1. Tutorial: Retrieving Genetic Data from GERMINATE using the GDPC browser

2. What is GDPC GDPC is the Genomic Diversity and Phenotype Connection.
It was developed at University of Cornell by Terry Casstevens and Ed Buckler
Advantages of GDPC include
The ability to connect to multiple database in a single instance and retrieve datasets including data from multiple database sources
Making data available as web services which facilitates the use of databases which are GDPC enabled can be used by analysis and visualization tools which are GDPC aware.

3. Adding database connection

4. Adding database connection
Click OK to add
connection
Click to add GERMINATE
SOAP connection

5. Adding database connection
GERMINATE database connected. Other databases can be connected simultaneously

6. Using GDPC
Once the database(s) is/are connected to the GDPC browser users can start retrieving datasets.
The following slides give an introductory tutorial on how to select and retrieve genotype data using the GDPC Browser.

7. Selecting datasets
Select Genotype Experiments

8. Selecting datasets Retrieve data Select fields to filter on
Select filter criteria

9. Selecting datasets
Filtered List - All data from criteria selected below retrieved here
Working List - Can be decoupled from the filtered list to select a subset of entries from the data retrieved
Button to unlink the filtered and working lists

10. Selecting datasets
Clears the filtered list. If working and filtered lists are linked both will be cleared
Clears selected elements from the working list
Clears entire working list
Unlinks filtered and working lists. Working lists will be used in other tabs

11. Selecting datasets
Use this button to add selected entries from filtered list to working list
Unlinked filtered and working lists. Working lists will be used in other tabs
All entries in filtered list can be added to the working list with this button

12. Selecting Locations
Select Localities Tab

13. Selecting Locations Retrieve data Data Returned from Database
Properties for highlighted entry
Select filter criteria
Select fields to filter on

14. Selecting Taxa
Locations selected to working list in Localities tab can be used here to select taxa

15. Selecting Taxa Retrieve data Select fields to filter on
Select filter criteria

16. Retrieving genotype data
Retrieve data
Taxa working list from Taxa tab
Genotype Experiments working list from Genotype Experiments tab
Retrieves intersection of taxa and genotype experiments from lists below

17. Retrieving genotype data
Deselects all from lists below
Select one or more taxa with no experiments selected and all data from that set of taxa will be returned.

18. Retrieving genotype data
Deselects all from lists below
Select one or more experiments with no taxa selected and all data from that set of experiments will be returned.