single-cell transcriptomics and bulk proteomics data integration
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4 weeks ago

I would like to perform single-cell RNA-seq and bulk proteomics combined analysis, but the samples are not the same in both studies. I am not sure if I can use a specific software to perform the integration, or if I should integrate Differential Expression Analysis results in both cases to perform the analysis (in this case I could integrate p-values and fold-change values of both analyses). What would you recommend? My objective is to perform a multi-omics analysis, and it is not to have a combined data matrix.

integration omics data • 300 views
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Don't you think single cell and bulk rna-seq are inherently different things ? Why would you do single cell if they were not ?

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They are different studies and experiments. What I want to do is to analyse both perspectives.

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Not sure what your aim is, but you could analyze both separately and look at correlation . For instance, get the differentially expressed genes from your single cell and differentially expressed protein from your proteomics analyses and do a correlation test

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