Proteoglycomics is a systematic study of structure, expression, and function of proteoglycans, post-translationally modified subset of proteome. The process of glycan synthesis relies on number of highly competitive process involving glycosyl tranferases. Therefore, the process of glycosylation is highly sensitive to biochemical environment and has been implicated in many diseases including cancer. Recently, the interest in profiling glycome has increased for the potential of glycan as disease marker. The established technologies of proteomics and glycomics, proteoglycomics research requires unique approaches for elucidating structure-function relationship of proteoglycan components, glycosaminoglycans chain and core protein. This review discuss on the existing newly developed technologies widely involved in profiling glycome and role of proteoglycans that can be used as potential marker for disease condition.