Selected reaction monitoring(SRM) is one of the major approaches in targeted proteomics researches which mainly focus on the discovery of biomarkers. According to the research purpose, the specific proteins and peptides are selected before an SRM experiment. SRM increases the sensitivity, the accuracy and the dynamic range during the analysis especially in the detection capabilities of low abundance proteins and peptides. A typical SRM experiment includes three steps: experiment design; MS data acquisition; data validation and quantification. Among the three steps, it is vital to predict the special peptides and fragment ions using bioinformatics methods. The validation and quantification of the SRM data are also important to SRM data analysis. Meanwhile, the corresponding softwares, tools and databases are summarized. New experiments strategies and new bioinformatics tools are generated along with the developments of SRM instruments. Using improved experiment strategies, parameters and better quantitative algorithms as well as more sophisticated bioinformatics tools, SRM will play a more important role in the future of proteomics research.