Question: Can we compare bulk RNAseq samples and single cell rnaseq clusters?
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gravatar for learner.bioinformatics
8 weeks ago by

Hi folks,

I have 3 Bulk RNAseq samples from immune cells (Naive, Population1 and Population2), similarly I have two other immune populations from Single Cell RNAseq samples.

I am interested in comparing 3 Bulk RNAseq and 2 single cell RNA seq. Any thoughts, papers and suggestions are welcomed.

Thanks in advance.

ADD COMMENTlink modified 4 weeks ago by Kevin Blighe65k • written 8 weeks ago by learner.bioinformatics0

What do you mean by "comparing" ?

ADD REPLYlink written 8 weeks ago by geek_y11k
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gravatar for Kevin Blighe
4 weeks ago by
Kevin Blighe65k
Kevin Blighe65k wrote:

I don't know - perhaps define clusters in the scRNA-seq data, get the genes that are highly expressed in these clusters, and then check for the expression of these in the bulk data.

Similar to the above, you could also do a rudimentary de-convolution by defining a signature for each identified scRNA-seq cluster, and then use these in the bulk data in order to infer cell-types [in the bulk data].

Kevin

ADD COMMENTlink written 4 weeks ago by Kevin Blighe65k
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