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Updated: Mar 31, 2026
Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens
Published on: June 28, 2018
ChIPseq in Yeast Species: From Chromatin Immunoprecipitation to High-Throughput Sequencing and Bioinformatics Data
Gaëlle Lelandais1, Corinne Blugeon2,3,4, Jawad Merhej5,6
1Institut Jacques Monod, CNRS UMR 7592, University of Paris Diderot, Paris, France. gaelle.lelandais@univ-paris-diderot.fr.
Abstract:
Chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing (ChIPseq) is a powerful technique for the genome-wide location of protein DNA-binding sites. The ChIP experiment consists in treating living cells with a cross-linking agent to bind proteins to their DNA substrates. After fragmentation of DNA, specific fractions associated with a particular protein of interest are purified by immunoaffinity. They are next sequenced and identified on the reference genome using dedicated bioinformatics programs. Several technical aspects are important to obtain high-quality ChIPseq results. This includes the quality of antibodies, the sequencing protocols, the use of accurate controls and the careful choice of bioinformatics tools. We present here a general protocol to perform ChIPseq analyses in yeast species. This protocol has been optimized to identify target genes of specific transcription factors but can be used for any other DNA binding proteins.
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