Using this dialog, you can locate a subnet by specifying a list of gene names or probe IDs.
The search is done in the following steps:
- Open the Gene List Search dialog box. This can be done by clicking the GL Search button on the right toolbar or by choosing Analyze | Gene List Search
Note: The Search For edit box is initialized by the names of the currently selected genes. This is useful if you want to search for a subnet that consists of the selected genes and their connections within a given distance of edges.
- Enter (paste) the list of names into the Search For edit box
Note: After copying nodes of one canvas (see Edit | Copy), you may paste the list of their names into any text editor, including the Search For edit box.
- Select where to search by choosing the options in the Search In box
- Specify the Gene Distance in edges. For the default value 1 only edges that directly connect the found genes will be selected. If the specified edge distance is larger than one then all paths (gene-edge-gene-edge-gene-...) connecting found genes within the given number of edges will be selected. The larger the Gene Distance value the larger the found subnetwork (more genes and edges will be selected)
- Press the Select button. The gene/probe names might be separated by any standard separator, such as space, tab, coma, semicolon, new line. The gene name list to be searched for is usually copied from an external database or spreadsheet or from another canvas.
- The found subnetwork is highlighted on the canvas with the selection color (green is the default). After inspecting the search results on the canvas, you may change the search criteria (e.g. the Gene Distance) and resume the search by clicking the Select button.
The Add To Subnet button adds the found genes to the subnet selection. Also the edges that connect the found genes are added to the subnet selection.
The Close button dismisses the dialog window.