Protein phosphorylation is one of the most important post-translational modifications. Reversible protein phosphorylation plays an essential role in regulation of cellular actions. Recently, phosphoproteomics is becoming a hotspot. Quantitative phosphoproteomics provides the possibilities to study temporal-spatial dynamics of protein phosphorylation and to better understand the regulatory networks of key processes in cells. As a part of proteomics, the quantitative phosphoproteomics faces more severe challenges since protein phosphorylation occupies high dynamics and extreme complexity. Advantages and disadvantages of several newly developed methods and technology were discussed, and the progress in quantitative phosphoproteome research realm was summarized.