CN104937600B - 为数字pcr实验设计者所用的方法和系统 - Google Patents

为数字pcr实验设计者所用的方法和系统 Download PDF

Info

Publication number
CN104937600B
CN104937600B CN201380052860.3A CN201380052860A CN104937600B CN 104937600 B CN104937600 B CN 104937600B CN 201380052860 A CN201380052860 A CN 201380052860A CN 104937600 B CN104937600 B CN 104937600B
Authority
CN
China
Prior art keywords
dpcr
experiment
user
dilution
experimental designs
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.)
Active
Application number
CN201380052860.3A
Other languages
English (en)
Chinese (zh)
Other versions
CN104937600A (zh
Inventor
奈弗蒂塔·苏米·马朱木达尔
托马斯·维塞尔
大卫·C·伍欧
马克新·希克拉
戈登·亚纳威
史韦塔·莱贾德
乔安娜·兰科斯特尔
杰弗里·马克斯
丹尼尔·维塞尔
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Life Technologies Corp
Original Assignee
Life Technologies Corp
Priority date (The priority date 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 date listed.)
Filing date
Publication date
Application filed by Life Technologies Corp filed Critical Life Technologies Corp
Priority to CN201711318728.9A priority Critical patent/CN108229104B/zh
Publication of CN104937600A publication Critical patent/CN104937600A/zh
Application granted granted Critical
Publication of CN104937600B publication Critical patent/CN104937600B/zh
Active legal-status Critical Current
Anticipated expiration legal-status Critical

Links

Classifications

    • 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
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/20—Polymerase chain reaction [PCR]; Primer or probe design; Probe optimisation
    • 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
    • C12Q1/686—Polymerase chain reaction [PCR]
    • 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
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • 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
    • 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
    • G16B40/10—Signal processing, e.g. from mass spectrometry [MS] or from PCR

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Engineering & Computer Science (AREA)
  • Chemical & Material Sciences (AREA)
  • Medical Informatics (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Evolutionary Biology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Molecular Biology (AREA)
  • Genetics & Genomics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Organic Chemistry (AREA)
  • Zoology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Wood Science & Technology (AREA)
  • Artificial Intelligence (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Data Mining & Analysis (AREA)
  • Databases & Information Systems (AREA)
  • Epidemiology (AREA)
  • Evolutionary Computation (AREA)
  • Public Health (AREA)
  • Software Systems (AREA)
  • Bioethics (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
  • Management, Administration, Business Operations System, And Electronic Commerce (AREA)
  • Automatic Analysis And Handling Materials Therefor (AREA)
  • Testing, Inspecting, Measuring Of Stereoscopic Televisions And Televisions (AREA)
CN201380052860.3A 2012-09-14 2013-09-13 为数字pcr实验设计者所用的方法和系统 Active CN104937600B (zh)

Priority Applications (1)

Application Number Priority Date Filing Date Title
CN201711318728.9A CN108229104B (zh) 2012-09-14 2013-09-13 为数字pcr实验设计者所用的方法和系统

Applications Claiming Priority (11)

Application Number Priority Date Filing Date Title
US201261701380P 2012-09-14 2012-09-14
US61/701,380 2012-09-14
US201261714137P 2012-10-15 2012-10-15
US61/714,137 2012-10-15
US201361758216P 2013-01-29 2013-01-29
US61/758,216 2013-01-29
US201361788272P 2013-03-15 2013-03-15
US61/788,272 2013-03-15
US201361830507P 2013-06-03 2013-06-03
US61/830,507 2013-06-03
PCT/US2013/059815 WO2014043581A1 (en) 2012-09-14 2013-09-13 Methods and systems for a digital pcr experiment designer

Related Child Applications (1)

Application Number Title Priority Date Filing Date
CN201711318728.9A Division CN108229104B (zh) 2012-09-14 2013-09-13 为数字pcr实验设计者所用的方法和系统

Publications (2)

Publication Number Publication Date
CN104937600A CN104937600A (zh) 2015-09-23
CN104937600B true CN104937600B (zh) 2018-01-16

Family

ID=49305105

Family Applications (2)

Application Number Title Priority Date Filing Date
CN201380052860.3A Active CN104937600B (zh) 2012-09-14 2013-09-13 为数字pcr实验设计者所用的方法和系统
CN201711318728.9A Expired - Fee Related CN108229104B (zh) 2012-09-14 2013-09-13 为数字pcr实验设计者所用的方法和系统

Family Applications After (1)

Application Number Title Priority Date Filing Date
CN201711318728.9A Expired - Fee Related CN108229104B (zh) 2012-09-14 2013-09-13 为数字pcr实验设计者所用的方法和系统

Country Status (11)

Country Link
US (2) US10984888B2 (https=)
EP (2) EP2895978A1 (https=)
JP (1) JP2016500856A (https=)
KR (1) KR20150083992A (https=)
CN (2) CN104937600B (https=)
AU (1) AU2013315167A1 (https=)
BR (1) BR112015005702A2 (https=)
IN (1) IN2015DN02987A (https=)
RU (1) RU2015113523A (https=)
SG (1) SG11201502797PA (https=)
WO (1) WO2014043581A1 (https=)

Families Citing this family (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
SG184480A1 (en) 2010-04-09 2012-11-29 Life Technologies Corp VISUALIZATION TOOL FOR qPCR GENOTYPING DATA
US10612080B2 (en) 2014-09-22 2020-04-07 Roche Molecular Systems, Inc. Digital PCR for non-invasive prenatal testing
JP7080828B2 (ja) * 2016-05-27 2022-06-06 ライフ テクノロジーズ コーポレーション 生物学的データに対するグラフィカルユーザインターフェースのための方法およびシステム
CN106906295B (zh) * 2017-03-31 2020-12-08 天津诺禾致源生物信息科技有限公司 数字pcr检测基因点突变方法及装置
CN107312850A (zh) * 2017-07-19 2017-11-03 华东医药（杭州）基因科技有限公司 一种pcr无效扩增的检测方法
CN107784197B (zh) * 2017-10-27 2021-01-19 领航基因科技（杭州）有限公司 一种pcr实验优化方法
JP7098096B2 (ja) * 2017-11-07 2022-07-11 株式会社リコー 検出精度特定方法、検出精度特定装置、及び検出精度特定プログラム
US11198130B2 (en) * 2018-06-21 2021-12-14 Sharp Life Science (Eu) Limited EWOD system and methods to increase dynamic range for digital nucleic acid amplification
US11060141B1 (en) * 2019-12-23 2021-07-13 Stilla Technologies Multiplex drop-off digital polymerase chain reaction methods

Citations (10)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000051045A1 (en) * 1999-02-26 2000-08-31 Stewart Lisa E Expert system utilizing a knowledge base and design of experiment (doe) techniques
EP1785925A2 (de) * 2005-11-14 2007-05-16 Deutsche Telekom AG Verfahren und Architektur zur Anwendung elektronischer Formulare im medizinischen Bereich
CN101052041A (zh) * 2007-05-10 2007-10-10 浙江大学 医疗信息系统集成引擎
CN101452503A (zh) * 2008-11-28 2009-06-10 上海生物信息技术研究中心 一种异构临床医疗信息共享系统和方法
CN101880719A (zh) * 2010-07-16 2010-11-10 中国水产科学研究院黄海水产研究所 大菱鲆亲子鉴定的微卫星多重pcr方法
CN102191314A (zh) * 2010-03-12 2011-09-21 孙朝辉 一种基于pcr的低成本、简单、高效的snp检测方法
CN102203282A (zh) * 2008-06-25 2011-09-28 生命技术公司 使用大规模fet阵列测量分析物的方法和装置
CN102321624A (zh) * 2011-08-30 2012-01-18 天津农学院 革胡子鲶生长激素基因表达定量pcr分析中用于内参基因扩增的引物序列
CN102402650A (zh) * 2001-11-09 2012-04-04 生命技术公司 利用基因表达分布图识别、监控和治疗疾病以及鉴定生物学状态
CN102654891A (zh) * 2011-03-03 2012-09-05 深圳市徕康医疗信息技术有限公司 一种覆盖社区和家庭的健康管理系统

Family Cites Families (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20020037507A1 (en) * 1999-12-16 2002-03-28 Walkerpeach Cindy R. Compositions, methods and kits for allele discrimination
US9487822B2 (en) 2008-03-19 2016-11-08 Fluidigm Corporation Method and apparatus for determining copy number variation using digital PCR
EP4008795A1 (en) 2008-08-12 2022-06-08 Stokes Bio Limited Methods for digital pcr
US8285734B2 (en) * 2008-10-29 2012-10-09 International Business Machines Corporation Comparison of documents based on similarity measures
CN102140541B (zh) * 2011-02-15 2012-11-21 北京林业大学 一种香石竹四种病毒的同步检测方法

Patent Citations (10)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000051045A1 (en) * 1999-02-26 2000-08-31 Stewart Lisa E Expert system utilizing a knowledge base and design of experiment (doe) techniques
CN102402650A (zh) * 2001-11-09 2012-04-04 生命技术公司 利用基因表达分布图识别、监控和治疗疾病以及鉴定生物学状态
EP1785925A2 (de) * 2005-11-14 2007-05-16 Deutsche Telekom AG Verfahren und Architektur zur Anwendung elektronischer Formulare im medizinischen Bereich
CN101052041A (zh) * 2007-05-10 2007-10-10 浙江大学 医疗信息系统集成引擎
CN102203282A (zh) * 2008-06-25 2011-09-28 生命技术公司 使用大规模fet阵列测量分析物的方法和装置
CN101452503A (zh) * 2008-11-28 2009-06-10 上海生物信息技术研究中心 一种异构临床医疗信息共享系统和方法
CN102191314A (zh) * 2010-03-12 2011-09-21 孙朝辉 一种基于pcr的低成本、简单、高效的snp检测方法
CN101880719A (zh) * 2010-07-16 2010-11-10 中国水产科学研究院黄海水产研究所 大菱鲆亲子鉴定的微卫星多重pcr方法
CN102654891A (zh) * 2011-03-03 2012-09-05 深圳市徕康医疗信息技术有限公司 一种覆盖社区和家庭的健康管理系统
CN102321624A (zh) * 2011-08-30 2012-01-18 天津农学院 革胡子鲶生长激素基因表达定量pcr分析中用于内参基因扩增的引物序列

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
Theoretical Design and Analysis of Multivolume Digital Assays with Wide Dynamic Range Validated Experimentally with Microfluidic Digital PCR;Jason E. Kreutz et al;《analytical chemistry》;20111007;第83卷(第21期);第8158-8168页 *

Also Published As

Publication number Publication date
WO2014043581A1 (en) 2014-03-20
US20150278437A1 (en) 2015-10-01
EP2895978A1 (en) 2015-07-22
EP4044188A1 (en) 2022-08-17
SG11201502797PA (en) 2015-05-28
CN108229104B (zh) 2022-06-10
JP2016500856A (ja) 2016-01-14
RU2015113523A (ru) 2016-11-10
IN2015DN02987A (https=) 2015-09-18
KR20150083992A (ko) 2015-07-21
US10984888B2 (en) 2021-04-20
CN108229104A (zh) 2018-06-29
BR112015005702A2 (pt) 2017-07-04
US20210313010A1 (en) 2021-10-07
AU2013315167A1 (en) 2015-04-30
CN104937600A (zh) 2015-09-23

Similar Documents

Publication Publication Date Title
CN104937600B (zh) 为数字pcr实验设计者所用的方法和系统
Wu et al. Limitations of alignment-free tools in total RNA-seq quantification
Tarazona et al. Harmonization of quality metrics and power calculation in multi-omic studies
Lillacci et al. Parameter estimation and model selection in computational biology
Meng et al. Local versus global biological network alignment
Molinaro et al. Prediction error estimation: a comparison of resampling methods
Lindahl et al. Sequence dependency of canonical base pair opening in the DNA double helix
Castellano-Escuder et al. POMAShiny: A user-friendly web-based workflow for metabolomics and proteomics data analysis
Lillacci et al. A distribution‐matching method for parameter estimation and model selection in computational biology
Miotto et al. Competing endogenous RNA crosstalk at system level
Silber et al. Accelerating reaction modeling using dynamic flow experiments, part 2: development of a digital twin
Weiß et al. Using small samples to estimate neutral component size and robustness in the genotype–phenotype map of RNA secondary structure
Zhang et al. SPARCS: a web server to analyze (un) structured regions in coding RNA sequences
US10385385B2 (en) Methods and systems for volume variation modeling in digital PCR
Zimmer et al. Deterministic inference for stochastic systems using multiple shooting and a linear noise approximation for the transition probabilities
Mitchell et al. Common data models to streamline metabolomics processing and annotation, and implementation in a Python pipeline
Liu et al. A novel framework for evaluating the performance of codon usage bias metrics
Argyropoulos et al. Modeling bias and variation in the stochastic processes of small RNA sequencing
Zhao et al. A Bayesian nonparametric mixture model for selecting genes and gene subnetworks
Riley et al. Pd5: A general purpose library for primer design software
Chen et al. Flexible methods for uncertainty estimation of digital PCR data
US10385386B2 (en) Methods and systems for PCR quantitation
Mehmood et al. Exon-level estimates improve the detection of differentially expressed genes in RNA-seq studies
Vo et al. Shrinkage estimation of gene interaction networks in single-cell RNA sequencing data
Ghosh et al. Transcriptomic analysis of human naïve and primed pluripotent stem cells

Legal Events

Date Code Title Description
PB01 Publication
C10 Entry into substantive examination
SE01 Entry into force of request for substantive examination
GR01 Patent grant
GR01 Patent grant