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Methods April 1, 2014; 66 (3): 410-21.

Chromatin immunoprecipitation and deep sequencing in Xenopus tropicalis and Xenopus laevis.

Wills AE , Gupta R , Chuong E , Baker JC .

Chromatin immunoprecipitation and deep sequencing (ChIP-SEQ) represents a powerful tool for identifying the genomic targets of transcription factors, chromatin remodeling factors, and histone modifications. The frogs Xenopus laevis and Xenopus tropicalis have historically been outstanding model systems for embryology and cell biology, with emerging utility as highly accessible embryos for genome-wide studies. Here we focus on the particular strengths and limitations of Xenopus cell biology and genomics as they apply to ChIP-SEQ, and outline a methodology for ChIP-SEQ in both species, providing detailed strategies for sample preparation, antibody selection, quality control, sequencing library preparation, and basic analysis.

PubMed ID: 24064036
PMC ID: PMC4084882
Article link: Methods
Grant support: [+]

References [+] :
Akkers, Chromatin immunoprecipitation analysis of Xenopus embryos. 2012, Pubmed, Xenbase