Genomics Methods for Xenopus Embryos and Tissues
- 1The Francis Crick Institute, London NW1 1AT, United Kingdom;
- 2Department of Developmental and Cell Biology, University of California, Irvine, California 92697;
- 3Radboud University, Department of Molecular Developmental Biology, 6525GA Nijmegen, The Netherlands
- ↵4Correspondence: drmikegilchrist{at}gmail.com; kwcho{at}uci.edu; g.veenstra{at}science.ru.nl
Abstract
High-throughput sequencing methods have created exciting opportunities to explore the regulatory landscape of the entire genome. Here we introduce methods to characterize the genomic locations of bound proteins, open chromatin, and sites of DNA–DNA contact in Xenopus embryos. These methods include chromatin immunoprecipitation followed by sequencing (ChIP-seq), a combination of DNase I digestion and sequencing (DNase-seq), the assay for transposase-accessible chromatin and sequencing (ATAC-seq), and the use of proximity-based DNA ligation followed by sequencing (Hi-C).
Footnotes
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From the Xenopus collection, edited by Hazel L. Sive.
