1. Do you have a favorite gene? Would you like to know if it is altered in cancer samples in any way (e.g. mutated, amplified, downregulated)? This is a question easily solved in IntOGen. You just have to type the name of your favorite gene in the search box and browse. In a quick view you will know if this gene is significantly altered in any tumour type. Follow this tutorial for details on how to do this.
IntOGen search for CDKN2A gene sorted by genes more significantly upregulated
2. Are you interested in a particular type of cancer? Would you like to know which genes are the more significantly altered in samples of that tumour type? Just search for that tumour type in IntOGen and browse the results. Follow this tutorial for details on how to do this.
IntOGen search for Lung cancer sorted by genes with higher number of mutations in this tumour type
3. Would you like to know which biological processes or pathways are altered in that tumour type of your interest? You can also answer this question by browsing biological modules in IntOGen. You will find how to do that in the same tutorial as the previous question.
IntOGen search of pathways affected in colon cancer sorted by those in which genes tend to be upregulated
IntOGen is a resource that integrates multidimensional OncoGenomics Data for the identification of genes and groups of genes (biological modules) involved in cancer development. The great advantage of IntOGen is that it includes a large number of oncogenomic experiments (more than 800) studying diverse types of cancer alterations (mutations, copy number alterations and expression) in a common framework.
To find details on how data is collected and analysed in IntOGen read the paper in Nature Methods or check the frequently asked questions.