Interactions Browser help
Last Updated: 6 June 2008
The Interactions Browser allows you to explore the genetic interaction data in FlyBase. The tool is based on the information recorded in the Interactions section of the allele reports. You can find this tool under the "Tools" menu or alternatively from the Genetic Interactions sections of a gene or an allele report.
Gene/Allele Symbol or FBid
The tool accepts a FlyBase gene or allele ID, and valid gene symbols, such as "dpp", or allele symbols in the form "fz", where the allele superscript is placed in square brackets. Please note, the search box is case sensitive, so it is important to enter "dpp" rather than "Dpp".
You can choose to display the data on enhancers, suppressors or both categories of genetic interactions.
The complexity of the diagrams can be regulated by altering the scan depth. Auto is a function that will draw a diagram showing the interactions several steps away from your query provided the network is not too big. However, some of these diagrams are complex so it can be useful to limit the network to one gene or allele away from your query.
Alleles of genes, such as sca[Scer\UAS.cEa], and fusion genes, such as btl::Egfr[Scer\UAS.T:lambda], that have been introduced into flies are not shown by default but can be added to the diagram.
The "Limit to" function shows you a list of the controlled vocabulary terms that have been used to annotate the interactions of the alleles of the gene, or the allele, you specified as your query. If you select one of the terms the diagram will only include interactions of the alleles of your query which have been annotated with the term. Thus, for example if you enter the gene symbol "dpp" and choose eye in the "Limit to" box, and then click on the "Show Interactions" button to update the diagram, you will see a picture showing the genes which have an allele that interacts with a dpp allele to alter an eye phenotype.
This select box allows you to redraw the picture at a different angle to improve the layout of the network on the page. Choose a new angle and click on "Show Interactions" to redraw the diagram.
The Interactions Diagram
Different colored lines on the picture indicate the interaction type, and arrows show the direction of the interactions. In both the gene and allele interaction networks the query is shown in brown, and the genes or alleles that directly interact with the query are shown in dark blue. The genes and alleles that interact with the directly interacting ones are shown in light blue. Each node of the interaction diagram is a hyperlink which allows you to explore the interaction data of that particular node. When you mouse-over a node in an allele diagram the context in which the genetic interactions of the allele were observed is reported in a pop-up window. In gene interaction diagrams mousing-over a node produces a pop-up window with information about the gene.
A diagram drawn for a gene is based on the data of all alleles of a gene, which may include antimorphic and neomorphic alleles so it should be interpreted with care.