DK2446062T3 - Fremgangsmåder og systemer til phylogenetisk analyse - Google Patents
Fremgangsmåder og systemer til phylogenetisk analyseInfo
- Publication number
- DK2446062T3 DK2446062T3 DK10792771.7T DK10792771T DK2446062T3 DK 2446062 T3 DK2446062 T3 DK 2446062T3 DK 10792771 T DK10792771 T DK 10792771T DK 2446062 T3 DK2446062 T3 DK 2446062T3
- Authority
- DK
- Denmark
- Prior art keywords
- systems
- methods
- phylogenetic analysis
- phylogenetic
- analysis
- Prior art date
Links
Classifications
-
- 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
- C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
- C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
-
- 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
- C12Q1/6813—Hybridisation assays
- C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
- C12Q1/6837—Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
-
- 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
- C12Q2600/158—Expression markers
-
- Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
- Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
- Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
- Y02A90/00—Technologies having an indirect contribution to adaptation to climate change
- Y02A90/10—Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation
Landscapes
- Chemical & Material Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Organic Chemistry (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Analytical Chemistry (AREA)
- Zoology (AREA)
- Health & Medical Sciences (AREA)
- Engineering & Computer Science (AREA)
- Wood Science & Technology (AREA)
- Microbiology (AREA)
- Physics & Mathematics (AREA)
- Molecular Biology (AREA)
- Immunology (AREA)
- Biotechnology (AREA)
- Biophysics (AREA)
- Biochemistry (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- General Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
- Apparatus Associated With Microorganisms And Enzymes (AREA)
Applications Claiming Priority (5)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US22093709P | 2009-06-26 | 2009-06-26 | |
| US25956509P | 2009-11-09 | 2009-11-09 | |
| US31764410P | 2010-03-25 | 2010-03-25 | |
| US34781710P | 2010-05-24 | 2010-05-24 | |
| PCT/US2010/040106 WO2010151842A2 (en) | 2009-06-26 | 2010-06-25 | Methods and systems for phylogenetic analysis |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| DK2446062T3 true DK2446062T3 (da) | 2014-10-06 |
Family
ID=43387153
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| DK10792771.7T DK2446062T3 (da) | 2009-06-26 | 2010-06-25 | Fremgangsmåder og systemer til phylogenetisk analyse |
Country Status (7)
| Country | Link |
|---|---|
| US (2) | US20120165215A1 (da) |
| EP (1) | EP2446062B1 (da) |
| JP (1) | JP5795579B2 (da) |
| CA (1) | CA2766312C (da) |
| DK (1) | DK2446062T3 (da) |
| SG (1) | SG177366A1 (da) |
| WO (1) | WO2010151842A2 (da) |
Families Citing this family (71)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2009045670A1 (en) * | 2007-10-05 | 2009-04-09 | Exxonmobil Upstream Research Company | Method and apparatus for detection of a liquid under a surface |
| US9228240B2 (en) | 2010-06-03 | 2016-01-05 | California Institute Of Technology | Methods for detecting and quantifying viable bacterial endo-spores |
| EP2665815B1 (en) | 2011-01-17 | 2017-08-09 | Life Technologies Corporation | Enzymatic ligation of nucleic acids |
| DK2665833T3 (da) | 2011-01-17 | 2017-07-24 | Life Technologies Corp | Arbejdsprocedure for påvisning af ligander ved anvendelse af nukleinsyrer |
| US8712712B2 (en) * | 2011-03-29 | 2014-04-29 | Bio-Rad Laboratories, Inc. | System and method for producing statistically valid assay means and ranges for quality control materials |
| JP5877902B2 (ja) | 2011-08-17 | 2016-03-08 | マイクロバイオーム セラピューティクス，エルエルシー | バクテロイデス門の胃腸管微生物相対フィルミクテス門の微生物相の比を上昇させるための組成物および製剤の使用 |
| EP2776866B1 (en) | 2011-11-11 | 2020-06-17 | Exxonmobil Upstream Research Company | Method for determining the location, size, and fluid composition of a subsurface hydrocarbon accumulation |
| EP2776667B1 (en) | 2011-11-11 | 2022-03-02 | ExxonMobil Upstream Research Company | Method and system for reservoir surveillance utilizing clumped isotope and noble gas data |
| FR2985519B1 (fr) * | 2012-01-10 | 2016-02-19 | Biomerieux Sa | Procede de detection et d'identification directe par voie optique d'un microorganisme dans un echantillon biologique |
| US9725770B2 (en) | 2012-03-06 | 2017-08-08 | The Regents Of The University Of California | Methods and compositions for identification of source of microbial contamination in a sample |
| AU2013292610B2 (en) | 2012-07-17 | 2018-05-17 | Myriad Women's Health, Inc. | System and methods for detecting genetic variation |
| US9092401B2 (en) | 2012-10-31 | 2015-07-28 | Counsyl, Inc. | System and methods for detecting genetic variation |
| JP2014023434A (ja) * | 2012-07-24 | 2014-02-06 | Lotte Co Ltd | デンタルプラークの細菌叢の解析方法 |
| US8906668B2 (en) | 2012-11-23 | 2014-12-09 | Seres Health, Inc. | Synergistic bacterial compositions and methods of production and use thereof |
| US20140179554A1 (en) * | 2012-12-21 | 2014-06-26 | Hutman Diagnostics AG | Microarrays |
| WO2014107619A1 (en) | 2013-01-04 | 2014-07-10 | Second Genome, Inc. | Microbiome modulation index |
| KR102222273B1 (ko) | 2013-02-04 | 2021-03-08 | 세레스 테라퓨틱스, 인코포레이티드 | 조성물 및 방법 |
| EP2951283A4 (en) | 2013-02-04 | 2017-01-25 | Seres Therapeutics, Inc. | Compositions and methods |
| US10150982B2 (en) | 2013-03-14 | 2018-12-11 | Second Genome, Inc. | Microbial ecology shift assay |
| WO2014152281A2 (en) * | 2013-03-15 | 2014-09-25 | The Broad Institute, Inc. | Ribosomal ribonucleic acid hybridization for organism identification |
| AU2014232370B2 (en) | 2013-03-15 | 2018-11-01 | Seres Therapeutics, Inc. | Network-based microbial compositions and methods |
| WO2014186471A1 (en) * | 2013-05-15 | 2014-11-20 | John Hulls | Composting system and method |
| KR102379658B1 (ko) | 2013-11-25 | 2022-03-28 | 세레스 테라퓨틱스, 인코포레이티드 | 상승적 박테리아 조성물 및 그것의 생산 방법 및 용도 |
| WO2015084347A1 (en) | 2013-12-04 | 2015-06-11 | Exxonmobil Upstream Research Company | Method and system for detection of a material within a region of the earth |
| US9956282B2 (en) | 2013-12-16 | 2018-05-01 | Seres Therapeutics, Inc. | Bacterial compositions and methods of use thereof for treatment of immune system disorders |
| WO2015103165A1 (en) * | 2013-12-31 | 2015-07-09 | Biota Technology, Inc. | Microbiome based systems, apparatus and methods for monitoring and controlling industrial processes and systems |
| US11047232B2 (en) | 2013-12-31 | 2021-06-29 | Biota Technology, Inc | Microbiome based systems, apparatus and methods for the exploration and production of hydrocarbons |
| US11028449B2 (en) | 2013-12-31 | 2021-06-08 | Biota Technology, Inc. | Microbiome based systems, apparatus and methods for monitoring and controlling industrial processes and systems |
| US9387451B2 (en) | 2014-02-03 | 2016-07-12 | International Business Machines Corporation | Flow cell array and uses thereof |
| EP3114505B1 (en) | 2014-03-07 | 2022-07-20 | ExxonMobil Upstream Research Company | Exploration method and system for detection of hydrocarbons from the water column |
| CN106414775A (zh) * | 2014-04-11 | 2017-02-15 | 宾夕法尼亚大学董事会 | 用于宏基因组生物标志检测的组合物和方法 |
| EP3140313B1 (en) * | 2014-05-04 | 2020-02-26 | Salix Pharmaceuticals, Inc. | Ibs microbiota and uses thereof |
| US20170081707A1 (en) * | 2014-05-06 | 2017-03-23 | Phylagen, Inc. | Monitoring and managing a facility microbiome |
| EP3170033B1 (en) | 2014-07-18 | 2023-07-19 | ExxonMobil Technology and Engineering Company | Method and system for identifying and sampling hydrocarbons |
| US9638828B2 (en) | 2014-07-18 | 2017-05-02 | Exxonmobil Upstream Research Company | Method and system for performing surveying and sampling in a body of water |
| US9453828B2 (en) | 2014-07-18 | 2016-09-27 | Exxonmobil Upstream Research Company | Method and system for identifying and sampling hydrocarbons with buoys |
| CN107075588B (zh) | 2014-10-21 | 2023-03-21 | 普梭梅根公司 | 用于微生物组来源的诊断和治疗的方法及系统 |
| US10410749B2 (en) | 2014-10-21 | 2019-09-10 | uBiome, Inc. | Method and system for microbiome-derived characterization, diagnostics and therapeutics for cutaneous conditions |
| JP6514549B2 (ja) * | 2015-04-03 | 2019-05-15 | 住友化学株式会社 | 微生物叢解析システム、判定システム、微生物叢解析方法及び判定方法 |
| EP3283084A4 (en) * | 2015-04-13 | 2018-12-19 | Ubiome Inc. | Method and system for microbiome-derived characterization, diagnostics and therapeutics for cutaneous conditions |
| JP6643815B2 (ja) * | 2015-05-15 | 2020-02-12 | 森永乳業株式会社 | 腸内状態の判定方法、および腸内状態の判定装置 |
| WO2017059297A1 (en) * | 2015-10-02 | 2017-04-06 | Phylagen, Inc. | Product authentication and tracking |
| WO2017209990A1 (en) | 2016-05-31 | 2017-12-07 | Exxonmobil Upstream Research Company | METHODS FOR lSOLATING NUCLEIC ACIDS FROM SAMPLES |
| US10496695B2 (en) * | 2016-06-06 | 2019-12-03 | Think-Cell Software Gmbh | Automated data extraction from scatter plot images |
| WO2017214557A1 (en) | 2016-06-10 | 2017-12-14 | Counsyl, Inc. | Nucleic acid sequencing adapters and uses thereof |
| US10570735B2 (en) | 2016-07-01 | 2020-02-25 | Exxonmobil Upstream Research Comapny | Methods to determine conditions of a hydrocarbon reservoir |
| US20180030403A1 (en) | 2016-07-28 | 2018-02-01 | Bobban Subhadra | Devices, systems and methods for the production of humanized gut commensal microbiota |
| US11959125B2 (en) * | 2016-09-15 | 2024-04-16 | Sun Genomics, Inc. | Universal method for extracting nucleic acid molecules from a diverse population of one or more types of microbes in a sample |
| US11854666B2 (en) | 2016-09-29 | 2023-12-26 | Myriad Women's Health, Inc. | Noninvasive prenatal screening using dynamic iterative depth optimization |
| US11015154B2 (en) | 2016-11-09 | 2021-05-25 | The Regents Of The University Of California | Methods for identifying interactions amongst microorganisms |
| WO2018144216A1 (en) | 2017-01-31 | 2018-08-09 | Counsyl, Inc. | Methods and compositions for enrichment of target polynucleotides |
| US10752946B2 (en) | 2017-01-31 | 2020-08-25 | Myriad Women's Health, Inc. | Methods and compositions for enrichment of target polynucleotides |
| WO2018175907A1 (en) | 2017-03-24 | 2018-09-27 | Counsyl, Inc. | Copy number variant caller |
| EP3668527A1 (en) | 2017-08-14 | 2020-06-24 | Seres Therapeutics, Inc. | Compositions and methods for treating cholestatic disease |
| WO2019084245A1 (en) | 2017-10-27 | 2019-05-02 | Myriad Women's Health, Inc. | METHODS AND COMPOSITIONS FOR PREPARING NUCLEIC ACID LIBRARIES |
| JP6995604B2 (ja) * | 2017-12-15 | 2022-01-14 | 東洋鋼鈑株式会社 | 一塩基多型検出用プローブの設計方法及びプローブセット |
| CN109935376B (zh) * | 2017-12-18 | 2022-06-28 | 中国核动力研究设计院 | 一种核电厂严重事故下β射线对仪表损伤的量化方法 |
| US11525164B2 (en) | 2018-03-27 | 2022-12-13 | The Trustees Of Columbia University In The City Of New York | Spatial metagenomic characterization of microbial biogeography |
| CN109113732B (zh) * | 2018-08-09 | 2022-03-29 | 中国石油天然气股份有限公司 | 储层非均质性的确定方法及装置 |
| CN109270032B (zh) * | 2018-08-20 | 2021-08-20 | 杭州腾海科技有限公司 | 一种水体藻类在线监测装置 |
| CN109273053B (zh) * | 2018-09-27 | 2021-10-08 | 华中科技大学鄂州工业技术研究院 | 一种高通量测序的微生物数据处理方法 |
| WO2020245785A2 (en) * | 2019-06-06 | 2020-12-10 | Tata Consultancy Services Limited | Method and system for identification of candidate target sites for combating pathogens |
| CN110484637B (zh) * | 2019-09-19 | 2020-06-09 | 南京大学 | 一种水体粪便污染检测的引物、试剂盒及高通量溯源方法 |
| US10942165B1 (en) * | 2019-12-20 | 2021-03-09 | Dnae Group Holdings Ltd | Methods for preparing cartridges for in vitro diagnostics and related systems |
| KR102676313B1 (ko) * | 2020-02-27 | 2024-06-17 | 경희대학교 산학협력단 | 유전자 선별 방법 및 장치 |
| CN111477276B (zh) * | 2020-04-02 | 2020-12-15 | 上海之江生物科技股份有限公司 | 微生物的种特异共有序列的获得方法、装置及应用 |
| CN111847778A (zh) * | 2020-07-15 | 2020-10-30 | 北京天诚众合科技发展有限公司 | 一种景观水体、坑塘治理维护的方法 |
| JP7414029B2 (ja) * | 2021-02-26 | 2024-01-16 | 横河電機株式会社 | 測定方法及び測定システム |
| CN113096734B (zh) * | 2021-05-11 | 2021-12-14 | 中国科学院水生生物研究所 | 一种筛选用于二倍体群体亲子鉴定的分子标记组合的方法 |
| CN117473398B (zh) * | 2023-12-26 | 2024-03-19 | 四川国蓝中天环境科技集团有限公司 | 一种基于运渣车活动的城市扬尘污染源分类方法 |
| CN117497065B (zh) * | 2023-12-28 | 2024-04-02 | 中国农业大学 | 筛选促进多年生牧草再生的微生物种类的方法及其所用装置与计算机可读存储介质 |
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| Publication number | Priority date | Publication date | Assignee | Title |
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| US7115364B1 (en) * | 1993-10-26 | 2006-10-03 | Affymetrix, Inc. | Arrays of nucleic acid probes on biological chips |
| AU1337099A (en) * | 1997-10-29 | 1999-05-17 | Mira Diagnostica Gmbh | Method for identifying micro-organisms |
| US7955794B2 (en) * | 2000-09-21 | 2011-06-07 | Illumina, Inc. | Multiplex nucleic acid reactions |
| US20020187490A1 (en) * | 2001-06-07 | 2002-12-12 | Michigan State University | Microbial identification chip based on DNA-DNA hybridization |
| CN1602362A (zh) * | 2001-12-11 | 2005-03-30 | 阿菲梅特里克斯公司 | 确定转录活性的方法 |
| JP2004357550A (ja) * | 2003-06-03 | 2004-12-24 | Sankyo Co Ltd | 遺伝子発現データの解析方法 |
| EP1687445A4 (en) * | 2003-09-23 | 2007-03-28 | Atom Sciences Inc | POLYMERIC NUCLEIC ACID HYBRIDIZATION SUBSTANCES |
| US7323308B2 (en) * | 2004-09-03 | 2008-01-29 | Affymetrix, Inc. | Methods of genetic analysis of E. coli |
| CA2582137A1 (en) * | 2004-10-05 | 2007-02-15 | Wyeth | Probe arrays for detecting multiple strains of different species |
| JP2007060953A (ja) * | 2005-08-30 | 2007-03-15 | Hitachi Ltd | 細菌叢の分析方法 |
| EP1770171A1 (en) * | 2005-09-29 | 2007-04-04 | Universität Zu Köln | DNA microarray for rapid identification of Candida albicans in blood cultures. |
| US20070269813A1 (en) * | 2005-11-03 | 2007-11-22 | Dewhirst Floyd E | Methods and arrays for identifying human microflora |
| US20070122831A1 (en) * | 2005-11-12 | 2007-05-31 | Dave Bachoon | Detection and source identification of microbial contaminants in water samples |
| KR100813263B1 (ko) * | 2006-08-17 | 2008-03-13 | 삼성전자주식회사 | 표적 서열 검출용 프로브 설계 방법 및 상기 프로브를이용한 표적 서열 검출 방법 |
| DK2099935T3 (da) * | 2006-11-30 | 2014-04-07 | Univ California | Array for detektion af mikrober |
| US8080372B2 (en) * | 2007-04-11 | 2011-12-20 | Canon Kabushiki Kaisha | Method for detecting nucleic acid in sample, method for designing probes, system for designing probes therefor |
-
2010
- 2010-06-25 CA CA2766312A patent/CA2766312C/en active Active
- 2010-06-25 JP JP2012517804A patent/JP5795579B2/ja active Active
- 2010-06-25 WO PCT/US2010/040106 patent/WO2010151842A2/en active Application Filing
- 2010-06-25 DK DK10792771.7T patent/DK2446062T3/da active
- 2010-06-25 SG SG2011096260A patent/SG177366A1/en unknown
- 2010-06-25 US US13/379,839 patent/US20120165215A1/en not_active Abandoned
- 2010-06-25 EP EP10792771.7A patent/EP2446062B1/en active Active
-
2018
- 2018-03-02 US US15/910,905 patent/US20180223339A1/en not_active Abandoned
Also Published As
| Publication number | Publication date |
|---|---|
| US20120165215A1 (en) | 2012-06-28 |
| CA2766312C (en) | 2020-04-14 |
| WO2010151842A3 (en) | 2011-03-03 |
| JP5795579B2 (ja) | 2015-10-14 |
| EP2446062A2 (en) | 2012-05-02 |
| US20180223339A1 (en) | 2018-08-09 |
| EP2446062A4 (en) | 2013-03-20 |
| EP2446062B1 (en) | 2014-08-13 |
| JP2012531211A (ja) | 2012-12-10 |
| WO2010151842A2 (en) | 2010-12-29 |
| CA2766312A1 (en) | 2010-12-29 |
| SG177366A1 (en) | 2012-02-28 |
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