Proteomic analyses have proven to be an invaluable tool in obtaining high-throughput protein identification from low-abundance, complex biological samples. This is the first book that examines organelle proteomics in depth. Detailed protocols provide step-by-step instructions to successfully study organelle proteomes by performing the purification of the various organelles present in eukaryotic cells, as well as by preparing certain sub-fractions of organelles. A series of chapters cover the whole analytical procedure of organelle characterization, from its purification starting with whole cells up to protein identification using mass spectrometry. Also, devoted to methods enabling a global estimate of the reliability of the protein list assigned to an organelle, the book allows scientists to gain a vital and important understanding of organelle study.