Physico-chemical foundations underpinning microarray and next-generation sequencing experiments
Identifieur interne : 004548 ( Main/Exploration ); précédent : 004547; suivant : 004549Physico-chemical foundations underpinning microarray and next-generation sequencing experiments
Auteurs : Andrew Harrison [Royaume-Uni] ; Hans Binder [Allemagne] ; Arnaud Buhot [France] ; Conrad J. Burden [Australie] ; Enrico Carlon [Belgique] ; Cynthia Gibas [États-Unis] ; Lara J. Gamble [États-Unis] ; Avraham Halperin [France] ; Jef Hooyberghs [Belgique] ; David P. Kreil [Autriche, Royaume-Uni] ; Rastislav Levicky [États-Unis] ; Peter A. Noble [États-Unis] ; Albrecht Ott [Allemagne] ; B. Montgomery Pettitt [États-Unis] ; Diethard Tautz [Allemagne] ; Alexander E. Pozhitkov [États-Unis, Allemagne]Source :
- Nucleic Acids Research [ 0305-1048 ] ; 2013.
Abstract
Hybridization of nucleic acids on solid surfaces is a key process involved in high-throughput technologies such as microarrays and, in some cases, next-generation sequencing (NGS). A physical understanding of the hybridization process helps to determine the accuracy of these technologies. The goal of a widespread research program is to develop reliable transformations between the raw signals reported by the technologies and individual molecular concentrations from an ensemble of nucleic acids. This research has inputs from many areas, from bioinformatics and biostatistics, to theoretical and experimental biochemistry and biophysics, to computer simulations. A group of leading researchers met in Ploen Germany in 2011 to discuss present knowledge and limitations of our physico-chemical understanding of high-throughput nucleic acid technologies. This meeting inspired us to write this summary, which provides an overview of the state-of-the-art approaches based on physico-chemical foundation to modeling of the nucleic acids hybridization process on solid surfaces. In addition, practical application of current knowledge is emphasized.
Url:
DOI: 10.1093/nar/gks1358
PubMed: 23307556
PubMed Central: 3597649
Affiliations:
- Allemagne, Australie, Autriche, Belgique, France, Royaume-Uni, États-Unis
- Alabama, Auvergne-Rhône-Alpes, Caroline du Nord, Rhône-Alpes, Sarre (Land), Texas, Vienne (Autriche), Washington (État), État de New York
- Grenoble, Sarrebruck, Seattle, Vienne (Autriche)
- Université de Washington
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Le document en format XML
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<author><name sortKey="Ott, Albrecht" sort="Ott, Albrecht" uniqKey="Ott A" first="Albrecht" last="Ott">Albrecht Ott</name>
<affiliation wicri:level="3"><nlm:aff id="gks1358-AFF1">Universitaet des Saarlandes - Biologische Experimentalphysic, Saarbruecken, D-66041 Germany,</nlm:aff>
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<affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gks1358-AFF1">The University of Texas Medical Branch - Sealy Center for Structural Biology and Molecular Biophysics, Galveston, TX 77204, USA</nlm:aff>
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<wicri:regionArea>The University of Texas Medical Branch - Sealy Center for Structural Biology and Molecular Biophysics, Galveston, TX 77204</wicri:regionArea>
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<affiliation wicri:level="1"><nlm:aff id="gks1358-AFF1">Max-Planck-Institut - Evolutionsbiologie, Ploen, 24306 Germany</nlm:aff>
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<author><name sortKey="Pozhitkov, Alexander E" sort="Pozhitkov, Alexander E" uniqKey="Pozhitkov A" first="Alexander E." last="Pozhitkov">Alexander E. Pozhitkov</name>
<affiliation wicri:level="4"><nlm:aff id="gks1358-AFF1">University of Washington, Department of Periodontology, Seattle, WA 98105, USA,</nlm:aff>
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<wicri:regionArea>University of Washington, Department of Periodontology, Seattle, WA 98105</wicri:regionArea>
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<settlement type="city">Seattle</settlement>
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<orgName type="university">Université de Washington</orgName>
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<affiliation wicri:level="1"><nlm:aff id="gks1358-AFF1">Max-Planck-Institut - Evolutionsbiologie, Ploen, 24306 Germany</nlm:aff>
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<series><title level="j">Nucleic Acids Research</title>
<idno type="ISSN">0305-1048</idno>
<idno type="eISSN">1362-4962</idno>
<imprint><date when="2013">2013</date>
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<front><div type="abstract" xml:lang="en"><p>Hybridization of nucleic acids on solid surfaces is a key process involved in high-throughput technologies such as microarrays and, in some cases, next-generation sequencing (NGS). A physical understanding of the hybridization process helps to determine the accuracy of these technologies. The goal of a widespread research program is to develop reliable transformations between the raw signals reported by the technologies and individual molecular concentrations from an ensemble of nucleic acids. This research has inputs from many areas, from bioinformatics and biostatistics, to theoretical and experimental biochemistry and biophysics, to computer simulations. A group of leading researchers met in Ploen Germany in 2011 to discuss present knowledge and limitations of our physico-chemical understanding of high-throughput nucleic acid technologies. This meeting inspired us to write this summary, which provides an overview of the state-of-the-art approaches based on physico-chemical foundation to modeling of the nucleic acids hybridization process on solid surfaces. In addition, practical application of current knowledge is emphasized.</p>
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<li>Australie</li>
<li>Autriche</li>
<li>Belgique</li>
<li>France</li>
<li>Royaume-Uni</li>
<li>États-Unis</li>
</country>
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<li>Auvergne-Rhône-Alpes</li>
<li>Caroline du Nord</li>
<li>Rhône-Alpes</li>
<li>Sarre (Land)</li>
<li>Texas</li>
<li>Vienne (Autriche)</li>
<li>Washington (État)</li>
<li>État de New York</li>
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<settlement><li>Grenoble</li>
<li>Sarrebruck</li>
<li>Seattle</li>
<li>Vienne (Autriche)</li>
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<name sortKey="Pozhitkov, Alexander E" sort="Pozhitkov, Alexander E" uniqKey="Pozhitkov A" first="Alexander E." last="Pozhitkov">Alexander E. Pozhitkov</name>
<name sortKey="Tautz, Diethard" sort="Tautz, Diethard" uniqKey="Tautz D" first="Diethard" last="Tautz">Diethard Tautz</name>
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<country name="France"><noRegion><name sortKey="Buhot, Arnaud" sort="Buhot, Arnaud" uniqKey="Buhot A" first="Arnaud" last="Buhot">Arnaud Buhot</name>
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<name sortKey="Halperin, Avraham" sort="Halperin, Avraham" uniqKey="Halperin A" first="Avraham" last="Halperin">Avraham Halperin</name>
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<country name="Australie"><noRegion><name sortKey="Burden, Conrad J" sort="Burden, Conrad J" uniqKey="Burden C" first="Conrad J." last="Burden">Conrad J. Burden</name>
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<country name="Belgique"><noRegion><name sortKey="Carlon, Enrico" sort="Carlon, Enrico" uniqKey="Carlon E" first="Enrico" last="Carlon">Enrico Carlon</name>
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<name sortKey="Hooyberghs, Jef" sort="Hooyberghs, Jef" uniqKey="Hooyberghs J" first="Jef" last="Hooyberghs">Jef Hooyberghs</name>
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<country name="États-Unis"><region name="Caroline du Nord"><name sortKey="Gibas, Cynthia" sort="Gibas, Cynthia" uniqKey="Gibas C" first="Cynthia" last="Gibas">Cynthia Gibas</name>
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<name sortKey="Gamble, Lara J" sort="Gamble, Lara J" uniqKey="Gamble L" first="Lara J." last="Gamble">Lara J. Gamble</name>
<name sortKey="Levicky, Rastislav" sort="Levicky, Rastislav" uniqKey="Levicky R" first="Rastislav" last="Levicky">Rastislav Levicky</name>
<name sortKey="Noble, Peter A" sort="Noble, Peter A" uniqKey="Noble P" first="Peter A." last="Noble">Peter A. Noble</name>
<name sortKey="Noble, Peter A" sort="Noble, Peter A" uniqKey="Noble P" first="Peter A." last="Noble">Peter A. Noble</name>
<name sortKey="Pettitt, B Montgomery" sort="Pettitt, B Montgomery" uniqKey="Pettitt B" first="B. Montgomery" last="Pettitt">B. Montgomery Pettitt</name>
<name sortKey="Pozhitkov, Alexander E" sort="Pozhitkov, Alexander E" uniqKey="Pozhitkov A" first="Alexander E." last="Pozhitkov">Alexander E. Pozhitkov</name>
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<country name="Autriche"><region name="Vienne (Autriche)"><name sortKey="Kreil, David P" sort="Kreil, David P" uniqKey="Kreil D" first="David P." last="Kreil">David P. Kreil</name>
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</record>
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