wormbase vs. genemania website

[Matthew Youngman]

Hi GeneMania,

I first learned of Gene Mania from the interactions network images on Wormbase that are constructed using the Gene Mania platform. I've noticed that there's not perfect agreement between the networks that are drawn for a particular gene on Wormbase and the network that is produced when I search for that same gene using the Gene Mania website. One reason for that seems to be that the Wormbase version incorporates some data sources that are not available on the website. For example, with regard to physical interactions, the network on Wormbase will use data from an immunoprecipitation experiment to support a possible physical interaction between proteins, but it seems that on the website only data from high throughput studies are used to establish those connections. Is there any way to construct interaction diagrams for a set of genes using the same criteria (i.e. based on the same supporting experimental data) as are used in Wormbase instead of only what's available on the Gene Mania website?

Many thanks for your help!

Best regards,

Matt

Matt Youngman, PhD

Assistant Professor

Villanova Dept. of Biology

Office: Mendel 191C; (610)519-3916

Lab: Mendel 118; (610)519-6364

[Gary Bader]

Hi Matt - did you look in the advanced options in the website to select all of the available networks? Also, you can try asking for more than the top 20 related genes. GeneMANIA does include lower throughput PPI experiments taken from the BioGRID database.

Best,
Gary

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