Zebrafish promoter microarrays identify actively transcribed embryonic genes

We have designed a zebrafish genomic microarray to identify DNA-protein interactions in the proximal promoter regions of over 11,000 zebrafish genes. Using these microarrays, together with chromatin immunoprecipitation with an antibody directed against tri-methylated lysine 4 of Histone H3, we demon...

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Main Authors: Wardle, Fiona C, Odom, Duncan, Bell, George W., Wiellette, Elizabeth L, Herbolsheimer, Elizabeth, Smith, James C, Yuan, Bingbing B., Sive, Hazel L., Danford, Timothy William, Young, Richard A.
Other Authors: Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory
Format: Article
Language:English
Published: BioMed Central Ltd 2010
Online Access:http://hdl.handle.net/1721.1/58880
https://orcid.org/0000-0002-4890-424X
https://orcid.org/0000-0001-8855-8647
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author Wardle, Fiona C
Odom, Duncan
Bell, George W.
Wiellette, Elizabeth L
Herbolsheimer, Elizabeth
Smith, James C
Yuan, Bingbing B.
Sive, Hazel L.
Danford, Timothy William
Young, Richard A.
author2 Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory
author_facet Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory
Wardle, Fiona C
Odom, Duncan
Bell, George W.
Wiellette, Elizabeth L
Herbolsheimer, Elizabeth
Smith, James C
Yuan, Bingbing B.
Sive, Hazel L.
Danford, Timothy William
Young, Richard A.
author_sort Wardle, Fiona C
collection MIT
description We have designed a zebrafish genomic microarray to identify DNA-protein interactions in the proximal promoter regions of over 11,000 zebrafish genes. Using these microarrays, together with chromatin immunoprecipitation with an antibody directed against tri-methylated lysine 4 of Histone H3, we demonstrate the feasibility of this method in zebrafish. This approach will allow investigators to determine the genomic binding locations of DNA interacting proteins during development and expedite the assembly of the genetic networks that regulate embryogenesis.
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spelling mit-1721.1/588802022-09-23T13:56:06Z Zebrafish promoter microarrays identify actively transcribed embryonic genes Wardle, Fiona C Odom, Duncan Bell, George W. Wiellette, Elizabeth L Herbolsheimer, Elizabeth Smith, James C Yuan, Bingbing B. Sive, Hazel L. Danford, Timothy William Young, Richard A. Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory Massachusetts Institute of Technology. Department of Biology Whitehead Institute for Biomedical Research Yuan, Bingbing B. Sive, Hazel L. Danford, Timothy William Young, Richard A. Bell, George W. We have designed a zebrafish genomic microarray to identify DNA-protein interactions in the proximal promoter regions of over 11,000 zebrafish genes. Using these microarrays, together with chromatin immunoprecipitation with an antibody directed against tri-methylated lysine 4 of Histone H3, we demonstrate the feasibility of this method in zebrafish. This approach will allow investigators to determine the genomic binding locations of DNA interacting proteins during development and expedite the assembly of the genetic networks that regulate embryogenesis. Wellcome Trust European Molecular Biology Organization National Institutes of Health (Grant HG002668) (Grant DK070813) (Grant 2RO1 HD33472) (Grant 5RO1 MH59942) 2010-10-05T20:08:23Z 2010-10-05T20:08:23Z 2006-08 2006-04 2010-09-03T16:14:25Z Article http://purl.org/eprint/type/JournalArticle 1474-760X 1465-6914 1465-6906 http://hdl.handle.net/1721.1/58880 Genome Biology. 2006 Aug 04;7(8):R71 16889661 https://orcid.org/0000-0002-4890-424X https://orcid.org/0000-0001-8855-8647 en http://dx.doi.org/10.1186/gb-2006-7-8-r71 Genome Biology Creative Commons Attribution http://creativecommons.org/licenses/by/2.0 Wardle et al.; licensee BioMed Central Ltd. application/pdf BioMed Central Ltd BioMed Central Ltd
spellingShingle Wardle, Fiona C
Odom, Duncan
Bell, George W.
Wiellette, Elizabeth L
Herbolsheimer, Elizabeth
Smith, James C
Yuan, Bingbing B.
Sive, Hazel L.
Danford, Timothy William
Young, Richard A.
Zebrafish promoter microarrays identify actively transcribed embryonic genes
title Zebrafish promoter microarrays identify actively transcribed embryonic genes
title_full Zebrafish promoter microarrays identify actively transcribed embryonic genes
title_fullStr Zebrafish promoter microarrays identify actively transcribed embryonic genes
title_full_unstemmed Zebrafish promoter microarrays identify actively transcribed embryonic genes
title_short Zebrafish promoter microarrays identify actively transcribed embryonic genes
title_sort zebrafish promoter microarrays identify actively transcribed embryonic genes
url http://hdl.handle.net/1721.1/58880
https://orcid.org/0000-0002-4890-424X
https://orcid.org/0000-0001-8855-8647
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