Korean Database of Genomic Variants, KDGV

1. KDGV
(Korean Database of Genomic Variants)
http://ksnp.cdc.go.kr
2009. 4

2. KDGV(Korean Database of Genomic Variants)
KSNP Database KARE Database KAREdb GWASaid

3.
KSNP Database

4.
GWASaid

5.
KAREdb

6. KARE Database Overview
• Based on version 1.69 of GMOD GBrowse
• Contains all of the gene information normally present in
International HapMap project
• Ensembl genes, Entrez genes, dbSNP SNPs, Copy Number
Variation
• Please send questions, problems or apparent errors to
hongiiv@nih.go.kr

7.
KARE Database

8. Database summary statistics
Total KARE SNP entries:
2,096,558(77% imputed)
Cluster Plot : 500,568
dbSNP: Build 129
HapMap: 2008. 06

9. KARE Database Browser Home Page

10. Search methods

11. Keyword search

12. Meta word search: terms

13. Cluster plot search
Download compressed image file
dbSNP rs#

14. Chromosome band search

15. Search Result
Search and Navigation track
Search result track
- Overview track
- Region track
- Detail track
Track configure
Display setting
Add your own data

16. KARE Data track config
• Genotyped Allele Frequency view with pie chart
• These are selected from the “Tracks” menu and appear as tracks near
the bottom of the display
• Tracks for all SNPs and the SNPs on selected HapMap are also available

17. Browser Navigation
Zoom in
Left move Right move Recenter
Region size Mouse drag
Region zoom in/out

18. HapMap & KHapMap Information

19. NCBI dbSNP Information

20. Genes, Contig, GC Content information

21. KARE SNP Information
Allele
information
Genotype
frequency
Table View

22. KARE SNP Information
Cluster Plot
High resolution
image

23. LD plot Information
Based on data from HapMap populations
Populations selectable from
“Configure... LD Plot” menu

24. http://cgs.cdc.go.kr
http://ksnp.cdc.go.kr
http://www.ngri.go.kr/SNP