Q4 unweighted graph

[Lu Xie]

Can anyone give me a hint on how to build an unweighted bipartite
graph that can distinguish both activation and repression?

Lu

[Will]

my thoughts were using a directed graph or using a separate graph for
each; neither of these use the information provided by the question.
Is there other intuition on how to proceed?

[Lu Xie]

I think the most confusing instruction is:

remember, we would like to cluster activated genes in a different
cluster than the repressed ones.

Ziv told me this only applies to the genes in the same time point,
i.e. it's ok to cluster genes A, B together with time point 1, 2 if
they are both activated at time point 1 and repressed at time point 2,
but it's wrong if A is activated at time 1 and B is repressed at time
1.

Hope this helps.

Lu