Entering edit mode
8.7 years ago
biotech
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570
We have two bacterial cells displaying different phenotype. Would be nice to have the differences between them as well as the cause that makes going from one phenotype to another.
I thought about applying multiple systems biology techniques (genomics, transcriptomics, proteomics, metabolomics, epigenomics…) What do you think? Is this the right way to proceed?
It doesn't sound like you have a hypothesis, so there isn't really any way to proceed at present
Hi @russhh, thanks for make me remember the basics. My initial hypothesis is that what I can see with the naked eye would be possibly linked to alterations at different omics levels. I think is enough to start, what do you think?
Think upfront how you would integrate these multiomics data. What do you plan to do with it? What will you do if multiple techniques give different results, or the same? Multi-omics is cool and trendy, but I haven't seen many really good applications and integrations for now.
Without biological hypothesis (as suggested by russhh), you don't really have anything logical to do. I would suggest to start with a single omics technique, e.g. transcriptomics OR proteomics. In case you want to compare or validate some hypothesis based on the first experiment, you can always start a second experiment or do something more targeted e.g. qPCR, Western Blot, ELISA.
I have an initial hypothesis, see my answer to @russhh. On the other side, I know each omics data has its own analysis path, so analysis would be at this moment performed one followed by the other. Next step would be to see if there is something significant between the two cell phenotypes I'm comparing. Once having all this results, I would try to do a biological interpretation and plan a bench experiment maybe. Although integration sounds the way to go, may not be essential for my purpose. I just need to know as much as possible using computation, then plan bench.