Scripps Genome ADVISER | Annotation and Distributed Variant Interpretation Server

Example Usage

  1. Click here to download SG-ADVISER UI and unzip it;
  2. OSX users: Double-click SG-ADVISER_UI_'version'.command file to run SG-Adviser UI;
    Windows users: Double-click SG-ADVISER_UI_'version'.bat file to run SG-Adviser UI;
  3. Go to File -> Open and select the file you want to analyze;
  4. Press on Next Page to view the file contents (to save time at loading only 500 lines are shown per view, you can look at the first few pages while the entire file is being loaded in memory);
  5. Be patient until the progress bar shows that the entire file is loaded in memory before you proceed with any sorting of filtering;
  6. Sort file by a column of interest. Ex: Gene or ADVISER Score;
  7. Use the custom filters by looking at Known and Predicted Disease - Causing Variants;
  8. Find out the variants in Cancer Genes from the Known and Predicted Disease Causing Variants by selecting the Cancer Genes filter;
  9. Remember that each consecutive filter is filtering the current filter data; in order to filter the entire file you have to click "|<<";
  10. If the filter result is bigger than 1000 entries you can see the next pages by clicking on Next Page or go back by clicking on Previous Page at the bottom of the view;
  11. If you want to find only variants that are entries in PharmGKB database and drug whose metabolism is perturbed you can use the Pharmacogenetic filter;
  12. To select only entries on a specific chromosome/position choose Chromosome Position filter;
  13. To filter the variants from a single gene, in the filter bar select column 'Gene' in enter the gene name. Ex: TP 53;
  14. Add comments in the comments column;
  15. Save results to file;
  16. Go back to Original Data;
  17. Use custom filter and filter by any 3 criteria;


Scripps Genome ADVISER | Annotation and Distributed Variant Interpretation Server