SG186987A1 - Nucleic acids for multiplex organism detection and methods of use and making the same - Google Patents
Nucleic acids for multiplex organism detection and methods of use and making the same Download PDFInfo
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- C12Q1/708—Specific hybridization probes for papilloma
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- C12N15/1034—Isolating an individual clone by screening libraries
- C12N15/1089—Design, preparation, screening or analysis of libraries using computer algorithms
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- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6869—Methods for sequencing
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- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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| US12038438B2 (en) | 2008-07-18 | 2024-07-16 | Bio-Rad Laboratories, Inc. | Enzyme quantification |
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| US20160110498A1 (en) | 2013-03-13 | 2016-04-21 | Illumina, Inc. | Methods and systems for aligning repetitive dna elements |
| CA2905410A1 (en) * | 2013-03-15 | 2014-09-25 | Abbott Molecular Inc. | Systems and methods for detection of genomic copy number changes |
| US20150141257A1 (en) * | 2013-08-02 | 2015-05-21 | Roche Nimblegen, Inc. | Sequence capture method using specialized capture probes (heatseq) |
| EP3038649B1 (en) * | 2013-08-26 | 2019-09-25 | The Translational Genomics Research Institute | Single molecule-overlapping read analysis for minor variant mutation detection in pathogen samples |
| GB2534067B (en) | 2013-08-30 | 2021-07-21 | Personalis Inc | Methods and systems for genomic analysis |
| WO2015071552A1 (en) * | 2013-11-18 | 2015-05-21 | Teknologian Tutkimuskeskus Vtt | Multi-unit probes with high specificity and a method of designing the same |
| EP3129503A4 (en) * | 2014-04-11 | 2018-02-21 | The Trustees Of The University Of Pennsylvania | Compositions and methods for metagenome biomarker detection |
| CA2949732C (en) | 2014-06-13 | 2023-01-17 | Q-Linea Ab | Method for detecting and characterising a microorganism |
| EP2960818A1 (en) * | 2014-06-24 | 2015-12-30 | Institut Pasteur | Method, device, and computer program for assembling pieces of chromosomes from one or several organisms |
| EP4026913A1 (en) | 2014-10-30 | 2022-07-13 | Personalis, Inc. | Methods for using mosaicism in nucleic acids sampled distal to their origin |
| TWI577803B (zh) * | 2015-01-15 | 2017-04-11 | 昕穎生醫技術股份有限公司 | 多重抗藥性結核病篩檢方法及套組 |
| GB201507026D0 (en) | 2015-04-24 | 2015-06-10 | Linea Ab Q | Medical sample transportation container |
| WO2017070096A1 (en) * | 2015-10-18 | 2017-04-27 | Affymetrix, Inc. | Multiallelic genotyping of single nucleotide polymorphisms and indels |
| MX383493B (es) | 2016-03-25 | 2025-03-14 | Karius Inc | Añadiduras de ácidos nucleicos sintéticos |
| GB2554767A (en) | 2016-04-21 | 2018-04-11 | Q Linea Ab | Detecting and characterising a microorganism |
| US11299783B2 (en) | 2016-05-27 | 2022-04-12 | Personalis, Inc. | Methods and systems for genetic analysis |
| US10337051B2 (en) * | 2016-06-16 | 2019-07-02 | The Regents Of The University Of California | Methods and compositions for detecting a target RNA |
| EP3523426A4 (en) | 2016-09-30 | 2020-01-22 | The Regents of The University of California | RNA GUIDED NUCLEIC ACID MODIFYING ENZYMES AND METHOD FOR USE THEREOF |
| WO2018064352A1 (en) | 2016-09-30 | 2018-04-05 | The Regents Of The University Of California | Rna-guided nucleic acid modifying enzymes and methods of use thereof |
| US10815525B2 (en) | 2016-12-22 | 2020-10-27 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US10550429B2 (en) | 2016-12-22 | 2020-02-04 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| CN110730825B (zh) * | 2017-05-23 | 2023-08-11 | 新泽西鲁特格斯州立大学 | 用双相互作用发夹探针进行的靶标介导的原位信号放大 |
| CN111051511A (zh) | 2017-08-04 | 2020-04-21 | 十亿至一公司 | 用于与生物靶相关的表征的靶相关分子 |
| SG11202000444PA (en) | 2017-08-04 | 2020-02-27 | Billiontoone Inc | Sequencing output determination and analysis with target-associated molecules in quantification associated with biological targets |
| US11519024B2 (en) | 2017-08-04 | 2022-12-06 | Billiontoone, Inc. | Homologous genomic regions for characterization associated with biological targets |
| US11970719B2 (en) | 2017-11-01 | 2024-04-30 | The Regents Of The University Of California | Class 2 CRISPR/Cas compositions and methods of use |
| CA3080493A1 (en) | 2017-11-01 | 2019-05-09 | The Regents Of The University Of California | Casz compositions and methods of use |
| US12227753B2 (en) | 2017-11-01 | 2025-02-18 | The Regents Of The University Of California | CasY compositions and methods of use |
| JP7164125B2 (ja) | 2018-01-05 | 2022-11-01 | ビリオントゥーワン，インコーポレイテッド | シーケンシングベースのアッセイの妥当性を確保するための品質管理鋳型 |
| WO2019157529A1 (en) | 2018-02-12 | 2019-08-15 | 10X Genomics, Inc. | Methods characterizing multiple analytes from individual cells or cell populations |
| US11639928B2 (en) | 2018-02-22 | 2023-05-02 | 10X Genomics, Inc. | Methods and systems for characterizing analytes from individual cells or cell populations |
| WO2019169028A1 (en) | 2018-02-28 | 2019-09-06 | 10X Genomics, Inc. | Transcriptome sequencing through random ligation |
| WO2019226648A1 (en) * | 2018-05-21 | 2019-11-28 | Battelle Memorial Institute | Methods and control compositions for sequencing and chemical analyses |
| US10801064B2 (en) * | 2018-05-31 | 2020-10-13 | Personalis, Inc. | Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples |
| WO2020028729A1 (en) | 2018-08-01 | 2020-02-06 | Mammoth Biosciences, Inc. | Programmable nuclease compositions and methods of use thereof |
| US12071651B2 (en) | 2018-08-06 | 2024-08-27 | Billiontoone, Inc. | Dilution tagging for quantification of biological targets |
| EP3884065B1 (en) | 2018-11-21 | 2024-08-14 | Karius, Inc. | Direct-to-library methods, systems, and compositions |
| US11441176B2 (en) | 2018-12-13 | 2022-09-13 | Battelle Memorial Institute | Methods and control compositions for a quantitative polymerase chain reaction |
| WO2020142754A2 (en) | 2019-01-04 | 2020-07-09 | Mammoth Biosciences, Inc. | Programmable nuclease improvements and compositions and methods for nucleic acid amplification and detection |
| WO2020185791A1 (en) | 2019-03-11 | 2020-09-17 | 10X Genomics, Inc. | Systems and methods for processing optically tagged beads |
| CN111508561B (zh) * | 2019-07-04 | 2024-02-06 | 北京希望组生物科技有限公司 | 同源序列和同源序列中串联重复序列的检测方法、计算机可读介质和应用 |
| CN110592208B (zh) * | 2019-10-08 | 2022-05-03 | 北京诺禾致源科技股份有限公司 | 地中海贫血症三类亚型的捕获探针组合物及其应用方法和应用装置 |
| EP4055610A4 (en) | 2019-11-05 | 2023-11-29 | Personalis, Inc. | ESTIMATION OF TUMOR PURITY FROM SINGLE SAMPLES |
| CN117015617B (zh) | 2021-02-23 | 2025-04-04 | 10X基因组学有限公司 | 基于探针的核酸和蛋白质分析 |
| EP4108783B1 (en) * | 2021-06-24 | 2024-02-21 | Miltenyi Biotec B.V. & Co. KG | Spatial sequencing with mictag |
| WO2023059654A1 (en) | 2021-10-05 | 2023-04-13 | Personalis, Inc. | Customized assays for personalized cancer monitoring |
| KR20250019610A (ko) | 2022-03-21 | 2025-02-10 | 빌리언투원, 인크. | 치료 모니터링을 위한 메틸화된 세포 유리 dna의 분자 계수 |
Family Cites Families (7)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US20030134293A1 (en) * | 1999-11-16 | 2003-07-17 | Zhiping Liu | Method for rapid and accurate identification of microorganisms |
| CA2426824A1 (en) * | 2000-10-24 | 2002-07-25 | The Board Of Trustees Of The Leland Stanford Junior University | Direct multiplex characterization of genomic dna |
| CN1668923A (zh) * | 2002-06-24 | 2005-09-14 | 佳能株式会社 | 带有标准探针的dna微阵列以及包含该阵列的试剂盒 |
| US7618780B2 (en) * | 2004-05-20 | 2009-11-17 | Trillion Genomics Limited | Use of mass labelled probes to detect target nucleic acids using mass spectrometry |
| WO2007106407A2 (en) * | 2006-03-10 | 2007-09-20 | Wyeth | Microarray for monitoring gene expression in multiple strains of streptococcus pneumoniae |
| US7897747B2 (en) * | 2006-05-25 | 2011-03-01 | The Board Of Trustees Of The Leland Stanford Junior University | Method to produce single stranded DNA of defined length and sequence and DNA probes produced thereby |
| BRPI1012951A2 (pt) * | 2009-06-09 | 2016-07-26 | Defyrus Inc | "administração de interferon para profilaxia ou tratamento de infecção por patôgeno" |
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- 2011-06-10 US US13/703,489 patent/US20130261196A1/en not_active Abandoned
- 2011-06-10 WO PCT/US2011/040106 patent/WO2011156795A2/en not_active Ceased
- 2011-06-10 SG SG2013001573A patent/SG186987A1/en unknown
- 2011-06-10 AU AU2011265205A patent/AU2011265205A1/en not_active Abandoned
- 2011-06-10 JP JP2013514408A patent/JP2013531983A/ja active Pending
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| US20130261196A1 (en) | 2013-10-03 |
| WO2011156795A3 (en) | 2012-04-05 |
| EP2580354A2 (en) | 2013-04-17 |
| EP2580354A4 (en) | 2013-10-30 |
| JP2013531983A (ja) | 2013-08-15 |
| AU2011265205A1 (en) | 2013-01-31 |
| WO2011156795A2 (en) | 2011-12-15 |
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