Abstract
Chromatin immunoprecipitation followed by massively parallel sequencing (ChIP-Seq) is a powerful technique to map the genomic location of a given chromatin bound factor (i.e., transcription factors, cofactors) or epigenetic marks, such as histone modification. The procedure is based on cross-linking of proteins to DNA followed by the capture of the protein-DNA complexes by “ChIP-grade” antibodies. In this chapter we describe in detail the experimental method developed in our laboratory to investigate in vivo the DNA-binding characteristics of a key heterodimeric nuclear receptor, the retinoid X receptor (RXR) in murine bone marrow-derived macrophages.
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Acknowledgements
Work in the Nagy laboratory is supported by a grant from the Hungarian Scientific Research Fund (OTKA K100196), and TÁMOP-4.2.2.A-11/1/KONV-2012-0023 “VÉDELEM” implemented through the New Hungary Development Plan co-financed by the European Social Fund and the European Regional Development Fund. The project is funded by the Internal Research University grant entitled “Dissecting the genetic and epigenetic components of gene expression regulation in the context of the 1000 genomes project.” B. L. Balint is Szodoray fellow of the University of Debrecen and recipient of the Magyary Zoltan fellowship supported by the TAÏMOP 4.2.4.A/2-11-1-2012-0001 grant, implemented through the New Hungary Development Plan co-financed by the European Social Fund and the European Regional Development Fund. Z.S.N. was a recipient of the János Bolyai Research Fellowship from the Hungarian Academy of Sciences and is supported by the NKTH-OTKA-EU 7KP (HUMAN_MB08-3-2011-0002, Marie Curie actions) Reintegration Grant.
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Daniel, B., Balint, B.L., Nagy, Z.S., Nagy, L. (2014). Mapping the Genomic Binding Sites of the Activated Retinoid X Receptor in Murine Bone Marrow-Derived Macrophages Using Chromatin Immunoprecipitation Sequencing. In: Castoria, G., Auricchio, F. (eds) Steroid Receptors. Methods in Molecular Biology, vol 1204. Humana, New York, NY. https://doi.org/10.1007/978-1-4939-1346-6_2
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DOI: https://doi.org/10.1007/978-1-4939-1346-6_2
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