3. Working with the application

3.1. Loading data
    3.1.1. File with a gene expression table
    3.1.2. File with gene descriptions
    3.1.3. File with the nucleotide sequences of genes
3.2. Managing groups of fields (experiments)
    3.2.1. Viewing groups
    3.2.2. Adding a new group
    3.2.3. Editing a group
    3.2.4. Deleting a group
3.3. "Field selection" dialog box
    3.3.1. Dialog box elements
3.4. Selecting genes by query
    3.4.1. Dialog box elements
3.5. Quick search
3.6. Selecting genes with similar expression profiles
    3.6.1. Specifying gene sets
    3.6.2. Setting up calculation parameters
    3.6.3. Query results
3.7. Searching for correlation between two sets of genes
3.8. Searching for correlation between two sets of fields
3.9. Correlation matrix dialog box
    3.9.1. "Setup for correlations graph" dialog box
3.10. Building a gene tree
3.11. Building a field tree
3.12. "Tree diagram" dialog box
    3.12.1. "Mark nodes" dialog box
    3.12.2. "Pattern setup" dialog box
    3.12.3. "Scalable tree diagram" dialog box
3.13. Gene clustering
    3.13.1. Clustering genes or fields by the Ben-Dor algorithm
    3.13.2. Clustering by the SOM algorithm
3.14. Principal component analysis
3.15. "Graph" dialog box
    3.15.1. "Operations with marked items" dialog box
    3.15.2. "PCA" dialog box
3.16. Expression map
    3.16.1. "Pattern setup" dialog box
    3.16.2. "Image options" dialog box
3.17. "Expression profiles" dialog box
    3.17.1. Graph
    3.17.2. Information pane
    3.17.3. Experiments view modes
    3.17.4. Gene list
    3.17.5. List of experiments
    3.17.6. The "Options" dialog box
3.18. "Select color" dialog box
3.19. "Select font" dialog box