Identify mutated genes

The Identify Mutated Genes tool can be used if you would like to identify only variants that fall within genes. This is done by comparing a gene track with a variant track holding the variants (mutations) of interest. The variant track is used as an overlap filter for filtering the gene track based on overlap with the variant track.

To run the tool:

        Toolbox | Identify Candidate Genes (Image identify_candidate_genes_closed_16_h_p) | Identify Mutated Genes (Image add_information_f_overlap_genes_16_n_p)

Select the gene track you wish to filter and click on the button labeled Next (see figure 25.5).

Image identify_mutated_genes_step3
Figure 25.5: Select the variant track to be used for comparison.

Next, select the variant track that should be used for comparison. An overlap has a simple definition - if the annotation used as input has at least one shared position with the other track, there is an overlap. The boundaries of the annotations do not need to match.