Figure 9

Ontology for pancreatic cancer genes. The goal of this example was to obtain the gene ontology classification of the genes differentially expressed in intraductal papillary mucinous neoplasms (IPMN) and/or mine the retrieved genes for cell proliferation process using the ontology term GO:0008283. 1. Filter: one can restrict the query by clicking on the "Filters" node on the left and selecting filters on the right. A. restriction to a cancer subtype comparison, for example by expanding the filter section "GENES DIFFERENTIALLY EXPRESSED IN:" and selecting for genes differentially expressed in "Intraductal papillary mucinous neoplasms (IPMN) vs cell line" B. restriction to a cancer subtype comparison and cell proliferation biological process "GO:0008283" by expanding the filter section "GENES DIFFERENTIALLY EXPRESSED IN:" and selecting for genes differentially expressed in "Intraductal papillary mucinous neoplasms (IPMN) vs cell line", expanding the filter section "GENE ONTOLOGY:", selecting "Biological process" and typing in "GO:0008283". 2. Attributes: one can select attributes by clicking on the "Attributes" node on the left, choosing the "General Gene Features" attribute page, expanding the attribute section "PANCREATIC EXPRESSION" to remove "Differential Expression Analysis" and "Direction of Regulation" default options, expanding the attribute section "GENE" and selecting "GO ID" under the "GO Attributes". 3. Results: one can preview the results by clicking the "Results" button on the toolbar. By default this shows the first 10 results for A and B in hyper-linked HTML. The number and format can be altered using the drop downs above this preview.