Phosphopeptide Microarrays for Comparative Proteomic Profiling of Cellular Lysates

  • Liqian Gao
  • Hongyan Sun
  • Mahesh Uttamchandani
  • Shao Q. Yao
Part of the Methods in Molecular Biology book series (MIMB, volume 1002)


Protein phosphorylation is one of the most important and well-studied posttranslational modifications. Aberrant phosphorylation causes a wide spectrum of diseases, including cancers. As a result, many of the proteins involved in these pathways are seen as vital drug targets and biomarkers in treatment and diagnosis. The availability of broad-based platforms that identify changes across cellular states is critical in understanding unique disease characteristics and changes at the proteomic level. To highlight how microarrays can be applied in this regard, we describe here a comparative proteomic profiling method using two-color sample labeling and application on phosphopeptide microarrays, followed by a pull-down strategy and MS-based protein identification. This strategy has been applied to uncover candidate biomarkers in breast cancer and colon cancer cell lines. Apart from the synthesis of the phosphopeptide libraries and growth/isolation of cellular lysates, the protocol takes approximately 15 days to complete, once key steps have been optimized, and can be readily extended to other similarly complex biological specimens/samples.

Key words

Phosphopeptide microarrays Biomarkers Protein phosphorylation Comparative proteomic profiling 



The authors acknowledge funding support from Ministry of Education (R-143-000-394-112), the Agency for Science, Technology and Research (R-143-000-391-305), and DSO National Laboratories.


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Copyright information

© Springer Science+Business Media, LLC 2013

Authors and Affiliations

  • Liqian Gao
    • 1
  • Hongyan Sun
    • 2
  • Mahesh Uttamchandani
    • 3
  • Shao Q. Yao
    • 1
  1. 1.National University of SingaporeSingaporeRepublic of Singapore
  2. 2.City University of Hong KongHong KongChina
  3. 3.DSO National LaboratoriesSingaporeRepublic of Singapore

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