Table 1.

List of metabolic network models mentioned^a.

Organism	Year	Name	Reactionsb	Genes	Metabolitesb,c	Subcellular compartmentsd	Reference
Homo sapiens	2016	Recon 2.2	7785	1675	2652 (5324)	c,m,n,x,r,g,l,i,e	[4*]
Escherichia coli	2011	iJO1366	2583	1366	1136 (1805)	c,p,e	[14]
	2014	EcoCyc–18.0– GEM	>2286e	1445	1453 (nr)	c,p,ef	[15]
Saccharomyces cerevisiae	2003	iFF708	1379	708	555 (796)	c,m,e	[20]
	2013	iTO977	1562	977	817 (1353)	c,m,x,e	[21]
Caenorhabditis elegans	2016	iCEL1273	1985	1273	887 (1401)	c,m,e	[58]
	2016	na	1922	979	901 (1646)	c,m,n,i,e	[57]
Drosophila melanogaster	2008	na	196	211	151 (224)	c,m,e	[23]
Mus muculus	2005	na	1220	473	786 (872)	c,m,e	[27]
	2008	na	2037	1399	1631 (2104)	c,m,e	[35]
	2009	na	1344	nr	nr (1042)	c,m,e	[26]
	2010	na	1494	724	945 (1162)	c,m,e	[25]
	2010	iMM1415	3724	1415	1503 (2774)	c,m,n,x,r,g,l,e	[32]
	2013	iSS1393	4091	1393	1536 (2950)	c,m,n,x,r,g,l,e	[33]
	2015	na	2916	636	1097 (2072)	c,m,n,x,r,g,l,e	[34]
Arabidoplsis thaliana	2009	na	1406	na	1253 (nr)	c,m	[43]
	2010	AraGEM	1625	1419	1515 (1748)	c,m,pl,v,x,e	[46]
	2011	iRS1597	1798	1597	1684 (1820)	c,m,pl,v,x,e	[47]
	2012	na	1617	1791	1188 (1188)	c,m,pl,v,x,r,e	[49]
	2013	na	2769	2857	2371 (2739)	c,m,pl,v,x,e	[44]
	2014	na	549	627	236 (407)	c,m,pl,x,i,l	[50]

^ana, not available; nr, not reported.

^bNumber of reactions and metabolites were obtained from both papers and model files (SBML or XLS), if available. When reported and model-based values did not match, model values were used.

^cNumber of unique metabolites followed by total number of compartmentalized metabolites in parenthesis.

^dAbbreviations: c, cytosol; m, mitochondria; n, nucleus; x, peroxisome; r, endoplasmic reticulum; g, golgi apparatus; l, lysosome; i, intermembrane space; e, extracellular space; pl, plastid; v, vacuole.

^eOnly the number of unique reactions is reported which is the indicated number.

^fSince the model is not available, compartmentalization was inferred from the publication based on indirect information.