1. Experimental Analysis of Receptor Kinase Phosphorylation

Srijeet K. Mitra, Michael B. Goshe, and Steven D. Clouse

2. Quantitative Measurement of Phosphopeptides and Proteins via Stable Isotope Labeling in Arabidopsis (SILIA) and Functional Phosphoproteomic Strategies

Ning Li

3. Identification of O-GlcNAc Modified Proteins from Arabidopsis

Shou-Ling Xu, Robert J. Chalkley, Zhi-Yong Wang, and Alma L. Burlingame

4. Quantitative Analysis of Protein Phosphorylation Using Two-Dimensional Difference Gel Electrophoresis (2-D DIGE)

Zhiping Deng, Shuolei Bu, and Zhi-Yong Wang

5. Quantitative Analysis of Plasma Proteome Using Two-Dimensional Difference Gel Electrophoresis (2-D DIGE)

Wenqiang Tang

6. Identification and Verification of Redox-Sensitive Proteins in Arabidopsis thaliana

Hai Wang, Shengbing Wang, and Yiji Xia

7. Small-Molecule Dissection of Brassinosteroid (BR) Signaling

Mirela-Corina Codreanu, Dominique Audenaert, Long Nguyen, Tom Beeckman, and Eugenia Russinova

8. A Chemical Genetics Method to Uncover Small Molecules for Dissecting the Mechanism of ABA Responses in Arabidopsis Seed Germination

Yang Zhao

9. Activation Tagging

Xiaoping Gou and Jia Li

10. Rho GTPase Activity Analysis in Plant Cells

Tongda Xu

11. Analysis of In Vivo ROP GTPase Activity at the Subcellular Level by Fluorescence Resonance Energy Transfer Microscopy

Lei Zhu and Ying Fu

12. In vivo Ubiquitination Assay by Agroinfiltration

Lijing Liu, Qingzhen Zhao, and Qi Xie

13. In Vitro Protein Ubiquitination Assay

Qingzhen Zhao, Lijing Liu, and Qi Xie

14. Genome-Wide Identification of Transcription Factor Binding Sites in Plants Using Chromatin Immunoprecipitation Followed by Microarray (ChIP-chip) or Sequencing (ChIP-seq)

Jia-Ying Zhu, Yu Sun, and Zhi-Yong Wang

15. Smart Pooling of mRNA Samples for Efficient Transcript Profiling

Raghunandan M. Kainkaryam, Angela Bruex, Peter J. Woolf, and John Schiefelbein

16. Transient Expression Assays for Quantifying Signaling Output

Yajie Niu and Jen Sheen

17. Genome-Wide Profiling of Uncapped mRNA

Yuling Jiao and José Luis Riechmann

18. Computational Tools for Quantitative Analysis of Cell Growth Patterns and Morphogenesis in Actively Developing Plant Stem Cell Niches

Anirban Chakraborty, Ram Kishor Yadav, Min Liu, Moses Tataw, Katya Mkrtchyan, Amit Roy Chowdhury, and G. Venugopala Reddy