Duarte2004 - Genome-scale metabolic network of Saccharomyces cerevisiae (iND750)

Duarte2004 - Genome-scale metabolic network
of Saccharomyces cerevisiae (iND750)

This model is described in the article:

Reconstruction and
validation of Saccharomyces cerevisiae iND750, a fully
compartmentalized genome-scale metabolic model.

Duarte NC, Herrgård MJ, Palsson
BØ.
Genome Res. 2004 Jul; 14(7):
1298-1309
Abstract:

A fully compartmentalized genome-scale metabolic model of
Saccharomyces cerevisiae that accounts for 750 genes and their
associated transcripts, proteins, and reactions has been
reconstructed and validated. All of the 1149 reactions included
in this in silico model are both elementally and charge
balanced and have been assigned to one of eight cellular
locations (extracellular space, cytosol, mitochondrion,
peroxisome, nucleus, endoplasmic reticulum, Golgi apparatus, or
vacuole). When in silico predictions of 4154 growth phenotypes
were compared to two published large-scale gene deletion
studies, an 83% agreement was found between iND750's
predictions and the experimental studies. Analysis of the
failure modes showed that false predictions were primarily
caused by iND750's limited inclusion of cellular processes
outside of metabolism. This study systematically identified
inconsistencies in our knowledge of yeast metabolism that
require specific further experimental investigation.

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