Polyadenylation in Plants

Part I: Bioinformatics Studies of Plant Polyadenylation

1. Computational Analysis Of Plant Polyadenylation Signals

Xiaohui Wu, Guoli Ji, and Qingshun Quinn Li

2. Prediction of Plant mRNA Polyadenylation Sites

Xiaohui Wu, Guoli Ji, and Qingshun Quinn Li

3. Extraction of poly(A) Sites from Large-scale RNA-seq Data Min Dong, Guoli Ji, Qingshun Q. Li, and Chun Liang

4. Poly(A)-tag Deep Sequencing Data Processing To Extract poly(A) Sites

Xiaohui Wu, Guoli Ji, and Qingshun Quinn Li

5. Analysis of poly(A) Site Choice Using A Java-Based Clustering Algorithm

Patrick E. Thomas

6. RADPRE: a Computational Program for Identification of Differential mRNA Processing Including Alternative Polyadenylation

Denghui Xing  and Qingshun Quinn Li

Part II: Biochemistry of Polyadenylation in Plants

7. Characterization Of Plant Polyadenylation Complexes By Using Tandem Affinity Purification

Hongwei Zhao?Xinfu Ye, and Qingshun Quinn Li

8. In vitro Analysis Of Cleavage And Polyadenylation In Arabidopsis

Hongwei Zhao and Qingshun Quinn Li

9. Production, Purification, and Assay of Recombinant Proteins for in vitro Biochemical Analyses of the Plant Polyadenylation Complex

Stephen A. Bell and Balasubrahmanyam Addepalli

10. Detection of Disulfide Linkage By Chemical Derivatization And Mass Spectrometry

Balasubrahmanyam Addepalli

11. Transient Expression Using Agroinfiltration To Study Polyadenylation In Plants

Carol Von Lanken and Arthur G. Hunt

12. A 3' RACE Protocol To Confirm Polyadenylation Sites

Liuyin Ma and Arthur G. Hunt

Part III: Genome-Scale Study of Polyadeylation in Plants

13. Phage Display Library Screening for Identification of Interacting Protein Partners

Balasubrahmanyam Addepalli, Suryadevara Rao, and Arthur G. Hunt

14. Genome-wide Determination Of Poly(A) Site Choice In Plants

Pratap Kumar Pati, Liuyin Ma, and Arthur G. Hunt

15. DNA/RNA Hybrid Primer Mediated Poly(A) Tag Library