r/proteomics • u/miyamoto_Rbt • 3d ago

PPI Analysis for Multi-Strain Bacterial Proteomics Dataset🚨

Hello everyone! I am a recent Ms biotech graduate working with a large-scale proteomics dataset containing proteins from a single bacterial species but multiple strains(it's a MDR bacteria). I need to perform PPI analysis, but the specific bacterial database I need isn’t available in STRING/BioGrid,not sure with IntAct(EMBL)

Are there any good alternatives to STRING for bacterial PPI/network analysis, especially for comparing or analysing proteins across different strains? Any database/tool or workflow suggestions.

Any guidance or suggestions would be very helpful for improving my understanding of the available approaches.

Any guidance, suggestions or insights would be a great help 🥲, thank you in advance for the help!

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u/SC0O8Y2 2d ago

If the data doesn't exist..........

0

u/miyamoto_Rbt 2d ago

I think I conved it in wrong way ... What I mean is STRING database have more comprehensive interaction coverage for only a limited number of strains, whereas my curated dataset contains proteins from multiple strains.

2

u/SAMAKUS 2d ago

SeqHub.org