JP2005519635A - 活性クロマチンエレメントを含むdnaマイクロアレイおよびそれを用いた包括的プロファイリング - Google Patents

活性クロマチンエレメントを含むdnaマイクロアレイおよびそれを用いた包括的プロファイリング Download PDF

Info

Publication number
JP2005519635A
JP2005519635A JP2004503602A JP2004503602A JP2005519635A JP 2005519635 A JP2005519635 A JP 2005519635A JP 2004503602 A JP2004503602 A JP 2004503602A JP 2004503602 A JP2004503602 A JP 2004503602A JP 2005519635 A JP2005519635 A JP 2005519635A
Authority
JP
Japan
Prior art keywords
dna
array
profile
cell
active chromatin
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.)
Pending
Application number
JP2004503602A
Other languages
English (en)
Japanese (ja)
Other versions
JP2005519635A5 (https=
Inventor
マッカーサー,マイケル
スタマトヤンノポウロス,ジョン,エー.
Original Assignee
レギュローム コーポレーション
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 レギュローム コーポレーション filed Critical レギュローム コーポレーション
Publication of JP2005519635A publication Critical patent/JP2005519635A/ja
Publication of JP2005519635A5 publication Critical patent/JP2005519635A5/ja
Pending legal-status Critical Current

Links

Images

Classifications

    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/10Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/102Mutagenizing nucleic acids
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/10Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034Isolating an individual clone by screening libraries
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/10Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034Isolating an individual clone by screening libraries
    • C12N15/1072Differential gene expression library synthesis, e.g. subtracted libraries, differential screening
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2830/00Vector systems having a special element relevant for transcription
    • C12N2830/80Vector systems having a special element relevant for transcription from vertebrates
    • C12N2830/85Vector systems having a special element relevant for transcription from vertebrates mammalian
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING 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
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813Hybridisation assays
    • C12Q1/6834Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Health & Medical Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Organic Chemistry (AREA)
  • Zoology (AREA)
  • Biomedical Technology (AREA)
  • Wood Science & Technology (AREA)
  • Biotechnology (AREA)
  • General Engineering & Computer Science (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Plant Pathology (AREA)
  • Molecular Biology (AREA)
  • Microbiology (AREA)
  • Biophysics (AREA)
  • Physics & Mathematics (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
JP2004503602A 2001-05-11 2002-05-13 活性クロマチンエレメントを含むdnaマイクロアレイおよびそれを用いた包括的プロファイリング Pending JP2005519635A (ja)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US29003601P 2001-05-11 2001-05-11
PCT/US2002/015032 WO2003095608A2 (en) 2001-05-11 2002-05-13 Dna microarrays comprising active chromatin elements and comprehensive profiling therewith

Publications (2)

Publication Number Publication Date
JP2005519635A true JP2005519635A (ja) 2005-07-07
JP2005519635A5 JP2005519635A5 (https=) 2006-01-05

Family

ID=29420206

Family Applications (1)

Application Number Title Priority Date Filing Date
JP2004503602A Pending JP2005519635A (ja) 2001-05-11 2002-05-13 活性クロマチンエレメントを含むdnaマイクロアレイおよびそれを用いた包括的プロファイリング

Country Status (6)

Country Link
US (1) US20030170689A1 (https=)
EP (1) EP1407053A4 (https=)
JP (1) JP2005519635A (https=)
AU (1) AU2002367838A1 (https=)
CA (1) CA2460679A1 (https=)
WO (1) WO2003095608A2 (https=)

Families Citing this family (22)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6610489B2 (en) * 2000-04-28 2003-08-26 Sangamo Biosciences, Inc. Pharmacogenomics and identification of drug targets by reconstruction of signal transduction pathways based on sequences of accessible regions
US20040014086A1 (en) * 2001-05-11 2004-01-22 Regulome Corporation Regulome arrays
JP2005514617A (ja) * 2001-07-02 2005-05-19 ザ、ボード、オブ、トラスティーズ、オブ、ザ、リーランド、スタンフォード、ジュニア、ユニバーシティ 細胞の表現型決定および操作のためのマイクロアレイ
US20110151438A9 (en) 2001-11-19 2011-06-23 Affymetrix, Inc. Methods of Analysis of Methylation
US20050003369A1 (en) * 2002-10-10 2005-01-06 Affymetrix, Inc. Method for depleting specific nucleic acids from a mixture
WO2005118873A2 (en) * 2004-05-28 2005-12-15 Cemines, Inc. Compositions and methods for detecting open chromatin and for genome-wide chromatin state profiling
GB0419419D0 (en) * 2004-09-01 2004-10-06 Medical Res Council Method
ATE489624T1 (de) * 2005-04-29 2010-12-15 Univ California Antikörper gegen histonmodifikationen für die klinische krebsdiagnose und -prognose
US20060292585A1 (en) * 2005-06-24 2006-12-28 Affymetrix, Inc. Analysis of methylation using nucleic acid arrays
US7901882B2 (en) 2006-03-31 2011-03-08 Affymetrix, Inc. Analysis of methylation using nucleic acid arrays
WO2008024473A2 (en) 2006-08-24 2008-02-28 University Of Massachusetts Medical School Mapping of genomic interactions
US8076070B2 (en) * 2008-08-06 2011-12-13 University Of Southern California Genome-wide chromosome conformation capture
CA2956925C (en) * 2014-08-01 2024-02-13 Dovetail Genomics, Llc Tagging nucleic acids for sequence assembly
US11807896B2 (en) 2015-03-26 2023-11-07 Dovetail Genomics, Llc Physical linkage preservation in DNA storage
JP7441003B2 (ja) 2016-02-23 2024-02-29 ダブテイル ゲノミクス エルエルシー ゲノムアセンブリのためのフェージングされたリードセットの生成とハプロタイプフェージング
WO2017197300A1 (en) 2016-05-13 2017-11-16 Dovetail Genomics Llc Recovering long-range linkage information from preserved samples
US11353400B2 (en) 2016-07-19 2022-06-07 Altius Institute For Biomedical Sciences Methods for fluorescence imaging microscopy and Nano-FISH
CN106987629B (zh) * 2017-03-31 2021-01-15 上海市第一妇婴保健院 一种在单细胞水平上检测基因组上核小体排布的方法
CA3070462A1 (en) 2017-07-19 2019-01-24 Altius Institute For Biomedical Sciences Methods and compositions for viral nano-fish
WO2019234753A1 (en) 2018-06-06 2019-12-12 Ramot At Tel-Aviv University Ltd. Multi-sample array chip for dna modification quantification
GB2581152A (en) * 2019-02-05 2020-08-12 Univ Oxford Innovation Ltd Production of 3C library
CN112973592B (zh) * 2019-12-16 2022-12-09 天津大学 一种基于阵列式喷墨打印的高通量dna合成装置与方法

Family Cites Families (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5610053A (en) * 1993-04-07 1997-03-11 The United States Of America As Represented By The Department Of Health And Human Services DNA sequence which acts as a chromatin insulator element to protect expressed genes from cis-acting regulatory sequences in mammalian cells
US6165709A (en) * 1997-02-28 2000-12-26 Fred Hutchinson Cancer Research Center Methods for drug target screening
US5972608A (en) * 1997-08-27 1999-10-26 University Of Massachusetts Assays and reagents for chromatin remodeling enzymes and their modulators

Also Published As

Publication number Publication date
US20030170689A1 (en) 2003-09-11
WO2003095608A2 (en) 2003-11-20
AU2002367838A1 (en) 2003-11-11
WO2003095608A3 (en) 2004-02-12
EP1407053A4 (en) 2004-09-29
EP1407053A2 (en) 2004-04-14
CA2460679A1 (en) 2003-11-20

Similar Documents

Publication Publication Date Title
JP2005519635A (ja) 活性クロマチンエレメントを含むdnaマイクロアレイおよびそれを用いた包括的プロファイリング
Gilbert Evaluating genome-scale approaches to eukaryotic DNA replication
Schulze et al. Navigating gene expression using microarrays? a technology review.
US6232067B1 (en) Adapter directed expression analysis
US20070148690A1 (en) Analysis of gene expression profiles using sequential hybridization
US20020034753A1 (en) Novel assay for nucleic acid analysis
JP2004524044A (ja) 制限部位タグ付きマイクロアレイを用いたハイスループットゲノム解析方法
CA2555377A1 (en) Genetic analysis by sequence-specific sorting
US6340565B1 (en) Determining signal transduction pathways
Burgess Gene expression studies using microarrays
JP2004504059A (ja) 転写された遺伝子を分析、及び同定するための方法、及びフインガープリント法
US20040014086A1 (en) Regulome arrays
Busch et al. Profiling a plant: expression analysis in Arabidopsis
Landegren et al. Locked on target: strategies for future gene diagnostics
AU2003276609B2 (en) Qualitative differential screening for the detection of RNA splice sites
US20070003929A1 (en) Method for identifying, analyzing and/or cloning nucleic acid isoforms
Yadav et al. Single-cell epigenomics: Methods and translation
Storck In vitro cloning of complex mixtures of DNA on microbeads: physical separation of differentially expressed cDNAs
JP2007185183A (ja) 25塩基を超えるタグを固定化したアレイ(SuperSAGE−Array)による遺伝子発現解析
Ye Serial analysis of gene expression in human diseases
Ira et al. Applications of Deep Sequencing to Developmental Systems
Katyal et al. DNA MICROARRAY: AN INTERDISCIPLINARY APPROACH AND ITS APPLICATIONS
WO2004007768A1 (en) Method to analyze polymeric nucleic acid sequence variations
Oberley Development of a high-throughput microarray based assay to analyze mechanisms of E2F6-mediated transcriptional regulation
EP1525326A1 (en) Analysis of biological samples

Legal Events

Date Code Title Description
A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20050512

A621 Written request for application examination

Free format text: JAPANESE INTERMEDIATE CODE: A621

Effective date: 20050512

A131 Notification of reasons for refusal

Free format text: JAPANESE INTERMEDIATE CODE: A131

Effective date: 20080520

A601 Written request for extension of time

Free format text: JAPANESE INTERMEDIATE CODE: A601

Effective date: 20080814

A602 Written permission of extension of time

Free format text: JAPANESE INTERMEDIATE CODE: A602

Effective date: 20080821

A02 Decision of refusal

Free format text: JAPANESE INTERMEDIATE CODE: A02

Effective date: 20090203