Abstract
The immunoprecipitation of protein complexes with associated DNA fragments, termed chromatin immunoprecipitation, allows for the analysis of the binding of endogenous factors. With the advent and widespread use of next generation high-throughput sequencing technologies, factor binding can be assessed in an unbiased and genomewide approach. The protocol outlined here yields sufficient material to subsequently carry out such analyses and discusses key steps in detail.
The online version of the original chapter can be found at http://dx.doi.org/10.1007/978-1-62703-155-4_25
An erratum to this chapter can be found at http://dx.doi.org/10.1007/978-1-62703-155-4_25
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References
Jackon V (1978) Studies on histone organization in the nucleosome using formaldehyde as a reversible cross-linking agent. Cell 15(3):945–954
Gilmour DS, Lis JT (1984) Detecting protein-DNA interactions in vivo: distribution of RNA polymerase on specific bacterial genes. Proc Natl Acad Sci USA 81(14):4275–4279
Hebbes TR, Thorne AW, Crane-Robinson C (1988) A direct link between core histone acetylation and transcriptionally active chromatin. EMBO J 7(5):1395–1402
Solomon MJ, Larsen PL, Varshavsky A (1988) Mapping protein-DNA interactions in vivo with formaldehyde: evidence that histone H4 is retained on a highly transcribed gene. Cell 53(6):937–947
Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(−Delta Delta C(T)) Method. Methods 25(4):402–408
Adhikary T, Kaddatz K, Finkernagel F, Schönbauer A, Meissner W, Scharfe M, Jarek M, Blöcker H, Müller-Brüsselbach S, Müller R (2011) Genomewide analyses define different modes of transcriptional regulation by peroxisome proliferator-activated receptor-β/δ. PLoS One 6(1):e16344
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Adhikary, T., Müller, R. (2013). In Vivo Studies of PPAR-Chromatin Interactions: Chromatin Immunoprecipitation for Single-Locus and Genomewide Analyses. In: Badr, M., Youssef, J. (eds) Peroxisome Proliferator-Activated Receptors (PPARs). Methods in Molecular Biology, vol 952. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-155-4_12
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DOI: https://doi.org/10.1007/978-1-62703-155-4_12
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Publisher Name: Humana Press, Totowa, NJ
Print ISBN: 978-1-62703-154-7
Online ISBN: 978-1-62703-155-4
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