Thanks for the references!
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fouerghi20 •
Gene Regulatory Networks on Single Cell RNAseq Datasets
Can I create gene regulatory network analyses on single-cell RNA-seq datasets that we haven't done any ChIP-seq or knockout of transcription factors? That is to say, are we able to overcome the sparsity of the count matrix resulting from single-cell RNA-seq and can it be done without the explicit knockout/knockdown of transcription factors?
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Sure, though you should try to experimentally validate anything you find from such an analysis. You might be interested in something like NETBID2 if you have a grouping variable between samples to identify transcriptional drivers or SCENIC if not.
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