PMC

Pathway inference results for the pyrimidine ribonucleotides de novo biosynthesis pathway (MetaCyc identifier: PWY0-162) in E.coli. (A) Reference pathway. (B) Pathway inferred with two seeds in the compound-weighted, directed MetaCyc network. (C) Pathway inferred with four seeds in the same network. Ellipses represent compounds, rectangles reactions. Compounds and reactions are labeled with their MetaCyc identifiers in capital letters, compounds in addition with their name and reactions with their associated EC number. Seed nodes have a blue border, TP nodes a green and FPs an orange border.

Pathway inference results for the superpathway of lysine, threonine and methionine biosynthesis I (MetaCyc identifier: P4-PWY) in E.coli. (A) Reference pathway. (B) Pathway inferred with the five terminal reactions as seeds in the compound-weighted, directed MetaCyc network. (C) Pathway inferred with the terminal and two additional intermediate reactions in the same network. Ellipses represent compounds, rectangles reactions. Compounds and reactions are labeled with their MetaCyc identifiers in capital letters, compounds in addition with their name and reactions with their associated EC number. Seed nodes have a blue border, TP nodes a green and FPs an orange border.