PPI Network Analysis of Virulence Genes in Morganella morganii Using STRING Database

Question

[bioinfo_enthusiast]

Hello everyone,

I have sequenced the genome of Morganella morganii and identified virulence genes using VFDB. Now, I want PPI analysis using STRING database.

However, when I input some genes, STRING shows the following error: “Sorry, STRING found no proteins by this name in Morganella morganii - -” How can I resolve this issue? If I can’t find these genes in Morganella, how can I carry out the PPI analysis? Is there any way?

Thank you so much.

Answer 1

[Mensur Dlakic]

The simplest way I can think of is to assign best BLAST matches to your proteins from an annotated M. morganii genome. Then transfer the names of BLAST hits to your proteins and try the PPI analysis again. You must be sure to use only the hits with high identity and coverage.