AU2013217079B2 - Data analysis of DNA sequences - Google Patents

Data analysis of DNA sequences Download PDF

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Publication number
AU2013217079B2
AU2013217079B2 AU2013217079A AU2013217079A AU2013217079B2 AU 2013217079 B2 AU2013217079 B2 AU 2013217079B2 AU 2013217079 A AU2013217079 A AU 2013217079A AU 2013217079 A AU2013217079 A AU 2013217079A AU 2013217079 B2 AU2013217079 B2 AU 2013217079B2
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AU
Australia
Prior art keywords
sequence
genome
sequences
reference data
data
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.)
Ceased
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AU2013217079A
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English (en)
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AU2013217079A1 (en
Inventor
Zehui Cao
Navin ELANGO
Karthik Narayan Muthuranman
Lakshmi SASTRY-DENT
Shreedharan SRIRAM
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Corteva Agriscience LLC
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Dow AgroSciences LLC
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Publication of AU2013217079A1 publication Critical patent/AU2013217079A1/en
Application granted granted Critical
Publication of AU2013217079B2 publication Critical patent/AU2013217079B2/en
Ceased legal-status Critical Current
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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
    • G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
    • 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
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • 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
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/10—Sequence alignment; Homology search
    • 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
    • G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
    • G16B50/10—Ontologies; Annotations

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  • Physics & Mathematics (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Evolutionary Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Theoretical Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Biophysics (AREA)
  • Medical Informatics (AREA)
  • Bioethics (AREA)
  • Databases & Information Systems (AREA)
  • Chemical & Material Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Management, Administration, Business Operations System, And Electronic Commerce (AREA)
AU2013217079A 2012-02-08 2013-02-07 Data analysis of DNA sequences Ceased AU2013217079B2 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201261596540P 2012-02-08 2012-02-08
US61/596,540 2012-02-08
US201261601090P 2012-02-21 2012-02-21
US61/601,090 2012-02-21
PCT/US2013/025087 WO2013119770A1 (en) 2012-02-08 2013-02-07 Data analysis of dna sequences

Publications (2)

Publication Number Publication Date
AU2013217079A1 AU2013217079A1 (en) 2014-08-07
AU2013217079B2 true AU2013217079B2 (en) 2018-04-19

Family

ID=48946332

Family Applications (1)

Application Number Title Priority Date Filing Date
AU2013217079A Ceased AU2013217079B2 (en) 2012-02-08 2013-02-07 Data analysis of DNA sequences

Country Status (13)

Country Link
US (1) US20130211729A1 (enExample)
EP (1) EP2812831A4 (enExample)
JP (1) JP6314091B2 (enExample)
KR (1) KR20140119723A (enExample)
CN (1) CN104272311B (enExample)
AR (1) AR089934A1 (enExample)
AU (1) AU2013217079B2 (enExample)
BR (1) BR112014019047A2 (enExample)
CA (1) CA2863524A1 (enExample)
IL (1) IL233819A0 (enExample)
IN (1) IN2014DN05963A (enExample)
TW (1) TWI596493B (enExample)
WO (1) WO2013119770A1 (enExample)

Families Citing this family (26)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
KR102269769B1 (ko) 2013-11-04 2021-06-28 코르테바 애그리사이언스 엘엘씨 최적 메이즈 유전자좌
BR102014027442B1 (pt) 2013-11-04 2022-09-27 Dow Agrosciences Llc Molécula de ácido nucleico recombinante, uso de uma planta de milho, parte de planta de milho ou célula de planta de milho compreendendo a mesma e método para produzir uma célula vegetal transgênica compreendendo um dna de interesse
MX358066B (es) * 2013-11-04 2018-08-03 Dow Agrosciences Llc Óptimos loci de soya.
UY35814A (es) 2013-11-04 2015-05-29 Dow Agrosciences Llc ?lugares óptimos para la soja?.
CN103824001A (zh) * 2014-02-27 2014-05-28 北京诺禾致源生物信息科技有限公司 染色体的检测方法和装置
US9600599B2 (en) * 2014-05-13 2017-03-21 Spiral Genetics, Inc. Prefix burrows-wheeler transformation with fast operations on compressed data
TWI571763B (zh) * 2014-12-01 2017-02-21 財團法人資訊工業策進會 次世代定序分析系統及其次世代定序分析方法
US9859394B2 (en) 2014-12-18 2018-01-02 Agilome, Inc. Graphene FET devices, systems, and methods of using the same for sequencing nucleic acids
US10429342B2 (en) 2014-12-18 2019-10-01 Edico Genome Corporation Chemically-sensitive field effect transistor
US10006910B2 (en) 2014-12-18 2018-06-26 Agilome, Inc. Chemically-sensitive field effect transistors, systems, and methods for manufacturing and using the same
US9857328B2 (en) 2014-12-18 2018-01-02 Agilome, Inc. Chemically-sensitive field effect transistors, systems and methods for manufacturing and using the same
US10020300B2 (en) 2014-12-18 2018-07-10 Agilome, Inc. Graphene FET devices, systems, and methods of using the same for sequencing nucleic acids
US9618474B2 (en) 2014-12-18 2017-04-11 Edico Genome, Inc. Graphene FET devices, systems, and methods of using the same for sequencing nucleic acids
KR101881838B1 (ko) * 2015-06-24 2018-07-25 사회복지법인 삼성생명공익재단 유전자의 전좌를 분석하는 방법 및 장치
US10633703B2 (en) 2015-11-10 2020-04-28 Dow Agrosciences Llc Methods and systems for predicting the risk of transgene silencing
TWI582631B (zh) * 2015-11-20 2017-05-11 財團法人資訊工業策進會 用以分析細菌菌種之定序資料的系統及其方法
WO2017101112A1 (zh) * 2015-12-18 2017-06-22 云舟生物科技（广州）有限公司 载体设计方法及载体设计装置
EP3459115A4 (en) 2016-05-16 2020-04-08 Agilome, Inc. GRAPHENE FETING DEVICES, SYSTEMS, AND METHODS OF USE THEREOF FOR NUCLEIC ACID SEQUENCING
TWI629607B (zh) * 2017-08-15 2018-07-11 極諾生技股份有限公司 建立腸道菌數據庫的方法和相關檢測系統
US10649982B2 (en) 2017-11-09 2020-05-12 Fry Laboratories, LLC Automated database updating and curation
EP4082018A4 (en) * 2019-12-23 2024-01-10 Cold Spring Harbor Laboratory Mixseq: mixture sequencing using compressed sensing for in-situ and in-vitro applications
KR102322308B1 (ko) 2020-03-27 2021-11-05 주식회사 클리노믹스 일부 오믹스 정보를 활용하여 전체 오믹스 정보로 확대 생산하는 장치 및 방법
CN111613272B (zh) * 2020-05-21 2023-10-13 西湖大学 程序化框架gRNA及其应用
CN113724783B (zh) * 2021-06-16 2022-04-12 北京阅微基因技术股份有限公司 一种短串联重复序列重复数的检测和分型方法
US12112792B2 (en) * 2021-08-10 2024-10-08 Micron Technology, Inc. Memory device for wafer-on-wafer formed memory and logic
CN116343923B (zh) * 2023-03-21 2023-12-08 哈尔滨工业大学 一种基因组结构变异同源性识别方法

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20110030086A1 (en) * 2004-09-29 2011-02-03 Pioneer Hi-Bred International, Inc. Corn event das-59122-7 and methods for detection thereof

Family Cites Families (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20030204317A1 (en) * 2002-04-26 2003-10-30 Affymetrix, Inc. Methods, systems and software for displaying genomic sequence and annotations
JP2004139254A (ja) * 2002-10-16 2004-05-13 Nec Soft Ltd 近傍遺伝子情報検索装置及び方法
US20040241657A1 (en) * 2003-05-28 2004-12-02 Perlegen Sciences, Inc. Liver related disease compositions and methods
GB2413796B (en) * 2004-03-25 2006-03-29 Global Genomics Ab Methods and means for nucleic acid sequencing
JP2006252541A (ja) * 2005-02-10 2006-09-21 Institute Of Physical & Chemical Research アノテーション方法、アノテーションシステム、プログラムおよびコンピューター読み取り可能な記録媒体
US8592211B2 (en) * 2009-03-20 2013-11-26 The Rockefeller University Enhanced PiggyBac transposon and methods for transposon mutagenesis
EP2411537A2 (en) * 2009-03-24 2012-02-01 Yeda Research and Development Co. Ltd. Methods of predicting pairability and secondary structures of rna molecules

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20110030086A1 (en) * 2004-09-29 2011-02-03 Pioneer Hi-Bred International, Inc. Corn event das-59122-7 and methods for detection thereof

Also Published As

Publication number Publication date
CA2863524A1 (en) 2013-08-15
AR089934A1 (es) 2014-10-01
IL233819A0 (en) 2014-09-30
CN104272311A (zh) 2015-01-07
CN104272311B (zh) 2018-08-28
WO2013119770A1 (en) 2013-08-15
US20130211729A1 (en) 2013-08-15
JP2015509623A (ja) 2015-03-30
HK1201951A1 (en) 2015-09-11
KR20140119723A (ko) 2014-10-10
IN2014DN05963A (enExample) 2015-06-26
EP2812831A4 (en) 2015-11-18
TWI596493B (zh) 2017-08-21
EP2812831A1 (en) 2014-12-17
AU2013217079A1 (en) 2014-08-07
TW201337618A (zh) 2013-09-16
BR112014019047A2 (pt) 2017-06-27
JP6314091B2 (ja) 2018-04-18

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