Markup | Genome Research

Table 1.

Number of Reactions Involved in the Production of the Indicated Target Product

H. pylori Target product	Essential reactions	Utilized reactions
Tryptophan	32	105
Tyrosine	28	101
Cysteine	25	102
Glycine	22	97
Lysine	22	102
Serine	16	91
Threonine	14	96
Asparagine	13	91
Aspartic Acid	12	91
Proline	10	91
Glutamic Acid	7	91
Glutamine	6	91
Equimolar Amino Acids	85	140
E. coli Ratio Amino Acids	85	140
H. influenzae Target product	Essential reactions	Utilized reactions
Histidine	51	112
Tryptophan	41	108
Phenylalanine	36	108
Tyrosine	36	108
Methionine	34	106
Isoleucine	31	108
Lysine	31	108
Glycine	29	82
Threonine	26	103
Asparagine	25	98
Serine	25	97
Leucine	23	105
Aspartic Acid	22	97
Glutamine	21	102
Proline	18	103
Valine	17	102
Alanine	12	99

[i] See Fig. 3 for the indicated network inputs and outputs. Essential reactions refers to the number of reactions that were used in every extreme pathway (region I in Fig. 4). Utilized reactions refers to the number of reactions that were used at least once in the set of extreme pathways for the production of the associated product (region II in Fig. 4). The individual amino acids are sorted in descending order according to the number of essential reactions. Equimolar amino acids refers to the set of amino acids in equimolar ratios. E. coli ratio amino acids refers to the set of amino acids in ratios analogous to those seen in E. coli biomass.