Korean Database of Genomic Variants

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Korean Database of Genomic Variants, KDGV

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Korean Database of Genomic Variants

  1. 1. KDGV (Korean Database of Genomic Variants) http://ksnp.cdc.go.kr 2009. 4
  2. 2. KDGV(Korean Database of Genomic Variants) KSNP Database KARE Database KAREdb GWASaid
  3. 3. 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 KSNP Database
  4. 4. 
 
 
 
 
 

 
 
 
 
 

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 GWASaid 
 
 
 

  5. 5. 
 
 
 
 
 
 
 
 
 

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 KAREdb
  6. 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. 7. 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 KARE Database
  8. 8. Database summary statistics Total KARE SNP entries: 2,096,558(77% imputed) Cluster Plot : 500,568 dbSNP: Build 129 HapMap: 2008. 06
  9. 9. KARE Database Browser Home Page
  10. 10. Search methods 
 
 
 
 

  11. 11. Keyword search 
 

 
 
 
 

 
 
 
 

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 

 
 

 
 
 
 
 
 

  12. 12. Meta word search: terms
  13. 13. Cluster plot search Download compressed image file dbSNP rs#
  14. 14. Chromosome band search
  15. 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. 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. 17. Browser Navigation Zoom in Left move Right move Recenter Region size Mouse drag Region zoom in/out
  18. 18. HapMap & KHapMap Information
  19. 19. NCBI dbSNP Information
  20. 20. Genes, Contig, GC Content information
  21. 21. KARE SNP Information Allele information Genotype frequency Table View
  22. 22. KARE SNP Information Cluster Plot High resolution image
  23. 23. LD plot Information Based on data from HapMap populations Populations selectable from “Configure... LD Plot” menu
  24. 24. http://cgs.cdc.go.kr http://ksnp.cdc.go.kr http://www.ngri.go.kr/SNP

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