Targeted Proteomics Approach by Multiple Reaction Monitoring for the Quantitation of Selected Proteins Encoded in 18 Chromosome

In the past two decades, the mass spectrometry (MS)-based proteomics emerges as an important academic field in biological science. The fast technology development of proteomics, especially in the high throughput technology for global protein identification and quantification in biological specimens, has enable a dramatic and fundamental change for the studies in various sub-fields of biological science. Human Proteome Organization (HUPO), funded in 2001, is the key promoter for the promotion of proteomics to the whole world; at present, there are 25 regional proteomic societies registered in over 30 countries, including Taiwan (TaiHUPO) and Russia (RuHUPO). As more than 100,000 proteins are expected to be encoded by human genome, how scientists can identify what kinds of protein and quantify their amounts in different biological samples represent one of the critical issues in proteomic study in many developed countries. The gene-centric approach through international collaborative efforts for mining the disease-associated proteome with an emphasis on specific chromosome may be a feasible way to overcome this problem. On this premise, TaiHUPO and RuHUPO have made an agreement at Sep. 2009 to form a cooperation framework with a primary goal to foster the specific research activities in the field of proteomics, including targeted proteomics assay for quantitative analysis of subset of 286 proteins on 18-th chromosome. On the basis of this agreement, we and the Russia research team led by Prof. Andrei Lisitsa (Deputy Director, Department of Proteomics and Bioinformatics, Institute of Biomedical Chemistry, Russian Academy of Medical Sciences, Moscow, Russia) therefore propose the present two-year collaborative project. In the following two years, both teams will work closely to pursue two specific aims: (1) (1st year) Development of the multiple reaction monitoring (MRM) MS technology for targeted quantitative analysis of subset of 286 proteins encoded by 18-th chromosome. The proteins (~20) that are reported to be closely associated with certain human cancer types (such as liver cancer or colorectal cancer) will be selected at first priority. (2) (2nd year) Application of the developed MRM assay to quantify these 20 targets in real human blood samples (100 from healthy controls and 100 from patients with liver or colorectal cancer), which are expected to identify a potentially useful biomarker panel for cancer diagnosis. Via this collaborative work, we anticipate to significantly improve the mutual understanding of people and proteomic work involved in both TaiHUPO and RuHUPO. In addition, the technology platform and the dataset resulted from this collaborative work are expected to contribute significantly to the establishment of gene (chromosome)-centric approach for mining the disease-associated proteome in the near future.

Project ID:PC9909-0195
External Project ID:NSC99-2923-B182-002-MY2