gene regulatory graphs references

Question

[Raz]

I am trying to find out how one can using gene expression data can infer gene regulatory network applying graph theory concepts. But I could not find a proper reference that

1) explain how one can get the adjacency matrix for a gene regulatory network? like what are nodes what are the edges? which kinds of parameters one should infer?

2) how one can use gene expression data for this modeling?

Any reference or help regarding these questions is highly appreciated if even it is going to be a keyword.