SG11202111947PA - Systems and methods for evaluating tumor fraction - Google Patents
Systems and methods for evaluating tumor fractionInfo
- Publication number
- SG11202111947PA SG11202111947PA SG11202111947PA SG11202111947PA SG11202111947PA SG 11202111947P A SG11202111947P A SG 11202111947PA SG 11202111947P A SG11202111947P A SG 11202111947PA SG 11202111947P A SG11202111947P A SG 11202111947PA SG 11202111947P A SG11202111947P A SG 11202111947PA
- Authority
- SG
- Singapore
- Prior art keywords
- tumor
- sample
- allele
- fraction
- coverage
- Prior art date
Links
Classifications
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- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
- G16B40/20—Supervised data analysis
-
- 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
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
- G16B20/10—Ploidy or copy number detection
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
- G16B20/20—Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16H—HEALTHCARE INFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR THE HANDLING OR PROCESSING OF MEDICAL OR HEALTHCARE DATA
- G16H50/00—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics
- G16H50/20—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for computer-aided diagnosis, e.g. based on medical expert systems
-
- 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
- C12Q2600/112—Disease subtyping, staging or classification
-
- 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
- C12Q2600/156—Polymorphic or mutational markers
Landscapes
- Health & Medical Sciences (AREA)
- Engineering & Computer Science (AREA)
- Life Sciences & Earth Sciences (AREA)
- Chemical & Material Sciences (AREA)
- Physics & Mathematics (AREA)
- Bioinformatics & Cheminformatics (AREA)
- Medical Informatics (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- General Health & Medical Sciences (AREA)
- Biophysics (AREA)
- Biotechnology (AREA)
- Genetics & Genomics (AREA)
- Analytical Chemistry (AREA)
- Organic Chemistry (AREA)
- Data Mining & Analysis (AREA)
- Spectroscopy & Molecular Physics (AREA)
- Theoretical Computer Science (AREA)
- Evolutionary Biology (AREA)
- Bioinformatics & Computational Biology (AREA)
- Molecular Biology (AREA)
- Pathology (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Immunology (AREA)
- Public Health (AREA)
- Epidemiology (AREA)
- Databases & Information Systems (AREA)
- Bioethics (AREA)
- Evolutionary Computation (AREA)
- Artificial Intelligence (AREA)
- Software Systems (AREA)
- Computer Vision & Pattern Recognition (AREA)
- Microbiology (AREA)
- Biochemistry (AREA)
- Oncology (AREA)
- General Engineering & Computer Science (AREA)
- Hospice & Palliative Care (AREA)
- Biomedical Technology (AREA)
- Primary Health Care (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
Applications Claiming Priority (2)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US201962850474P | 2019-05-20 | 2019-05-20 | |
| PCT/US2020/033821 WO2020236941A1 (en) | 2019-05-20 | 2020-05-20 | Systems and methods for evaluating tumor fraction |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| SG11202111947PA true SG11202111947PA (en) | 2021-12-30 |
Family
ID=73458622
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| SG11202111947PA SG11202111947PA (en) | 2019-05-20 | 2020-05-20 | Systems and methods for evaluating tumor fraction |
Country Status (11)
| Country | Link |
|---|---|
| US (2) | US20220243279A1 (enExample) |
| EP (1) | EP3973530A4 (enExample) |
| JP (1) | JP7702360B2 (enExample) |
| KR (1) | KR20220011140A (enExample) |
| CN (1) | CN114026646A (enExample) |
| AU (2) | AU2020279752A1 (enExample) |
| BR (1) | BR112021022879A2 (enExample) |
| CA (1) | CA3140066A1 (enExample) |
| IL (1) | IL288182A (enExample) |
| SG (1) | SG11202111947PA (enExample) |
| WO (1) | WO2020236941A1 (enExample) |
Families Citing this family (22)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| AU2014262481A1 (en) | 2013-05-10 | 2015-11-26 | Foundation Medicine, Inc. | Analysis of genetic variants |
| EP4256075A4 (en) * | 2020-12-03 | 2024-10-23 | Foundation Medicine, Inc. | TREE MODEL FOR SELECTING TREATMENTS AND DETERMINING EXPECTED TREATMENT OUTCOMES |
| US20230227897A1 (en) * | 2020-12-16 | 2023-07-20 | Seedna Inc. | Method for calculating the fidelity of the signal of polymorphic genetic loci |
| CN113025716A (zh) * | 2021-03-02 | 2021-06-25 | 北京大学第一医院 | 一种用于人肿瘤分级的基因组合及其用途 |
| EP4359569A4 (en) * | 2021-06-22 | 2025-02-26 | Foundation Medicine, Inc. | Systems and methods for evaluating tumor fraction |
| US20250095775A1 (en) * | 2021-07-23 | 2025-03-20 | Foundation Medicine, Inc. | Methods for determining variant frequency and monitoring disease progression |
| CN118103916A (zh) * | 2021-10-08 | 2024-05-28 | 基金会医学公司 | 用于检测和去除针对拷贝数改变调用的污染的方法和系统 |
| EP4430614A4 (en) * | 2021-11-12 | 2025-12-17 | Found Medicine Inc | Circulating tumor DNA fraction and uses thereof |
| EP4437122A4 (en) * | 2021-11-23 | 2025-08-06 | Found Medicine Inc | METHODS AND SYSTEMS FOR REPORTING CLINICALLY ACTIVE POTENTIAL GERMLINE PATHOGENIC VARIANT SEQUENCES |
| WO2023107869A1 (en) | 2021-12-08 | 2023-06-15 | Foundation Medicine, Inc. | Methods and systems for highlighting clinical information in diagnostic reports |
| CN114530200B (zh) * | 2022-03-18 | 2022-09-23 | 北京阅微基因技术股份有限公司 | 基于计算snp熵值的混合样本鉴定方法 |
| WO2024015973A1 (en) * | 2022-07-15 | 2024-01-18 | Foundation Medicine, Inc. | Methods and systems for determining circulating tumor dna fraction in a patient sample |
| US20260141981A1 (en) * | 2022-10-14 | 2026-05-21 | Foundation Medicine, Inc. | Methods and systems for performing genomic variant calls based on identified off-target sequence reads |
| US20260193351A1 (en) * | 2022-11-27 | 2026-07-09 | The University Of Chicago | Methods for treating cancer with immunotherapy |
| EP4631049A4 (en) * | 2022-12-09 | 2026-02-18 | Found Medicine Inc | METHODS AND SYSTEMS FOR DETERMINING THE CLONALITY OF SOMATIC SHORT VARIANTS |
| CN121219428A (zh) * | 2023-05-15 | 2025-12-26 | 基金会医学公司 | 用于评定液体活检样品中循环肿瘤dna分数的方法和系统 |
| WO2024238750A2 (en) * | 2023-05-17 | 2024-11-21 | Foundation Medicine, Inc. | Clonal hematopoiesis burden as a biomarker for immune checkpoint inhibitor response |
| WO2025054202A1 (en) | 2023-09-05 | 2025-03-13 | Sana Biotechnology, Inc. | Method of screening a sample comprising a transgene with a unique barcode |
| AU2025208175A1 (en) | 2024-01-12 | 2026-06-25 | Sana Biotechnology, Inc. | Safety switches to control in vitro and in vivo proliferation of cell therapy products |
| WO2026102094A1 (en) * | 2024-11-07 | 2026-05-15 | Foundation Medicine, Inc. | Combined chemistry and computational corrections for methyl-bias |
| WO2026165523A1 (en) | 2025-01-31 | 2026-08-06 | Foundation Medicine, Inc. | Methods and systems for detecting howell-jolly bodies |
| CN121305088B (zh) * | 2025-12-09 | 2026-03-17 | 中国人民解放军空军军医大学 | 迁移学习驱动的颅内肿瘤影像数据全自动分割方法 |
Family Cites Families (10)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US20110301854A1 (en) * | 2010-06-08 | 2011-12-08 | Curry Bo U | Method of Determining Allele-Specific Copy Number of a SNP |
| WO2014014498A1 (en) * | 2012-07-20 | 2014-01-23 | Verinata Health, Inc. | Detecting and classifying copy number variation in a fetal genome |
| US11261494B2 (en) * | 2012-06-21 | 2022-03-01 | The Chinese University Of Hong Kong | Method of measuring a fractional concentration of tumor DNA |
| RU2717641C2 (ru) * | 2014-04-21 | 2020-03-24 | Натера, Инк. | Обнаружение мутаций и плоидности в хромосомных сегментах |
| WO2015164432A1 (en) * | 2014-04-21 | 2015-10-29 | Natera, Inc. | Detecting mutations and ploidy in chromosomal segments |
| DK3256605T3 (da) * | 2015-02-10 | 2022-03-14 | Univ Hong Kong Chinese | Påvisning af mutationer til cancerscreening og føtal analyse |
| HK1255446A1 (zh) * | 2015-09-25 | 2019-08-16 | Canexia Health Inc. | 分子质量保证方法在测序中的应用 |
| WO2017151524A1 (en) * | 2016-02-29 | 2017-09-08 | Foundation Medicine, Inc. | Methods and systems for evaluating tumor mutational burden |
| WO2018236911A1 (en) * | 2017-06-20 | 2018-12-27 | Illumina, Inc. | Methods and systems for decomposition and quantification of dna mixtures from multiple contributors of known or unknown genotypes |
| AU2018304458B2 (en) * | 2017-07-21 | 2021-12-09 | Foundation Medicine, Inc. | Therapeutic and diagnostic methods for cancer |
-
2020
- 2020-05-20 CA CA3140066A patent/CA3140066A1/en active Pending
- 2020-05-20 SG SG11202111947PA patent/SG11202111947PA/en unknown
- 2020-05-20 EP EP20810118.8A patent/EP3973530A4/en active Pending
- 2020-05-20 WO PCT/US2020/033821 patent/WO2020236941A1/en not_active Ceased
- 2020-05-20 AU AU2020279752A patent/AU2020279752A1/en not_active Abandoned
- 2020-05-20 CN CN202080037877.1A patent/CN114026646A/zh active Pending
- 2020-05-20 JP JP2021568292A patent/JP7702360B2/ja active Active
- 2020-05-20 BR BR112021022879A patent/BR112021022879A2/pt unknown
- 2020-05-20 KR KR1020217040903A patent/KR20220011140A/ko active Pending
- 2020-05-20 US US17/612,966 patent/US20220243279A1/en active Pending
-
2021
- 2021-11-17 IL IL288182A patent/IL288182A/en unknown
-
2025
- 2025-04-04 US US19/171,081 patent/US20250259709A1/en active Pending
- 2025-11-27 AU AU2025271452A patent/AU2025271452A1/en active Pending
Also Published As
| Publication number | Publication date |
|---|---|
| BR112021022879A2 (pt) | 2022-03-22 |
| CN114026646A (zh) | 2022-02-08 |
| JP7702360B2 (ja) | 2025-07-03 |
| KR20220011140A (ko) | 2022-01-27 |
| EP3973530A4 (en) | 2023-08-02 |
| US20250259709A1 (en) | 2025-08-14 |
| JP2022533137A (ja) | 2022-07-21 |
| CA3140066A1 (en) | 2020-11-26 |
| US20220243279A1 (en) | 2022-08-04 |
| EP3973530A1 (en) | 2022-03-30 |
| AU2025271452A1 (en) | 2026-01-29 |
| WO2020236941A1 (en) | 2020-11-26 |
| IL288182A (en) | 2022-01-01 |
| AU2020279752A1 (en) | 2022-01-06 |
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