The use of fission yeast as a model system for studies of chromosome biology has contributed to several key advances in the last few years. The structure of its large complex centromeres and composition of its transcriptionally silent heterochromatin resemble those of metazoa. The application of chromatin immunoprecipitation to fission yeast has been instrumental in these advances and we describe an improved version of this technique in detail. In addition, we describe several other techniques, which are useful in the analysis of chromatin in fission yeast.