1. What can I provide? Mark 7/6/04

2. Who am I? FJU –BS: Computer Science Information Engineering NYU –MS: CS UMDNJ –PHD: Bioinformatics

3. Bioinformatics Sequences Protein / Molecular / Drug design Image Processing Prediction / Data mining / Machine learning Others

4. Sequences Fragment assembly Sequences alignment, compare, search. Trees (Phylogenetic Analysis) Microarray analysis

5. Sequences

6. Microarray Analysis

7. Protein Protein Structure Modeling & Prediction Docking

8. Protein Structure Modeling & Prediction AA sequence –TELTKCKVSHAIKDI DGYQGISLLEWACV LFHTSGYDTQAVVN DNGSTEYGLFQISD RFW CKSSEFPESENICGIS CDKLLDDELDDDIA CAKKILAIKGIDYW KAYKPMCSEKLEQ WRC EKP

9. Docking XK-263 inhibitor binding to HIV-1 Protease Benzamidine binding to beta-Trypsin

10. Molecular Intermolecular Interactions Molecular Dynamics Drug Discovery (QSAR) Conformational Search (1D, 2D, 3D search)

11. Intermolecular Interactions / Molecular Dynamics Example of pulling a sodium ion (large sphere) through the gramacidin A channel

12. 2D 3D search, alignment, QSAR

13. Image Processing Medical Image Processing and Visualization 3D Medical Image Processing

14. 3D image processing for MRI

15. Prediction / Data mining / Machine learning Statistic Factor Analysis, Trends Analysis Neural Network, SVM

16. Others gene prediction, patterns recognition, Protein Classification, finding motifs.

17. gene prediction ACCTGGGTCGGG TGCAGACTGCGG AGCGGGCCCTAC CGTGTGCGCAGA AAGAGGAGGCG CTTGCCTTCAG CTTGTGGGAAAT CCCGAAGATGGC CAAAGACAACTC AACTGTTCGTTG CTTCCAGGGCCT GCTGATTTTT

18. patterns recognition / finding motifs

19. Bioinformatics Projects Sequences=>Related sequences=>Papers Protein Modeling + Molecular Dynamics Automatic drug design machine Data cleaning

20. Computer Science Software programming AT&T –machine which will read emails, answer emails, score emails, distribute emails.

21. Thanks

22. What do you want? chiangyi at umdnj dot edu