MersV1, PubMed, Checkpoint, bibRecord, 001E84

Quadruple 9-mer-based protein binding microarray with DsRed fusion protein.

Identifieur interne : 001E84 ( PubMed/Checkpoint ); précédent : 001E83; suivant : 001E85

Quadruple 9-mer-based protein binding microarray with DsRed fusion protein.

Auteurs : Min-Jeong Kim [Corée du Sud] ; Tae-Ho Lee ; Yoon-Mok Pahk ; Yul-Ho Kim ; Hyang-Mi Park ; Yang Do Choi ; Baek Hie Nahm ; Yeon-Ki Kim

Source :

BMC molecular biology [ 1471-2199 ] ; 2009.

RBID : pubmed:19761621

Descripteurs français

KwdFr :
- Analyse par réseau de protéines (), Liaison aux protéines, Motifs d'acides aminés, Oligonucléotides (génétique), Oligonucléotides (métabolisme), Oryza (), Oryza (génétique), Oryza (métabolisme), Protéines luminescentes (génétique), Protéines luminescentes (métabolisme), Protéines végétales (), Protéines végétales (génétique), Protéines végétales (métabolisme), Sites de fixation.
MESH :
- génétique : Oligonucléotides, Oryza, Protéines luminescentes, Protéines végétales.
- métabolisme : Oligonucléotides, Oryza, Protéines luminescentes, Protéines végétales.
- Analyse par réseau de protéines, Liaison aux protéines, Motifs d'acides aminés, Oryza, Protéines végétales, Sites de fixation.

English descriptors

KwdEn :
- Amino Acid Motifs, Binding Sites, Luminescent Proteins (genetics), Luminescent Proteins (metabolism), Oligonucleotides (genetics), Oligonucleotides (metabolism), Oryza (chemistry), Oryza (genetics), Oryza (metabolism), Plant Proteins (chemistry), Plant Proteins (genetics), Plant Proteins (metabolism), Protein Array Analysis (methods), Protein Binding.
MESH :
- chemical , chemistry : Plant Proteins.
- chemical , genetics : Luminescent Proteins, Oligonucleotides, Plant Proteins.
- chemical , metabolism : Luminescent Proteins, Oligonucleotides, Plant Proteins.
- chemistry : Oryza.
- genetics : Oryza.
- metabolism : Oryza.
- methods : Protein Array Analysis.
- Amino Acid Motifs, Binding Sites, Protein Binding.

Abstract

The interaction between a transcription factor and DNA motif (cis-acting element) is an important regulatory step in gene regulation. Comprehensive genome-wide methods have been developed to characterize protein-DNA interactions. Recently, the universal protein binding microarray (PBM) was introduced to determine if a DNA motif interacts with proteins in a genome-wide manner.

DOI: 10.1186/1471-2199-10-91
PubMed: 19761621

Affiliations:

Corée du Sud

Links toward previous steps (curation, corpus...)

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pubmed:19761621

Le document en format XML

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<author><name sortKey="Kim, Min Jeong" sort="Kim, Min Jeong" uniqKey="Kim M" first="Min-Jeong" last="Kim">Min-Jeong Kim</name>
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<author><name sortKey="Kim, Yul Ho" sort="Kim, Yul Ho" uniqKey="Kim Y" first="Yul-Ho" last="Kim">Yul-Ho Kim</name>
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<author><name sortKey="Park, Hyang Mi" sort="Park, Hyang Mi" uniqKey="Park H" first="Hyang-Mi" last="Park">Hyang-Mi Park</name>
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<author><name sortKey="Kim, Yeon Ki" sort="Kim, Yeon Ki" uniqKey="Kim Y" first="Yeon-Ki" last="Kim">Yeon-Ki Kim</name>
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<series><title level="j">BMC molecular biology</title>
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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Motifs</term>
<term>Binding Sites</term>
<term>Luminescent Proteins (genetics)</term>
<term>Luminescent Proteins (metabolism)</term>
<term>Oligonucleotides (genetics)</term>
<term>Oligonucleotides (metabolism)</term>
<term>Oryza (chemistry)</term>
<term>Oryza (genetics)</term>
<term>Oryza (metabolism)</term>
<term>Plant Proteins (chemistry)</term>
<term>Plant Proteins (genetics)</term>
<term>Plant Proteins (metabolism)</term>
<term>Protein Array Analysis (methods)</term>
<term>Protein Binding</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Analyse par réseau de protéines ()</term>
<term>Liaison aux protéines</term>
<term>Motifs d'acides aminés</term>
<term>Oligonucléotides (génétique)</term>
<term>Oligonucléotides (métabolisme)</term>
<term>Oryza ()</term>
<term>Oryza (génétique)</term>
<term>Oryza (métabolisme)</term>
<term>Protéines luminescentes (génétique)</term>
<term>Protéines luminescentes (métabolisme)</term>
<term>Protéines végétales ()</term>
<term>Protéines végétales (génétique)</term>
<term>Protéines végétales (métabolisme)</term>
<term>Sites de fixation</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Plant Proteins</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Luminescent Proteins</term>
<term>Oligonucleotides</term>
<term>Plant Proteins</term>
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<keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Luminescent Proteins</term>
<term>Oligonucleotides</term>
<term>Plant Proteins</term>
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<keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>Oryza</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Oryza</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Oligonucléotides</term>
<term>Oryza</term>
<term>Protéines luminescentes</term>
<term>Protéines végétales</term>
</keywords>
<keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Oryza</term>
</keywords>
<keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Protein Array Analysis</term>
</keywords>
<keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Oligonucléotides</term>
<term>Oryza</term>
<term>Protéines luminescentes</term>
<term>Protéines végétales</term>
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<term>Binding Sites</term>
<term>Protein Binding</term>
</keywords>
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<term>Liaison aux protéines</term>
<term>Motifs d'acides aminés</term>
<term>Oryza</term>
<term>Protéines végétales</term>
<term>Sites de fixation</term>
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<front><div type="abstract" xml:lang="en">The interaction between a transcription factor and DNA motif (cis-acting element) is an important regulatory step in gene regulation. Comprehensive genome-wide methods have been developed to characterize protein-DNA interactions. Recently, the universal protein binding microarray (PBM) was introduced to determine if a DNA motif interacts with proteins in a genome-wide manner.</div>
</front>
</TEI>
<pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">19761621</PMID>
<DateCompleted><Year>2009</Year>
<Month>11</Month>
<Day>03</Day>
</DateCompleted>
<DateRevised><Year>2019</Year>
<Month>12</Month>
<Day>10</Day>
</DateRevised>
<Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2199</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>10</Volume>
<PubDate><Year>2009</Year>
<Month>Sep</Month>
<Day>18</Day>
</PubDate>
</JournalIssue>
<Title>BMC molecular biology</Title>
<ISOAbbreviation>BMC Mol. Biol.</ISOAbbreviation>
</Journal>
<ArticleTitle>Quadruple 9-mer-based protein binding microarray with DsRed fusion protein.</ArticleTitle>
<Pagination><MedlinePgn>91</MedlinePgn>
</Pagination>
<ELocationID EIdType="doi" ValidYN="Y">10.1186/1471-2199-10-91</ELocationID>
<Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">The interaction between a transcription factor and DNA motif (cis-acting element) is an important regulatory step in gene regulation. Comprehensive genome-wide methods have been developed to characterize protein-DNA interactions. Recently, the universal protein binding microarray (PBM) was introduced to determine if a DNA motif interacts with proteins in a genome-wide manner.</AbstractText>
<AbstractText Label="RESULTS" NlmCategory="RESULTS">We facilitated the PBM technology using a DsRed fluorescent protein and a concatenated sequence of oligonucleotides. The PBM was designed in such a way that target probes were synthesized as quadruples of all possible 9-mer combinations, permitting unequivocal interpretation of the cis-acting elements. The complimentary DNA strands of the features were synthesized with a primer and DNA polymerase on microarray slides. Proteins were labeled via N-terminal fusion with DsRed fluorescent protein, which circumvents the need for a multi-step incubation. The PBM presented herein confirmed the well-known DNA binding sequences of Cbf1 and CBF1/DREB1B, and it was also applied to elucidate the unidentified cis-acting element of the OsNAC6 rice transcription factor.</AbstractText>
<AbstractText Label="CONCLUSION" NlmCategory="CONCLUSIONS">Our method demonstrated PBM can be conveniently performed by adopting: (1) quadruple 9-mers may increase protein-DNA binding interactions in the microarray, and (2) a one-step incubation shortens the wash and hybridization steps. This technology will facilitate greater understanding of genome-wide interactions between proteins and DNA.</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Kim</LastName>
<ForeName>Min-Jeong</ForeName>
<Initials>MJ</Initials>
<AffiliationInfo><Affiliation>GreenGene Biotech Inc, Myongji University, Yongin 449-728, Korea. kim750a11@gmail.com</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Lee</LastName>
<ForeName>Tae-Ho</ForeName>
<Initials>TH</Initials>
</Author>
<Author ValidYN="Y"><LastName>Pahk</LastName>
<ForeName>Yoon-Mok</ForeName>
<Initials>YM</Initials>
</Author>
<Author ValidYN="Y"><LastName>Kim</LastName>
<ForeName>Yul-Ho</ForeName>
<Initials>YH</Initials>
</Author>
<Author ValidYN="Y"><LastName>Park</LastName>
<ForeName>Hyang-Mi</ForeName>
<Initials>HM</Initials>
</Author>
<Author ValidYN="Y"><LastName>Choi</LastName>
<ForeName>Yang Do</ForeName>
<Initials>YD</Initials>
</Author>
<Author ValidYN="Y"><LastName>Nahm</LastName>
<ForeName>Baek Hie</ForeName>
<Initials>BH</Initials>
</Author>
<Author ValidYN="Y"><LastName>Kim</LastName>
<ForeName>Yeon-Ki</ForeName>
<Initials>YK</Initials>
</Author>
</AuthorList>
<Language>eng</Language>
<PublicationTypeList><PublicationType UI="D023362">Evaluation Study</PublicationType>
<PublicationType UI="D016428">Journal Article</PublicationType>
<PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType>
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<ArticleDate DateType="Electronic"><Year>2009</Year>
<Month>09</Month>
<Day>18</Day>
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<NameOfSubstance UI="C413663">fluorescent protein 583</NameOfSubstance>
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<MeshHeadingList><MeshHeading><DescriptorName UI="D020816" MajorTopicYN="N">Amino Acid Motifs</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D001665" MajorTopicYN="N">Binding Sites</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D008164" MajorTopicYN="N">Luminescent Proteins</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D009841" MajorTopicYN="N">Oligonucleotides</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D012275" MajorTopicYN="N">Oryza</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
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<MeshHeading><DescriptorName UI="D011485" MajorTopicYN="N">Protein Binding</DescriptorName>
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<name sortKey="Kim, Yeon Ki" sort="Kim, Yeon Ki" uniqKey="Kim Y" first="Yeon-Ki" last="Kim">Yeon-Ki Kim</name>
<name sortKey="Kim, Yul Ho" sort="Kim, Yul Ho" uniqKey="Kim Y" first="Yul-Ho" last="Kim">Yul-Ho Kim</name>
<name sortKey="Lee, Tae Ho" sort="Lee, Tae Ho" uniqKey="Lee T" first="Tae-Ho" last="Lee">Tae-Ho Lee</name>
<name sortKey="Nahm, Baek Hie" sort="Nahm, Baek Hie" uniqKey="Nahm B" first="Baek Hie" last="Nahm">Baek Hie Nahm</name>
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<name sortKey="Park, Hyang Mi" sort="Park, Hyang Mi" uniqKey="Park H" first="Hyang-Mi" last="Park">Hyang-Mi Park</name>
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<country name="Corée du Sud"><noRegion><name sortKey="Kim, Min Jeong" sort="Kim, Min Jeong" uniqKey="Kim M" first="Min-Jeong" last="Kim">Min-Jeong Kim</name>
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   |clé=     pubmed:19761621
   |texte=   Quadruple 9-mer-based protein binding microarray with DsRed fusion protein.
}}

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       | NlmPubMed2Wicri -a MersV1

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Quadruple 9-mer-based protein binding microarray with DsRed fusion protein.

Quadruple 9-mer-based protein binding microarray with DsRed fusion protein.

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