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CA2325469A1 - Systeme et procedes d'analyse de sequences biomoleculaires - Google Patents

Systeme et procedes d'analyse de sequences biomoleculaires Download PDF

Info

Publication number
CA2325469A1
CA2325469A1 CA002325469A CA2325469A CA2325469A1 CA 2325469 A1 CA2325469 A1 CA 2325469A1 CA 002325469 A CA002325469 A CA 002325469A CA 2325469 A CA2325469 A CA 2325469A CA 2325469 A1 CA2325469 A1 CA 2325469A1
Authority
CA
Canada
Prior art keywords
sequences
bins
regions
polymer sequences
similarity
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
CA002325469A
Other languages
English (en)
Inventor
Ingrid E. Akerblom
Shawn Robert Bratcher
Howard Jerome Cohen
Gerard Dufour
Michael Peter Wood
Alexander George Koleszar
Steven C. Banville
Stephen E. Lincoln
David M. Hodgson
Peter A. Spiro
Frank D. Russo
Jennifer L. Hillman
Anissa Lee Jones
Claudia Alden Case
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.)
Incyte Corp
Original Assignee
Individual
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 Individual filed Critical Individual
Publication of CA2325469A1 publication Critical patent/CA2325469A1/fr
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
    • G16B30/10—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
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/20—Sequence assembly

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)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)

Abstract

Des séquences de polymères sont assemblées en réservoirs. Un premier groupe de réservoirs est peuplé de séquences de polymères. Les séquences de polymères dans chaque réservoir sont assemblées en une ou plusieurs séquences consensus représentatives des séquences de polymères du réservoir. Ces séquences consensus sont comparées pour déterminer les relations, le cas échéant, entre les séquences consensus du réservoir. Les réservoirs sont modifiés en fonction des relations entre les séquences consensus. Les séquences de polymères sont réassemblées dans les réservoirs modifiés pour générer une ou plusieurs séquences consensus modifiées pour chaque réservoir représentatif des réservoirs modifiés. Selon un autre aspect de l'invention, les similarités et les disparités des séquences sont analysées dans un ensemble de séquences de polymères. Des données d'alignements par paires sont générées pour les paires de séquences de polymères. Ces données définissent des zones de similarité entre les paires de séquences de polymères avec des frontières. D'autres frontières dans des séquences de polymères particulières sont déterminées en appliquant au moins une frontière à partir d'au moins un alignement par paires pour une paire de séquences de polymères jusqu'à au moins un alignement par paires pour une autre paire de séquences de polymères comprenant une des séquences de polymères particulières. Des zones supplémentaires de similarité sont générées en fonction des frontières.
CA002325469A 1998-03-26 1999-03-25 Systeme et procedes d'analyse de sequences biomoleculaires Abandoned CA2325469A1 (fr)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US7946998P 1998-03-26 1998-03-26
US60/079,469 1998-03-26
PCT/US1999/006575 WO1999049403A1 (fr) 1998-03-26 1999-03-25 Systeme et procedes d'analyse de sequences biomoleculaires

Publications (1)

Publication Number Publication Date
CA2325469A1 true CA2325469A1 (fr) 1999-09-30

Family

ID=22150762

Family Applications (1)

Application Number Title Priority Date Filing Date
CA002325469A Abandoned CA2325469A1 (fr) 1998-03-26 1999-03-25 Systeme et procedes d'analyse de sequences biomoleculaires

Country Status (5)

Country Link
EP (1) EP1066576A1 (fr)
JP (1) JP2002508546A (fr)
AU (1) AU771877B2 (fr)
CA (1) CA2325469A1 (fr)
WO (1) WO1999049403A1 (fr)

Families Citing this family (14)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2004527728A (ja) * 2000-08-14 2004-09-09 インサイト・ゲノミックス・インコーポレイテッド ベースコーリング装置及びプロトコル
US20030176929A1 (en) * 2002-01-28 2003-09-18 Steve Gardner User interface for a bioinformatics system
US7957908B2 (en) * 2003-11-17 2011-06-07 New York University System, method and software arrangement utilizing a multi-strip procedure that can be applied to gene characterization using DNA-array data
JP5825790B2 (ja) * 2011-01-11 2015-12-02 日本ソフトウェアマネジメント株式会社 核酸情報処理装置およびその処理方法
WO2015021540A1 (fr) * 2013-08-15 2015-02-19 Zymeworks Inc. Systèmes et procédés pour l'évaluation in silico de polymères
RU2698125C2 (ru) 2013-08-19 2019-08-22 Эбботт Молекьюлар Инк. Библиотеки для секвенирования нового поколения
EP3097206A1 (fr) * 2014-01-22 2016-11-30 Adam Platt Procedes et systemes pour la detection de mutations genetiques
US9857328B2 (en) 2014-12-18 2018-01-02 Agilome, Inc. Chemically-sensitive field effect transistors, systems and methods for manufacturing and using the same
WO2016100049A1 (fr) 2014-12-18 2016-06-23 Edico Genome Corporation Transistor à effet de champ chimiquement sensible
US9859394B2 (en) 2014-12-18 2018-01-02 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
US10020300B2 (en) 2014-12-18 2018-07-10 Agilome, Inc. Graphene FET devices, systems, and methods of using the same for sequencing nucleic acids
US10006910B2 (en) 2014-12-18 2018-06-26 Agilome, Inc. Chemically-sensitive field effect transistors, systems, and methods for manufacturing and using the same
US10811539B2 (en) 2016-05-16 2020-10-20 Nanomedical Diagnostics, Inc. Graphene FET devices, systems, and methods of using the same for sequencing nucleic acids

Family Cites Families (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2001511529A (ja) * 1997-07-25 2001-08-14 アフィメトリックス インコーポレイテッド バイオインフォマティクスデータベースを提供するための方法および装置
US6047109A (en) * 1998-07-29 2000-04-04 Smithkline Beecham P.L.C. Methods and systems for re-evaluating assembly consensus sequences

Also Published As

Publication number Publication date
AU771877B2 (en) 2004-04-01
WO1999049403A1 (fr) 1999-09-30
EP1066576A1 (fr) 2001-01-10
JP2002508546A (ja) 2002-03-19
AU3453799A (en) 1999-10-18

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Legal Events

Date Code Title Description
FZDE Discontinued
FZDE Discontinued

Effective date: 20050329