JP2010522571A - 少コピー数の核酸セグメントを同定および選択する方法 - Google Patents

少コピー数の核酸セグメントを同定および選択する方法 Download PDF

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JP2010522571A
JP2010522571A JP2010501272A JP2010501272A JP2010522571A JP 2010522571 A JP2010522571 A JP 2010522571A JP 2010501272 A JP2010501272 A JP 2010501272A JP 2010501272 A JP2010501272 A JP 2010501272A JP 2010522571 A JP2010522571 A JP 2010522571A
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sequence
probe
primer
genomic
segments
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JP2010522571A5 (enExample
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ヘザー ニューカーク
チェンペン ビ
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ザ チルドレンズ マーシー ホスピタル
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Publication of JP2010522571A5 publication Critical patent/JP2010522571A5/ja
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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
    • G16B15/00—ICT specially adapted for analysing two-dimensional or three-dimensional molecular structures, e.g. structural or functional relations or structure alignment
    • 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
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/10—Ploidy or copy number detection
    • 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
    • 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
    • Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
    • Y10T—TECHNICAL SUBJECTS COVERED BY FORMER US CLASSIFICATION
    • Y10T436/00—Chemistry: analytical and immunological testing
    • Y10T436/14—Heterocyclic carbon compound [i.e., O, S, N, Se, Te, as only ring hetero atom]
    • Y10T436/142222—Hetero-O [e.g., ascorbic acid, etc.]
    • Y10T436/143333—Saccharide [e.g., DNA, etc.]

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  • Life Sciences & Earth Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Engineering & Computer Science (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Biotechnology (AREA)
  • Medical Informatics (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Chemical & Material Sciences (AREA)
  • Evolutionary Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Theoretical Computer Science (AREA)
  • Analytical Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Genetics & Genomics (AREA)
  • Molecular Biology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
JP2010501272A 2007-03-28 2008-03-28 少コピー数の核酸セグメントを同定および選択する方法 Pending JP2010522571A (ja)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US90860607P 2007-03-28 2007-03-28
US94032107P 2007-05-25 2007-05-25
PCT/US2008/058795 WO2008119084A1 (en) 2007-03-28 2008-03-28 Method for identifying and selecting low copy nucleic acid segments

Publications (2)

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JP2010522571A true JP2010522571A (ja) 2010-07-08
JP2010522571A5 JP2010522571A5 (enExample) 2011-04-28

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JP2010501272A Pending JP2010522571A (ja) 2007-03-28 2008-03-28 少コピー数の核酸セグメントを同定および選択する方法

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US (1) US20080274558A1 (enExample)
EP (1) EP2129800A4 (enExample)
JP (1) JP2010522571A (enExample)
WO (1) WO2008119084A1 (enExample)

Families Citing this family (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP2367937B1 (en) * 2008-12-04 2013-04-17 Keygene N.V. Method for the reduction of repetitive sequences in adapter-ligated restriction fragments
ES2645754T3 (es) 2009-07-30 2017-12-07 F. Hoffmann-La Roche Ag Conjunto de sondas de oligonucleótidos así como métodos y usos relacionados con el mismo
JP5838169B2 (ja) * 2009-12-31 2016-01-06 ヴェンタナ メディカル システムズ， インク． 一意的に特異的核酸プローブを生成するための方法
WO2016069539A1 (en) * 2014-10-27 2016-05-06 Helix Nanotechnologies, Inc. Systems and methods of screening with a molecule recorder
CN118038980B (zh) * 2024-01-19 2024-10-25 成都基因汇科技有限公司 一种鉴定目标基因的探针序列的设计方法和装置

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2003052385A (ja) * 2001-06-04 2003-02-25 Hitachi Ltd Ｄｎａアレイ向けプローブ配列決定システム
JP2004523201A (ja) * 2000-05-16 2004-08-05 ザ チルドレンズ マーシー ホスピタル シングルコピーゲノムのハイブリダイゼーションプローブおよびその作製方法
US20050032055A1 (en) * 1999-07-20 2005-02-10 Sampson Jeffrey R. Methods of making nucleic acid molecules with reduced secondary structure

Family Cites Families (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20050239737A1 (en) * 1998-05-12 2005-10-27 Isis Pharmaceuticals, Inc. Identification of molecular interaction sites in RNA for novel drug discovery
US7013221B1 (en) * 1999-07-16 2006-03-14 Rosetta Inpharmatics Llc Iterative probe design and detailed expression profiling with flexible in-situ synthesis arrays
US6828097B1 (en) * 2000-05-16 2004-12-07 The Childrens Mercy Hospital Single copy genomic hybridization probes and method of generating same
US20030104470A1 (en) * 2001-08-14 2003-06-05 Third Wave Technologies, Inc. Electronic medical record, library of electronic medical records having polymorphism data, and computer systems and methods for use thereof
WO2003021259A1 (en) * 2001-09-05 2003-03-13 Perlegen Sciences, Inc. Selection of primer pairs
US20060110744A1 (en) * 2004-11-23 2006-05-25 Sampas Nicolas M Probe design methods and microarrays for comparative genomic hybridization and location analysis
BRPI0604215A (pt) * 2005-08-17 2007-04-10 Biosigma Sa método para projetar oligonucleotìdeos para técnicas de biologia molecular

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20050032055A1 (en) * 1999-07-20 2005-02-10 Sampson Jeffrey R. Methods of making nucleic acid molecules with reduced secondary structure
JP2004523201A (ja) * 2000-05-16 2004-08-05 ザ チルドレンズ マーシー ホスピタル シングルコピーゲノムのハイブリダイゼーションプローブおよびその作製方法
JP2003052385A (ja) * 2001-06-04 2003-02-25 Hitachi Ltd Ｄｎａアレイ向けプローブ配列決定システム

Non-Patent Citations (3)

* Cited by examiner, † Cited by third party
Title
JPN6013018578; Ｇｅｎｏｍｅ　Ｒｅｓ．，　２００１，　１１（６），　ｐｐ．１０８６-１０９４ *
JPN6013018579; Ｇｅｎｏｍｅ　Ｒｅｓ．，　１９９７，　７（６），　ｐｐ．６４９-６５６ *
JPN6013018580; Ｈｕｍ．　Ｍｕｔａｔ．，　２００６，　２７（４），　ｐｐ．３７６-３８６ *

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EP2129800A4 (en) 2010-08-04
WO2008119084A1 (en) 2008-10-02
US20080274558A1 (en) 2008-11-06
EP2129800A1 (en) 2009-12-09

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