Question: Gene Regulatory Network from Single-cell RNAseq
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4 months ago by
Researcher50
Researcher50 wrote:

Hi, I have read counts from 10X scRNA Seq data from 3 samples from two different conditions. I want to infer and then compare the inferred regulatory network between the two conditions, for which I am planning to use bigSCal2.

To infer the regulatory network, I am planning to use the read counts from all the 3 samples from a condition (let's say it "A") together to compare it with the rest of the 3 samples from other condition (let's say it "B") together. I am not sure whether it would be the correct approach or should I infer the regulatory network in each sample separately.

I will really appreciate your suggestions.

Thanks

ADD COMMENTlink modified 4 months ago • written 4 months ago by Researcher50
1

Maybe you want to try asking the authors of bigscale2 themselves, e.g. via their github issues?

ADD REPLYlink written 4 months ago by Friederike5.2k

Ya, I have reached them out but also looking for suggestions from the community who all are dealing with the similar research question.

ADD REPLYlink modified 4 months ago • written 4 months ago by Researcher50

Is there any one who can help me in this regard. Thanks

ADD REPLYlink written 4 months ago by Researcher50
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