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AU2001236555A1 - Method and system for the assembly of a whole genome using a shot-gun data set - Google Patents

Method and system for the assembly of a whole genome using a shot-gun data set

Info

Publication number
AU2001236555A1
AU2001236555A1 AU2001236555A AU3655501A AU2001236555A1 AU 2001236555 A1 AU2001236555 A1 AU 2001236555A1 AU 2001236555 A AU2001236555 A AU 2001236555A AU 3655501 A AU3655501 A AU 3655501A AU 2001236555 A1 AU2001236555 A1 AU 2001236555A1
Authority
AU
Australia
Prior art keywords
shot
assembly
data set
whole genome
gun 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.)
Abandoned
Application number
AU2001236555A
Inventor
Arthur L. Delcher
Ian M. Dew
Michael J. Flanigan
Saul A. Kravitz
Clark M. Mobarry
Gene W. Myers
Knut Reinert
Karin A. Remington
Granger G. Sutton Iii
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.)
Applied Biosystems Inc
Original Assignee
PE 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
Priority claimed from US09/526,131 external-priority patent/US6714874B1/en
Application filed by PE Corp filed Critical PE Corp
Publication of AU2001236555A1 publication Critical patent/AU2001236555A1/en
Abandoned legal-status Critical Current

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
    • 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
    • G16B30/20—Sequence assembly
    • 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

Landscapes

  • Physics & Mathematics (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Biophysics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
AU2001236555A 2000-02-22 2001-01-29 Method and system for the assembly of a whole genome using a shot-gun data set Abandoned AU2001236555A1 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US18375800P 2000-02-22 2000-02-22
US60/183,758 2000-02-22
US09/526,131 US6714874B1 (en) 2000-03-15 2000-03-15 Method and system for the assembly of a whole genome using a shot-gun data set
US09/526,131 2000-03-15
PCT/US2001/002704 WO2001063543A2 (en) 2000-02-22 2001-01-29 Method and system for the assembly of a whole genome using a shot-gun data set

Publications (1)

Publication Number Publication Date
AU2001236555A1 true AU2001236555A1 (en) 2001-09-03

Family

ID=26879491

Family Applications (1)

Application Number Title Priority Date Filing Date
AU2001236555A Abandoned AU2001236555A1 (en) 2000-02-22 2001-01-29 Method and system for the assembly of a whole genome using a shot-gun data set

Country Status (5)

Country Link
EP (1) EP1285390A2 (en)
JP (1) JP2003530631A (en)
AU (1) AU2001236555A1 (en)
CA (1) CA2400890A1 (en)
WO (1) WO2001063543A2 (en)

Families Citing this family (13)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2003330934A (en) * 2002-05-10 2003-11-21 Celestar Lexico-Sciences Inc Variant sequence analyzer, variant sequence analysis method, program, and recording medium
US7575865B2 (en) * 2003-01-29 2009-08-18 454 Life Sciences Corporation Methods of amplifying and sequencing nucleic acids
JP5288355B2 (en) * 2007-10-31 2013-09-11 独立行政法人農業生物資源研究所 Base sequence determination program, base sequence determination device, and base sequence determination method
CN101504697B (en) * 2008-12-12 2010-09-08 深圳华大基因研究院 A method and system for constructing fragment-connected scaffolds
CN101457253B (en) * 2008-12-12 2011-08-31 深圳华大基因研究院 Sequencing sequence error correction method, system and device
US20120197533A1 (en) * 2010-10-11 2012-08-02 Complete Genomics, Inc. Identifying rearrangements in a sequenced genome
TWI420007B (en) * 2011-03-04 2013-12-21 Hsueh Ting Chu System and method of assembling dna reads
WO2012171213A1 (en) * 2011-06-17 2012-12-20 深圳华大基因科技有限公司 Method and system for assembly of genome
BR102012031096B1 (en) * 2012-12-05 2019-10-22 Empresa Brasileira De Pesquisa Agropecuaria Embrapa method and use for verifying assembly errors in genomes
AU2013382195B2 (en) 2013-03-13 2019-09-19 Illumina, Inc. Methods and systems for aligning repetitive DNA elements
CN104164479B (en) * 2014-04-04 2017-09-19 深圳华大基因科技服务有限公司 Heterozygous genome processing method
CN104298892B (en) * 2014-09-18 2017-05-10 天津诺禾致源生物信息科技有限公司 Detection device and method for gene fusion
CN117352060A (en) * 2023-11-16 2024-01-05 云南省烟草农业科学研究院 Method for assembling chromosome-level genome of heterotetraploid tobacco

Also Published As

Publication number Publication date
WO2001063543A3 (en) 2002-12-05
WO2001063543A2 (en) 2001-08-30
WO2001063543A8 (en) 2002-02-07
JP2003530631A (en) 2003-10-14
CA2400890A1 (en) 2001-08-30
EP1285390A2 (en) 2003-02-26

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