files:
Fibrosis_double_net_2.pdf

represent the network diagramms for depth=2 and 
the Ising-case.
and 4 cases each: GR, GrrplusGqr and friends/followers
(4 diagramms/pages per pdf file)

fibrosis_double.top => names of chosen 5 top nodes (plus some other technical 
info which is not important)

fibrosis_double.info => list of nodes with 4 columns:
Kg(double), used label, color number (out of five colors), short protein name

The used label is of the form TY+/-, UY+/-, DY+/- or XY+/- with Y being a 
number such that Kt/Ku/Kd=Y and T, U, D, X represent TGF/up/down/new X nodes
and +/- represents the Ising label.

The choice of top five nodes is done as:
top SDmaxtable (+) node of X group: "MMP-14 (+)"
top SDmaxtable (+) and (-) node of U group: GALNT3 (+) and GALNT3 (-)
top SDmaxtable (+) and (-) node of D Group: CLEC3B (+) and CLEC3B (-)

Color attribution:
The four TGF nodes and 10 new X nodes have color of TGF-beta 1 (red).
For the other nodes there are two colors for up 
(green for (-) and olive for (+)) and two colors for down 
(blue for (-) and cyan for (+)) nodes.
