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dc.contributor.authorMintseris, Julianen_US
dc.contributor.authorEisen, Michael B.en_US
dc.date.accessioned2012-01-11T21:09:33Z
dc.date.available2012-01-11T21:09:33Z
dc.date.copyright2006
dc.date.issued2006-10-3
dc.identifier.citationMintseris, Julian, Michael B Eisen. "Design of a combinatorial DNA microarray for protein-DNA interaction studies" BMC Bioinformatics 7:429. (2006)
dc.identifier.issn1471-2105
dc.identifier.urihttp://hdl.handle.net/2144/3193
dc.description.abstractBACKGROUND. Discovery of precise specificity of transcription factors is an important step on the way to understanding the complex mechanisms of gene regulation in eukaryotes. Recently, double-stranded protein-binding microarrays were developed as a potentially scalable approach to tackle transcription factor binding site identification. RESULTS. Here we present an algorithmic approach to experimental design of a microarray that allows for testing full specificity of a transcription factor binding to all possible DNA binding sites of a given length, with optimally efficient use of the array. This design is universal, works for any factor that binds a sequence motif and is not species-specific. Furthermore, simulation results show that data produced with the designed arrays is easier to analyze and would result in more precise identification of binding sites. CONCLUSION. In this study, we present a design of a double stranded DNA microarray for protein-DNA interaction studies and show that our algorithm allows optimally efficient use of the arrays for this purpose. We believe such a design will prove useful for transcription factor binding site identification and other biological problems.en_US
dc.description.sponsorshipDepartment of Energy Computational Science Graduate Fellowshipen_US
dc.language.isoenen_US
dc.publisherBioMed Centralen_US
dc.rightsCopyright 2006 Mintseris and Eisen; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.en_US
dc.rights.urihttp://creativecommons.org/licenses/by/2.0
dc.titleDesign of a Combinatorial DNA Microarray for Protein-DNA Interaction Studiesen_US
dc.typearticleen_US
dc.identifier.doi10.1186/1471-2105-7-429
dc.identifier.pubmedid17018151
dc.identifier.pmcid1635571


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Copyright 2006 Mintseris and Eisen; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Except where otherwise noted, this item's license is described as Copyright 2006 Mintseris and Eisen; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.