3115281 A CA 3115281A CA 3115281 A1 CA3115281 A1 CA 3115281A1
- Authority
- CA
- Canada
- Prior art keywords
- sequence
- normalization control
- polynucleotides
- normalization
- sequences
- 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
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
- C12Q1/6806—Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
-
- 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
- C12Q1/6865—Promoter-based amplification, e.g. nucleic acid sequence amplification [NASBA], self-sustained sequence replication [3SR] or transcription-based amplification system [TAS]
-
- 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
-
- 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
- C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
- C12Q2525/10—Modifications characterised by
- C12Q2525/131—Modifications characterised by incorporating a restriction site
-
- 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
- C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
- C12Q2525/10—Modifications characterised by
- C12Q2525/143—Modifications characterised by incorporating a promoter sequence
-
- 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
- C12Q2535/00—Reactions characterised by the assay type for determining the identity of a nucleotide base or a sequence of oligonucleotides
- C12Q2535/122—Massive parallel sequencing
-
- 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
- C12Q2545/00—Reactions characterised by their quantitative nature
- C12Q2545/10—Reactions characterised by their quantitative nature the purpose being quantitative analysis
- C12Q2545/101—Reactions characterised by their quantitative nature the purpose being quantitative analysis with an internal standard/control
-
- 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
- C12Q2600/166—Oligonucleotides used as internal standards, controls or normalisation probes
Landscapes
- Chemical & Material Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Organic Chemistry (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Health & Medical Sciences (AREA)
- Engineering & Computer Science (AREA)
- Analytical Chemistry (AREA)
- Microbiology (AREA)
- Immunology (AREA)
- Molecular Biology (AREA)
- Biotechnology (AREA)
- Biophysics (AREA)
- Physics & Mathematics (AREA)
- Biochemistry (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- General Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Chemical Kinetics & Catalysis (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
Applications Claiming Priority (5)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US201862741466P | 2018-10-04 | 2018-10-04 | |
| US62/741,466 | 2018-10-04 | ||
| US201962832560P | 2019-04-11 | 2019-04-11 | |
| US62/832,560 | 2019-04-11 | ||
| PCT/US2019/054843 WO2020072990A1 (en) | 2018-10-04 | 2019-10-04 | Normalization controls for managing low sample inputs in next generation sequencing |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| CA3115281A1 true CA3115281A1 (en) | 2020-04-09 |
Family
ID=68343470
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| CA3115281A Pending CA3115281A1 (en) | 2018-10-04 | 2019-10-04 | Normalization controls for managing low sample inputs in next generation sequencing |
Country Status (9)
| Country | Link |
|---|---|
| US (1) | US20220002781A1 (https=) |
| EP (2) | EP3861135B1 (https=) |
| JP (1) | JP7436493B2 (https=) |
| CN (1) | CN113207299B (https=) |
| AU (1) | AU2019356016B2 (https=) |
| CA (1) | CA3115281A1 (https=) |
| DK (1) | DK3861135T5 (https=) |
| IL (1) | IL281982B2 (https=) |
| WO (1) | WO2020072990A1 (https=) |
Families Citing this family (9)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CA3136228A1 (en) | 2019-04-09 | 2020-10-15 | Arc Bio, Llc | Compositions and methods for nucleotide modification-based depletion |
| FR3099182B1 (fr) * | 2019-07-23 | 2022-11-25 | Biomerieux Sa | Procédé de détection et de quantification d'une espèce biologique d'intérêt par analyse métagénomique |
| FR3099181B1 (fr) * | 2019-07-23 | 2022-11-18 | Biomerieux Sa | Procédé de détection et de quantification d'une espèce biologique d'intérêt par analyse métagénomique, avec prise en compte d'un calibrateur. |
| US20220017956A1 (en) * | 2020-07-14 | 2022-01-20 | Accugenomics, Inc. | Endogenous complexity calibration ladder target |
| JP2024513187A (ja) * | 2021-03-29 | 2024-03-22 | イルミナ インコーポレイテッド | ライブラリー中のｄｎａ損傷を評価し、アンプリコンサイズバイアスを正規化するための組成物及び方法 |
| CN114891868A (zh) * | 2022-05-31 | 2022-08-12 | 广州市金圻睿生物科技有限责任公司 | 一种基于ngs平台的微生物定量方法及试剂盒 |
| US12430202B2 (en) | 2022-12-05 | 2025-09-30 | Western Digital Technologies, Inc. | Nested error correction codes for DNA data storage |
| EP4713486A1 (en) * | 2023-07-12 | 2026-03-25 | The Regents of the University of California | Biomarkers for identifying infectious and non-infectious causes of neurological illness |
| US12562755B2 (en) | 2023-09-11 | 2026-02-24 | Western Digital Technologies, Inc. | Multi-tier error correction codes for DNA data storage |
Family Cites Families (10)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2015073080A1 (en) * | 2013-11-12 | 2015-05-21 | Life Technologies Corporation | Reagents and methods for sequencing |
| GB201411603D0 (en) * | 2014-06-30 | 2014-08-13 | Vela Operations Pte Ltd | Compositions for quantitative and/or semiquantitative mutation detection methods |
| WO2016100955A2 (en) | 2014-12-20 | 2016-06-23 | Identifygenomics, Llc | Compositions and methods for targeted depletion, enrichment, and partitioning of nucleic acids using crispr/cas system proteins |
| EP3332034B1 (en) * | 2015-08-06 | 2024-09-25 | Arc Bio, LLC | Systems and methods for genomic analysis |
| US10538758B2 (en) | 2015-08-19 | 2020-01-21 | Arc Bio, Llc | Capture of nucleic acids using a nucleic acid-guided nuclease-based system |
| US10465232B1 (en) * | 2015-10-08 | 2019-11-05 | Trace Genomics, Inc. | Methods for quantifying efficiency of nucleic acid extraction and detection |
| AU2016365720B2 (en) | 2015-12-07 | 2020-11-26 | Arc Bio, Llc | Methods and compositions for the making and using of guide nucleic acids |
| AU2017223821B2 (en) | 2016-02-23 | 2023-07-27 | Arc Bio, Llc | Methods and compositions for target detection |
| EP3978627A1 (en) * | 2016-03-25 | 2022-04-06 | Karius, Inc. | Methods using synthetic nucleic acid spike-ins |
| US20200190508A1 (en) | 2017-06-07 | 2020-06-18 | Arc Bio, Llc | Creation and use of guide nucleic acids |
-
2019
- 2019-10-04 EP EP19794317.8A patent/EP3861135B1/en active Active
- 2019-10-04 IL IL281982A patent/IL281982B2/en unknown
- 2019-10-04 DK DK19794317.8T patent/DK3861135T5/da active
- 2019-10-04 AU AU2019356016A patent/AU2019356016B2/en active Active
- 2019-10-04 CN CN201980080514.3A patent/CN113207299B/zh active Active
- 2019-10-04 WO PCT/US2019/054843 patent/WO2020072990A1/en not_active Ceased
- 2019-10-04 CA CA3115281A patent/CA3115281A1/en active Pending
- 2019-10-04 EP EP23189043.5A patent/EP4296373B8/en active Active
- 2019-10-04 JP JP2021544100A patent/JP7436493B2/ja active Active
- 2019-10-04 US US17/282,728 patent/US20220002781A1/en active Pending
Also Published As
| Publication number | Publication date |
|---|---|
| WO2020072990A1 (en) | 2020-04-09 |
| EP4296373C0 (en) | 2025-02-19 |
| IL281982B2 (en) | 2025-12-01 |
| DK3861135T5 (da) | 2024-09-09 |
| DK3861135T3 (da) | 2023-11-06 |
| EP3861135A1 (en) | 2021-08-11 |
| EP4296373A3 (en) | 2024-01-24 |
| AU2019356016B2 (en) | 2026-01-08 |
| IL281982A (en) | 2021-05-31 |
| US20220002781A1 (en) | 2022-01-06 |
| CN113207299B (zh) | 2024-10-29 |
| EP4296373A2 (en) | 2023-12-27 |
| EP3861135B1 (en) | 2023-08-02 |
| AU2019356016A1 (en) | 2021-05-13 |
| JP2022513343A (ja) | 2022-02-07 |
| JP7436493B2 (ja) | 2024-02-21 |
| EP4296373B1 (en) | 2025-02-19 |
| IL281982B1 (en) | 2025-08-01 |
| EP4296373B8 (en) | 2025-03-26 |
| CN113207299A (zh) | 2021-08-03 |
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