Twenty-five CEL files (samples) have been imported into Partek Genomics Suite. Sample information must be added to define the grouping and the goals of the experiment.
- Select Add Sample Attributes in the Import section of the Gene Expression workflow panel
- Choose the option Add Attributes from an Existing Column and select OK to open the Sample Information Creation dialog
In this tutorial, the file name (e.g., Down Syndrome-Astrocyte-748-Male-1-U133A.CEL) contains the information about a sample and is separated by hyphens (-). Choosing to split the file name by delimiters will separate the categories into different columns
- In the Sample Information panel, specify the column labels (Labels 1-4) as Type, Tissue, Subject, and Gender, set each as categorical, and set the other columns as skip (Figure 1). Select OK
- A dialog window asking if you would like to save the spreadsheet with the new sample attribute will appear. Select Yes
- Make column 5. (Subject) random by right-clicking on the column header and selecting Properties from the pop-up menu (Figure 2).
- Select the Random Effect check box from the Properties dialog (Figure 10) then select OK.
The column 5. (Subject) will now be colored red, indicating that it is a random effect. - To save changes to the spreadsheet, select the Save Active Spreadsheet icon (). Spreadsheets with unsaved changes have an asterisk next to their name in the spreadsheet tree.
Note: More details on Random vs. Fixed Effects can be found later in this tutorial under the section Identifying Differentially Expressed Genes using ANOVA.