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Validating Your Retrieved ResultsA fully-featured search tool would allow you to limit your searches to results that have been validated by the Cancer Gene Index project's human curators as being true gene-disease associations or that do not come from cell lines. Currently, but currently however, the Templated Search does not allow such limits to be set. Thus, you must access to caBIO Object Graph Browser to manually check the validity of each of these the retrieved records. To perform these checks, first click on any gene-disease result row in order to view its Gene-Disease Association information. Gene-Disease Assocation data includes the Gene Term, Gene Symbol, Disease Term, Disease Symbol, Sentence PubMed Identifier, Sentence Evidence, Data, Metadata, and Annotations#Evidence Code, and Data, Metadata, and Annotations#Role Code or Detail (1). Additional information on these items may be found in the Data, Metadata, and Annotations section. Next, click on the NEW FIGURE HERE!!!! This will open up a the Gene-Disease Assocation object in a new tab in your web browser. Click on the
Once you have finished reviewing the gene-disease association in the caBIO Object Graph Browser, return to the caBIO Portlet tab in your web browser tab or window, and click the To search for genes associated with these additional disease concepts, return to your Templated Search results page and click the Disease OntologiesCancers are complicated diseases, as is the nomenclature. For example, "ovarian serous adenocarcinoma" is closely related to, but distinct from, "ovarian serous cystadenocarcinoma," "ovarian serous papillary adenocarcinoma," and "malignant ovarian serous tumor." If you utilize the Templated Search tool to query for "ovarian serous adenocarcinoma" you will only uncover genes related to this exact term. Unfortunately, you cannot yet use this tool to simultaneously retrieve records for closely related disease terms and instead must repeat the To view disease ontologies, open Open a new browser tab or window and navigate to the NCI Thesaurus web page, enter in your disease term or NCI Thesaurus concept code (2, "ovarian serous adenocarcinoma"), and click the Search button (3). If required, select your exact search term from the list to view the NCI Term page. You may view disease ontologies parent and child terms for any disease term by clicking on the Relationships tab (3) and reviewing the parent and child concepts, or you may see blue box). For example, "ovarian serous adenocarcinoma" has the children "ovarian serous cystadenocarcinoma" and "ovarian serous papillary adenocarcinoma" and the parent terms "malignant ovarian serous tumor," "ovarian adenocarcinoma," and "serous adenocarcinoma." Alternatively, if you would like to view where your term fits in the entire disease hierarchy by clicking , click the red View in Hierarchy button (4green box). NCIt SEARCH FIGURE OVARIAN ADENOCARCINOMA HERE!!! To search for genes associated with these additional disease concepts, return to your Templated Search results page and click the Instead, try searching for a more general disease term in the NCI Thesaurus. To find this, open a new browser tab or window and navigate to the NCI Thesaurus web page, enter in your disease term or NCI Thesaurus concept code (2, "ovarian serous adenocarcinoma"), and click the Search button (3). If required, select your exact search term from the list to view the NCI Term page. You may use the parent and child disease concepts listed the Relationships tab (3) for your Templated Search or you may find all related disease term in the Thesaurus disease hierarchy by clicking the red View in Hierarchy button (4). NCI THESAURUS RELATIONSHIPS AND HIERARCHY |