MersV1, Main, Exploration, bibRecord, 002801

Discovering sequences with potential regulatory characteristics.

Identifieur interne : 002801 ( Main/Exploration ); précédent : 002800; suivant : 002802

Discovering sequences with potential regulatory characteristics.

Auteurs : Minou Bina [États-Unis] ; Phillip Wyss ; Sheryl A. Lazarus ; Syed R. Shah ; Wenhui Ren ; Wojciech Szpankowski ; Gregory E. Crawford ; Sang P. Park ; Xiaohui C. Song

Source :

Genomics [ 1089-8646 ] ; 2009.

RBID : pubmed:19084590

Descripteurs français

KwdFr :
- ADN (), ADN (métabolisme), Biologie informatique (), Chromosomes humains de la paire 7 (génétique), Génome humain, Humains, Protéines à homéodomaine (génétique), Régions promotrices (génétique) (génétique), Sites de fixation, Séquences d'acides nucléiques régulatrices (génétique).
MESH :
- génétique : Chromosomes humains de la paire 7, Protéines à homéodomaine, Régions promotrices (génétique), Séquences d'acides nucléiques régulatrices.
- métabolisme : ADN.
- ADN, Biologie informatique, Génome humain, Humains, Sites de fixation.

English descriptors

KwdEn :
- Binding Sites, Chromosomes, Human, Pair 7 (genetics), Computational Biology (methods), DNA (chemistry), DNA (metabolism), Genome, Human, Homeodomain Proteins (genetics), Humans, Promoter Regions, Genetic (genetics), Regulatory Sequences, Nucleic Acid (genetics).
MESH :
- chemical , chemistry : DNA.
- genetics : Chromosomes, Human, Pair 7, Homeodomain Proteins, Promoter Regions, Genetic, Regulatory Sequences, Nucleic Acid.
- chemical , metabolism : DNA.
- methods : Computational Biology.
- Binding Sites, Genome, Human, Humans.

Abstract

We developed a computational model to explore the hypothesis that regulatory instructions are context dependent and conveyed through specific 'codes' in human genomic DNA. We provide examples of correlation of computational predictions to reported mapped DNase I hypersensitive segments in the HOXA locus in human chromosome 7. The examples show that statistically significant 9-mers from promoter regions may occur in sequences near and upstream of transcription initiation sites, in intronic regions, and within intergenic regions. Additionally, a subset of 9-mers from coding sequences appears frequently, as clusters, in regulatory regions dispersed in noncoding regions in genomic DNA. The results suggest that the computational model has the potential of decoding regulatory instructions to discover candidate transcription factor binding sites and to discover candidate epigenetic signals that appear in both coding and regulatory regions of genes.

DOI: 10.1016/j.ygeno.2008.11.008
PubMed: 19084590

Affiliations:

Le document en format XML

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<author><name sortKey="Shah, Syed R" sort="Shah, Syed R" uniqKey="Shah S" first="Syed R" last="Shah">Syed R. Shah</name>
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<author><name sortKey="Ren, Wenhui" sort="Ren, Wenhui" uniqKey="Ren W" first="Wenhui" last="Ren">Wenhui Ren</name>
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<author><name sortKey="Szpankowski, Wojciech" sort="Szpankowski, Wojciech" uniqKey="Szpankowski W" first="Wojciech" last="Szpankowski">Wojciech Szpankowski</name>
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<author><name sortKey="Szpankowski, Wojciech" sort="Szpankowski, Wojciech" uniqKey="Szpankowski W" first="Wojciech" last="Szpankowski">Wojciech Szpankowski</name>
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<term>DNA (metabolism)</term>
<term>Genome, Human</term>
<term>Homeodomain Proteins (genetics)</term>
<term>Humans</term>
<term>Promoter Regions, Genetic (genetics)</term>
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<term>Séquences d'acides nucléiques régulatrices (génétique)</term>
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<front><div type="abstract" xml:lang="en">We developed a computational model to explore the hypothesis that regulatory instructions are context dependent and conveyed through specific 'codes' in human genomic DNA. We provide examples of correlation of computational predictions to reported mapped DNase I hypersensitive segments in the HOXA locus in human chromosome 7. The examples show that statistically significant 9-mers from promoter regions may occur in sequences near and upstream of transcription initiation sites, in intronic regions, and within intergenic regions. Additionally, a subset of 9-mers from coding sequences appears frequently, as clusters, in regulatory regions dispersed in noncoding regions in genomic DNA. The results suggest that the computational model has the potential of decoding regulatory instructions to discover candidate transcription factor binding sites and to discover candidate epigenetic signals that appear in both coding and regulatory regions of genes.</div>
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<tree><noCountry><name sortKey="Crawford, Gregory E" sort="Crawford, Gregory E" uniqKey="Crawford G" first="Gregory E" last="Crawford">Gregory E. Crawford</name>
<name sortKey="Lazarus, Sheryl A" sort="Lazarus, Sheryl A" uniqKey="Lazarus S" first="Sheryl A" last="Lazarus">Sheryl A. Lazarus</name>
<name sortKey="Park, Sang P" sort="Park, Sang P" uniqKey="Park S" first="Sang P" last="Park">Sang P. Park</name>
<name sortKey="Ren, Wenhui" sort="Ren, Wenhui" uniqKey="Ren W" first="Wenhui" last="Ren">Wenhui Ren</name>
<name sortKey="Shah, Syed R" sort="Shah, Syed R" uniqKey="Shah S" first="Syed R" last="Shah">Syed R. Shah</name>
<name sortKey="Song, Xiaohui C" sort="Song, Xiaohui C" uniqKey="Song X" first="Xiaohui C" last="Song">Xiaohui C. Song</name>
<name sortKey="Szpankowski, Wojciech" sort="Szpankowski, Wojciech" uniqKey="Szpankowski W" first="Wojciech" last="Szpankowski">Wojciech Szpankowski</name>
<name sortKey="Wyss, Phillip" sort="Wyss, Phillip" uniqKey="Wyss P" first="Phillip" last="Wyss">Phillip Wyss</name>
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<country name="États-Unis"><region name="Indiana"><name sortKey="Bina, Minou" sort="Bina, Minou" uniqKey="Bina M" first="Minou" last="Bina">Minou Bina</name>
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Serveur d'exploration MERS

Discovering sequences with potential regulatory characteristics.

Discovering sequences with potential regulatory characteristics.

Source :

Descripteurs français

English descriptors

Abstract

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

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki

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