Getting Started
using the GDPC Browser


Introduction

In an effort to help new users become familiar with the GDPC Browser, the following steps will guide you through some basic functions using the GDPC Browser.


Data Retrieval...

  1. If you are not already on the "Connections" tab, click that tab to switch to it.
  2. Click on the "Add Conn" button to open the "Add SOAP Connection..." dialog.
  3. Click the "Panzea" button to fill the fields with the appropriate values for the Panzea database.
  4. Click "Ok" to connect to the Panzea database. If successful, the Panzea connection will appear in the "Managed Data Sources" list.
  5. Click the "Taxa" tab to switch to it.
  6. From the properties list at the bottom, click the "Source" property to add that property to the filter. Once checked, that property should appear filled with the possible values for that property.
  7. Select the "NCSU" value on the "Source" list.
  8. Click the "Get Data" button to retrieve all Taxa with property "Source" equal to "NCSU" from the Panzea database. If the working and filtered lists are linked (default), a list of matching taxa will appear in both lists. NOTE: The working list is the list used when performing other functions (i.e. saving, exporting, etc). Therefore, having the working list linked to the filtered list is useful. Although, if you wish to build a custom working list, unlinking them allows you to do that.
  9. Click the "Loci" tab to switch to it.
  10. From the properties list, click the "Chromosome Name" and to add that property to the filter.
  11. Select "1" from the "Chromosome Name" list.
  12. Click the "Get Data" button to retrieve all loci on chromosome 1. NOTE: clicking on an item in either the filtered or working list will show its property values.
  13. Click the "Genotype Experiments" tab to switch to it.
  14. One property of Genotype Experiments is Locus, which is why you will see a list labeled "Locus (working list)." The values in that list are from the working list on the "Loci" tab and are the results of your previous actions in steps 9-12. Select all values in this list by pressing Ctrl-A when that list is in focus. Change focus to the list by clicking on any value in the list.
  15. Click the "Get Data" button to retrieve all Genotype Experiments which were performed on any of the selected loci. In other words, to retrieve all Genotype Experiments which were performed on loci with "Chromosome Name" equal to "1."
  16. Click on the "Environment Experiments" tab to switch to it.
  17. From the properties list, click the "Locality" and to add that property to the filter.
  18. Select "Buckler Lab-NCSU" from the "Locality" list.
  19. Click the "Get Data" button to retrieve all Environment Experiments with "Locality" of "Buckler Lab-NCSU."
  20. Click the "Genotypes" tab switch to it. This panel has a Taxa list and Genotype Experiments list. Values in both lists are results of your previous actions. By default, all items in both these lists are already selected.
  21. Click the "Get Data" button to retrieve all Genotypes for the selected Taxa and Genotype Experiments. The results will be displayed in a table with Taxa as row headers and Genotype Experiments as column headers.
  22. Click the "Phenotype" tab to switch to it.
  23. This panel has an Ontology list, Taxa list, and Environment Experiments list. Values in the Taxa list and Environment Experiments list are results of your previous actions. The Ontology list shows all the possible traits measured. Select "Days to Silk" from this list.
  24. Click the "Get Data" button to retrieve all "Days to Silk" values for the selected Taxa and Environment Experiments. The results will be displayed in a table with Taxa as row headers and Environment Experiments as column headers.




GDPC Home Page: http://www.maizegenetics.net/gdpc