1. In-Geol Choi, Jaimyoung Kwon, and Sung-Hou Kim, UC Berkeley
Local feature frequency profile: A method to measure structural similarity in proteins
In-Geol Choi, Jaimyoung Kwon, and Sung-Hou Kim, UC Berkeley
PNAS 2004
presented by Chao Wang

2. Abstract

3. Background Protein classification Protein alignment SCOP CATH DALI CE
VAST
SSAP

4. Background cont'd
Protein structure universe

5. Methods

6. Database

7. Local Feature (LF)

8. LF cont'd

11. SVD for visualization

12. Results
How to select the parameters? m=10, K=100

13. 100 clusters

14. Why use normalization?

15. Visualization

16. Visualization cont'd

17. Comparison with SCOP/CATH

18. Special case

19. Discussion

20. Comments by Chao
To design features in our NN
...