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Computational Analysis of Promoter Elements and Chromatin Features in Yeast

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Transcriptional Regulation

Part of the book series: Methods in Molecular Biology ((MIMB,volume 809))

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Abstract

Regulatory elements in promoter sequences typically function as binding sites for transcription factor proteins and thus are critical determinants of gene transcription. There is growing evidence that chromatin features, such as histone modifications or nucleosome positions, also have important roles in transcriptional regulation. Recent functional genomics and computational studies have yielded extensive datasets cataloging transcription factor binding sites (TFBS) and chromatin features, such as nucleosome positions, throughout the yeast genome. However, much of this data can be difficult to navigate or analyze efficiently. This chapter describes practical methods for the visualization, data mining, and statistical analysis of yeast promoter elements and chromatin features using two Web-accessible bioinformatics databases: ChromatinDB and Ceres.

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Authors and Affiliations

  1. School of Molecular Biosciences and Center for Reproductive Biology, Washington State University, Pullman, WA, USA

    John J. Wyrick

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  1. John J. Wyrick
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Correspondence to John J. Wyrick .

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Editors and Affiliations

  1. , Department of Biological Sciences, St. John's University, Utopia Parkway 8000, Queens, 11439, New York, USA

    Ales Vancura

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Wyrick, J.J. (2012). Computational Analysis of Promoter Elements and Chromatin Features in Yeast. In: Vancura, A. (eds) Transcriptional Regulation. Methods in Molecular Biology, vol 809. Springer, New York, NY. https://doi.org/10.1007/978-1-61779-376-9_15

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  • DOI: https://doi.org/10.1007/978-1-61779-376-9_15

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  • Publisher Name: Springer, New York, NY

  • Print ISBN: 978-1-61779-375-2

  • Online ISBN: 978-1-61779-376-9

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