Can I use the SCENIC package to analyze the transcription factors in the bulk RNAseq data?

Question

[xiaoguang]

The SCENIC package is software for the analysis of transcription factor activity and localized genes in single-cell transcriptome sequencing data, and the R package also scores the transcription factor activity of each cell.

can I use the pack for bulk seq?

Answer 1

[GouthamAtla]

May be It’s not a good idea. One of the first steps in SCENIC is to build the co-expression modules. Do you have enough samples to build the co-expression modules with enough biological heterogeneity among them ? Also the AUCell doesn’t seem to work for bulk rna-seq data.