high resolution deconvolution problem
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2.7 years ago


I would like to run a high resolution analysis using CIBERSORT. That means I want to extract cell-specific differential expression from a bulk RNA-seq that is a mixture of different cell types.

I have an adipose tissue RNA-seq dataset, which is a mixture of different cell types, with various phenotypes.

I also have some reference RNA-seq datasets for various cell types I am interested in. However, this reference dataset does not have the same phenotypic data as my mixture.

If I understood correctly how CIBERSORT works, unless I have this phenotypic data, my objective is impossible. Is this correct? Is there any workaround?

cibersort deconvolution rna-seq • 591 views

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