Main Menu
Click on Setup to run previously created CaGene records in batches, to transfer family history information from an older version of CaGene, or to set the BayesMendel parameters. Click on Info to learn more about using CaGene or to learn about the models included in CaGene.
Load File: Clicking on Load File on the Main Menu opens a page for retrieving families that have been previously entered and saved as input text files or as records in the CaGene database.
Setup: The Setup page allows you to run CaGene in Batch Mode, to transfer data created in older versions of CaGene, and to access the Parameters page for customizing the way the BayesMendel model run.
The Parameters page allows you to customize the way the BayesMendel models run.
The Pedigree Diagram
Family history information is collected and then displayed in this pedigree diagram. Information can be added or changed by clicking on the relative of interest. Clicking on the "Notation" button brings up a text box that can be used to annotate the pedigree. Clicking on Change Proband allows you to run the calculations using a different family member as the proband. Clicking the "Done" button initiates the analysis.
New relatives are added from this page and there are three options for doing this.
- Use shortcut keys to initiate entry for specific relative types (e.g. "m" for mother, "s" for sister...)
- Click on the appropriate circle or square on the pedigree template in the upper left corner.
- Use the "Add Relative" drop down menu in the upper left corner.
Output Manager
This is the output manager that appears after the "Done" button is clicked. From here, you can return to the pedigree, start a new pedigree, save your pedigree information to the relational database, see a list of cancer syndromes relevant to the pedigree you have entered, review cancer syndrome information in general, or view probabilities for the current pedigree.
The Claus Model: Clicking on the "Breast" tab in the initial output screen brings up the Claus Model Probabilities. These are provided at five-year increments up to age 79. The tabs at the bottom of this display are used to navigate between various models.
BRCAPRO is the Johns Hopkins Bayesian model. Carrier probabilities for BRCA 1 and 2 gene mutations are provided, as well as cumulative probabilities that the proband will develop breast or ovarian cancer.
Probabilities of BRCA 1 or 2 gene mutation are provided for models other than BRCAPRO.
The Gail Model is integrated with CancerGene
Clicking on the Colon Cancer tab in the Output Manager displays the HNPCC gene mutation probabilities.
MMRpro provides HNPCC gene mutation probabilities and age-specific risk for colorectal and endometrial cancer.
PancPro calculates the probability of a mutation in a hypothetical pancreas cancer susceptibility gene and the age-specific risk of pancreas cancer.
A Note For International Users
Set the "Regional Settings" in your Control Panel to English (United States). Decimal points must be specified as a 'period', not at 'comma' or the program will crash during the analysis.
