Network reconstruction and validation of the Snf1/AMPK pathway in baker's yeast based on a comprehensive literature review.

ABSTRACT:

Background/objectives

The SNF1/AMPK protein kinase has a central role in energy homeostasis in eukaryotic cells. It is activated by energy depletion and stimulates processes leading to the production of ATP while it downregulates ATP-consuming processes. The yeast SNF1 complex is best known for its role in glucose derepression.

Methods

We performed a network reconstruction of the Snf1 pathway based on a comprehensive literature review. The network was formalised in the rxncon language, and we used the rxncon toolbox for model validation and gap filling.

Results

We present a machine-readable network definition that summarises the mechanistic knowledge of the Snf1 pathway. Furthermore, we used the known input/output relationships in the network to identify and fill gaps

SUBMITTER: Lubitz T 

PROVIDER: S-EPMC5516868 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature