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pinellolab / dictys

Context specific and dynamic gene regulatory network reconstruction and analysis
GNU Affero General Public License v3.0
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network strength #50

Closed Trafalgar-ROOM closed 5 months ago

Trafalgar-ROOM commented 5 months ago

Hi, Thank you for developing the tool. I have a question regarding the interpretation of network (edge) strength. I'm wondering what does negative sign mean and if the strengths could be directly comparable between different networks. Thanks.

lingfeiwang commented 5 months ago

Hi. Thank you for the interest!

Negative sign indicates inferred repression. In our paper, we performed comparative network analyses between cell types and along continuous developmental trajectories, such as the comparison of regulatory activity (target gene count) of TFs and the strength of individual regulations. Their underlying assumption is that the strengths are directly comparable between different networks derived from different cell subsets in the same dataset.

Hope that answers your question.

Trafalgar-ROOM commented 5 months ago

I see, thank you very much.