-
1
-
-
0033895840
-
Effects of limited aeration and of the ArcAB system on intermediary pyruvate catabolism in Escherichia coli
-
Alexeeva S., de Kort B., Sawers G., Hellingwerf K.J., de Mattos M.J.T. Effects of limited aeration and of the ArcAB system on intermediary pyruvate catabolism in Escherichia coli. J. Bacteriol. 2000, 182:4934-4940.
-
(2000)
J. Bacteriol.
, vol.182
, pp. 4934-4940
-
-
Alexeeva, S.1
de Kort, B.2
Sawers, G.3
Hellingwerf, K.J.4
de Mattos, M.J.T.5
-
2
-
-
1542288938
-
Global organization of metabolic fluxes in the bacterium Escherichia coli
-
Almaas E., Kovacs B., Vicsek T., Oltvai Z., Barabási A.-L. Global organization of metabolic fluxes in the bacterium Escherichia coli. Nature 2004, 427:839-843.
-
(2004)
Nature
, vol.427
, pp. 839-843
-
-
Almaas, E.1
Kovacs, B.2
Vicsek, T.3
Oltvai, Z.4
Barabási, A.-L.5
-
3
-
-
55449114287
-
The activity reaction core and plasticity of metabolic networks
-
Almaas E., Oltvai Z.N., Barabási A.-L. The activity reaction core and plasticity of metabolic networks. PLoS Comput. Biol. 2005, 1:e68.
-
(2005)
PLoS Comput. Biol.
, vol.1
, pp. e68
-
-
Almaas, E.1
Oltvai, Z.N.2
Barabási, A.-L.3
-
4
-
-
0024712895
-
Efficient ethanol production from glucose, lactose, and xylose by recombinant Escherichia coli
-
Alterthum F., Ingram L.O. Efficient ethanol production from glucose, lactose, and xylose by recombinant Escherichia coli. Appl. Environ. Microbiol. 1989, 55:1943-1948.
-
(1989)
Appl. Environ. Microbiol.
, vol.55
, pp. 1943-1948
-
-
Alterthum, F.1
Ingram, L.O.2
-
5
-
-
33745454125
-
Synthetic biology: new engineering rules for an emerging discipline
-
Andrianantoandro E., Basu S., Karig D.K., Weiss R. Synthetic biology: new engineering rules for an emerging discipline. Mol. Syst. Biol. 2006, 2:1-14.
-
(2006)
Mol. Syst. Biol.
, vol.2
, pp. 1-14
-
-
Andrianantoandro, E.1
Basu, S.2
Karig, D.K.3
Weiss, R.4
-
6
-
-
0038483826
-
Emergence of scaling in random networks
-
Barabási A.-L., Albert R. Emergence of scaling in random networks. Science. 1999, 286:509-512.
-
(1999)
Science.
, vol.286
, pp. 509-512
-
-
Barabási, A.-L.1
Albert, R.2
-
7
-
-
0242487787
-
Optknock: a bilevel programming framework for identifying gene knockout strategies for microbial strain optimization
-
Burgard A.P., Pharkya P., Maranas C.D. Optknock: a bilevel programming framework for identifying gene knockout strategies for microbial strain optimization. Biotechnol. Bioeng. 2003, 84:647-657.
-
(2003)
Biotechnol. Bioeng.
, vol.84
, pp. 647-657
-
-
Burgard, A.P.1
Pharkya, P.2
Maranas, C.D.3
-
8
-
-
2342469474
-
A modular minimal cell model: purine and pyrimidine transport and metabolism
-
Castellanos M., Wilson D.B., Shuler M.L. A modular minimal cell model: purine and pyrimidine transport and metabolism. Proc. Natl. Acad. Sci. USA 2004, 101:6681-6686.
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 6681-6686
-
-
Castellanos, M.1
Wilson, D.B.2
Shuler, M.L.3
-
9
-
-
75849164426
-
Computing the shortest elementary flux modes in genome-scale metabolic networks
-
de Figueiredo L.F., Podhorski A., Rubio A., Kaleta C., Beasley J.E., Schuster S., Planes F.J. Computing the shortest elementary flux modes in genome-scale metabolic networks. Bioinformatics 2009, 25:3158-3165.
-
(2009)
Bioinformatics
, vol.25
, pp. 3158-3165
-
-
de Figueiredo, L.F.1
Podhorski, A.2
Rubio, A.3
Kaleta, C.4
Beasley, J.E.5
Schuster, S.6
Planes, F.J.7
-
10
-
-
28544451327
-
Foundations for engineering biology
-
Endy D. Foundations for engineering biology. Nature 2005, 438:449-453.
-
(2005)
Nature
, vol.438
, pp. 449-453
-
-
Endy, D.1
-
11
-
-
0022493181
-
Fat synthesis in adipose tissue. An examination of stoichiometric constraints
-
Fell D.A., Small J.R. Fat synthesis in adipose tissue. An examination of stoichiometric constraints. Biochem. J. 1986, 238:781-786.
-
(1986)
Biochem. J.
, vol.238
, pp. 781-786
-
-
Fell, D.A.1
Small, J.R.2
-
12
-
-
84877149255
-
SMET: systematic multiple enzyme targeting-a method to rationally design optimal strains for target chemical overproduction
-
Flowers D., Thompson R.A., Birdwell D., Wang T., Trinh C.T. SMET: systematic multiple enzyme targeting-a method to rationally design optimal strains for target chemical overproduction. Biotechnol. J. 2013, 8:605-618.
-
(2013)
Biotechnol. J.
, vol.8
, pp. 605-618
-
-
Flowers, D.1
Thompson, R.A.2
Birdwell, D.3
Wang, T.4
Trinh, C.T.5
-
13
-
-
25144505718
-
In silico design and adaptive evolution of Escherichia coli for production of lactic acid
-
Fong S.S., Burgard A.P., Herring C.D., Knight E.M., Blattner F.R., Maranas C.D., Palsson B.O. In silico design and adaptive evolution of Escherichia coli for production of lactic acid. Biotechnol. Bioeng. 2005, 91:643-648.
-
(2005)
Biotechnol. Bioeng.
, vol.91
, pp. 643-648
-
-
Fong, S.S.1
Burgard, A.P.2
Herring, C.D.3
Knight, E.M.4
Blattner, F.R.5
Maranas, C.D.6
Palsson, B.O.7
-
15
-
-
0028829125
-
The minimal gene complement of mycoplasma genitalium
-
Fraser C.M., Gocayne J.D., White O., Adams M.D., Clayton R.A., Fleischmann R.D., Bult C.J., Kerlavage A.R., Sutton G., Kelley J.M., Fritchman R.D., Weidman J.F., Small K.V., Sandusky M., Fuhrmann J., Nguyen D., Utterback T.R., Saudek D.M., Phillips C.A., Merrick J.M., Tomb J.F., Dougherty B.A., Bott K.F., Hu P.C., Lucier T.S., Peterson S.N., Smith H.O., Hutchison C.A., Venter J.C. The minimal gene complement of mycoplasma genitalium. Science 1995, 270:397-403.
-
(1995)
Science
, vol.270
, pp. 397-403
-
-
Fraser, C.M.1
Gocayne, J.D.2
White, O.3
Adams, M.D.4
Clayton, R.A.5
Fleischmann, R.D.6
Bult, C.J.7
Kerlavage, A.R.8
Sutton, G.9
Kelley, J.M.10
Fritchman, R.D.11
Weidman, J.F.12
Small, K.V.13
Sandusky, M.14
Fuhrmann, J.15
Nguyen, D.16
Utterback, T.R.17
Saudek, D.M.18
Phillips, C.A.19
Merrick, J.M.20
Tomb, J.F.21
Dougherty, B.A.22
Bott, K.F.23
Hu, P.C.24
Lucier, T.S.25
Peterson, S.N.26
Smith, H.O.27
Hutchison, C.A.28
Venter, J.C.29
more..
-
16
-
-
31044439550
-
Essential genes of a minimal bacterium
-
Glass J.I., Assad-Garcia N., Alperovich N., Yooseph S., Lewis M.R., Maruf M., Hutchison C.A., Smith H.O., Venter J.C. Essential genes of a minimal bacterium. Proc. Natl. Acad. Sci. USA 2006, 103:425-430.
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 425-430
-
-
Glass, J.I.1
Assad-Garcia, N.2
Alperovich, N.3
Yooseph, S.4
Lewis, M.R.5
Maruf, M.6
Hutchison, C.A.7
Smith, H.O.8
Venter, J.C.9
-
17
-
-
80053174717
-
Metabolic network modeling of redox balancing and biohydrogen production in purple nonsulfur bacteria
-
Hadicke O., Grammel H., Klamt S. Metabolic network modeling of redox balancing and biohydrogen production in purple nonsulfur bacteria. BMC Syst. Biol. 2011, 5:150.
-
(2011)
BMC Syst. Biol.
, vol.5
, pp. 150
-
-
Hadicke, O.1
Grammel, H.2
Klamt, S.3
-
18
-
-
77952585143
-
CASOP: a computational approach for strain optimization aiming at high productivity
-
Hädicke O., Klamt S. CASOP: a computational approach for strain optimization aiming at high productivity. J. Biotechnol. 2010, 147:88-101.
-
(2010)
J. Biotechnol.
, vol.147
, pp. 88-101
-
-
Hädicke, O.1
Klamt, S.2
-
19
-
-
79952103372
-
Computing complex metabolic intervention strategies using constrained minimal cut sets
-
Hädicke O., Klamt S. Computing complex metabolic intervention strategies using constrained minimal cut sets. Metab. Eng. 2011, 13:204-213.
-
(2011)
Metab. Eng.
, vol.13
, pp. 204-213
-
-
Hädicke, O.1
Klamt, S.2
-
20
-
-
84861988496
-
Bioprocessing for biofuels
-
Harvey W.B. Bioprocessing for biofuels. Curr. Opin. Biotechnol. 2011, 23:390-395.
-
(2011)
Curr. Opin. Biotechnol.
, vol.23
, pp. 390-395
-
-
Harvey, W.B.1
-
21
-
-
84866402290
-
Escherichia coli for biofuel production: bridging the gap from promise to practice
-
Huffer S., Roche C.M., Blanch H.W., Clark D.S. Escherichia coli for biofuel production: bridging the gap from promise to practice. Trends Biotechnol. 2012, 30:538-545.
-
(2012)
Trends Biotechnol.
, vol.30
, pp. 538-545
-
-
Huffer, S.1
Roche, C.M.2
Blanch, H.W.3
Clark, D.S.4
-
22
-
-
84901356026
-
Complete enumeration of elementary flux modes through scalable, demand-based subnetwork definition
-
Hunt K.A., Folsom J.P., Taffs R.L., Carlson R.P. Complete enumeration of elementary flux modes through scalable, demand-based subnetwork definition. Bioinformatics 2014.
-
(2014)
Bioinformatics
-
-
Hunt, K.A.1
Folsom, J.P.2
Taffs, R.L.3
Carlson, R.P.4
-
23
-
-
0032764518
-
Global transposon mutagenesis and a minimal mycoplasma genome
-
Hutchison C.A., Peterson S.N., Gill S.R., Cline R.T., White O., Fraser C.M., Smith H.O., Venter J.C. Global transposon mutagenesis and a minimal mycoplasma genome. Science 1999, 286:2165-2169.
-
(1999)
Science
, vol.286
, pp. 2165-2169
-
-
Hutchison, C.A.1
Peterson, S.N.2
Gill, S.R.3
Cline, R.T.4
White, O.5
Fraser, C.M.6
Smith, H.O.7
Venter, J.C.8
-
24
-
-
41249084917
-
Combining metabolic engineering and metabolic evolution to develop nonrecombinant strains of Escherichia coli C that produce succinate and malate
-
Jantama K., Haupt M., Svoronos S.A., Zhang X., Moore J., Shanmugam K., Ingram L. Combining metabolic engineering and metabolic evolution to develop nonrecombinant strains of Escherichia coli C that produce succinate and malate. Biotechnol. Bioeng. 2008, 99:1140-1153.
-
(2008)
Biotechnol. Bioeng.
, vol.99
, pp. 1140-1153
-
-
Jantama, K.1
Haupt, M.2
Svoronos, S.A.3
Zhang, X.4
Moore, J.5
Shanmugam, K.6
Ingram, L.7
-
25
-
-
79955706211
-
Parallelization of nullspace algorithm for the computation of metabolic pathways
-
Jevremović D., Trinh C.T., Srienc F., Sosa C.P., Boley D. Parallelization of nullspace algorithm for the computation of metabolic pathways. Parallel Comput. 2011, 37:261-278.
-
(2011)
Parallel Comput.
, vol.37
, pp. 261-278
-
-
Jevremović, D.1
Trinh, C.T.2
Srienc, F.3
Sosa, C.P.4
Boley, D.5
-
26
-
-
84948149760
-
Fast Computation of Minimal Cut Sets in Metabolic Networks with a Berge Algorithm that Utilizes Binary Bit Pattern Trees.
-
Jungreuthmayer, C., Beurton-Aimar, M., Zanghellini, J., 2013a. Fast Computation of Minimal Cut Sets in Metabolic Networks with a Berge Algorithm that Utilizes Binary Bit Pattern Trees.
-
(2013)
-
-
Jungreuthmayer, C.1
Beurton-Aimar, M.2
Zanghellini, J.3
-
27
-
-
84887038656
-
Comparison and improvement of algorithms for computing minimal cut sets
-
Jungreuthmayer C., Nair G., Klamt S., Zanghellini J. Comparison and improvement of algorithms for computing minimal cut sets. BMC Bioinform. 2013, 14:318.
-
(2013)
BMC Bioinform.
, vol.14
, pp. 318
-
-
Jungreuthmayer, C.1
Nair, G.2
Klamt, S.3
Zanghellini, J.4
-
28
-
-
84864258618
-
A whole-cell computational model predicts phenotype from genotype
-
Karr Jonathan R., Sanghvi Jayodita C., Macklin Derek N., Gutschow Miriam V., Jacobs Jared M., Bolival B., Assad-Garcia N., Glass John I., Covert Markus W. A whole-cell computational model predicts phenotype from genotype. Cell 2012, 150:389-401.
-
(2012)
Cell
, vol.150
, pp. 389-401
-
-
Karr, J.R.1
Sanghvi, J.C.2
Macklin, D.N.3
Gutschow, M.V.4
Jacobs, J.M.5
Bolival, B.6
Assad-Garcia, N.7
Glass, J.I.8
Covert, M.W.9
-
29
-
-
80052573483
-
Large-scale bi-level strain design approaches and mixed-integer programming solution techniques
-
Kim J., Reed J.L., Maravelias C.T. Large-scale bi-level strain design approaches and mixed-integer programming solution techniques. PLoS One 2011, 6:e24162.
-
(2011)
PLoS One
, vol.6
, pp. e24162
-
-
Kim, J.1
Reed, J.L.2
Maravelias, C.T.3
-
31
-
-
84907930055
-
Engineering modular ester fermentative pathways in Escherichia coli
-
Layton D.S., Trinh C.T. Engineering modular ester fermentative pathways in Escherichia coli. Metab. Eng. 2014, 26:77-88.
-
(2014)
Metab. Eng.
, vol.26
, pp. 77-88
-
-
Layton, D.S.1
Trinh, C.T.2
-
32
-
-
0034661295
-
Recursive MILP model for finding all the alternate optima in LP models for metabolic networks
-
Lee S., Phalakornkule C., Domach M.M., Grossmann I.E. Recursive MILP model for finding all the alternate optima in LP models for metabolic networks. Comput. Chem. Eng. 2000, 24:711-716.
-
(2000)
Comput. Chem. Eng.
, vol.24
, pp. 711-716
-
-
Lee, S.1
Phalakornkule, C.2
Domach, M.M.3
Grossmann, I.E.4
-
33
-
-
84858439602
-
Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods
-
Lewis N.E., Nagarajan H., Palsson B.O. Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods. Nat. Rev. Microbiol. 2012, 10:291-305.
-
(2012)
Nat. Rev. Microbiol.
, vol.10
, pp. 291-305
-
-
Lewis, N.E.1
Nagarajan, H.2
Palsson, B.O.3
-
34
-
-
84866443920
-
Random sampling of elementary flux modes in large-scale metabolic networks
-
Machado D., Soons Z., Patil K.R., Ferreira E.C., Rocha I. Random sampling of elementary flux modes in large-scale metabolic networks. Bioinformatics 2012, 28:i515-i521.
-
(2012)
Bioinformatics
, vol.28
, pp. i515-i521
-
-
Machado, D.1
Soons, Z.2
Patil, K.R.3
Ferreira, E.C.4
Rocha, I.5
-
35
-
-
1642457253
-
The effects of alternate optimal solutions in constraint-based genome-scale metabolic models
-
Mahadevan R., Schilling C.H. The effects of alternate optimal solutions in constraint-based genome-scale metabolic models. Metab. Eng. 2003, 5:264-276.
-
(2003)
Metab. Eng.
, vol.5
, pp. 264-276
-
-
Mahadevan, R.1
Schilling, C.H.2
-
36
-
-
84923112573
-
Biocontainment of genetically modified organisms by synthetic protein design
-
Mandell D.J., Lajoie M.J., Mee M.T., Takeuchi R., Kuznetsov G., Norville J.E., Gregg C.J., Stoddard B.L., Church G.M. Biocontainment of genetically modified organisms by synthetic protein design. Nature 2015, 518:55-60. 10.1038/nature14121.
-
(2015)
Nature
, vol.518
, pp. 55-60
-
-
Mandell, D.J.1
Lajoie, M.J.2
Mee, M.T.3
Takeuchi, R.4
Kuznetsov, G.5
Norville, J.E.6
Gregg, C.J.7
Stoddard, B.L.8
Church, G.M.9
-
37
-
-
74549189949
-
Flux design: in silico design of cell factories based on correlation of pathway fluxes to desired properties
-
Melzer G., Esfandabadi M.E., Franco-Lara E., Wittmann C. Flux design: in silico design of cell factories based on correlation of pathway fluxes to desired properties. BMC Syst. Biol. 2009, 3:120.
-
(2009)
BMC Syst. Biol.
, vol.3
, pp. 120
-
-
Melzer, G.1
Esfandabadi, M.E.2
Franco-Lara, E.3
Wittmann, C.4
-
38
-
-
13244279408
-
Multiple regulators control expression of the Entner-Doudoroff aldolase (Eda) of Escherichia coli
-
Murray E.L., Conway T. Multiple regulators control expression of the Entner-Doudoroff aldolase (Eda) of Escherichia coli. J. Bacteriol. 2005, 187:991-1000.
-
(2005)
J. Bacteriol.
, vol.187
, pp. 991-1000
-
-
Murray, E.L.1
Conway, T.2
-
39
-
-
0029789824
-
A minimal gene set for cellular life derived by comparison of complete bacterial genomes
-
Mushegian A.R., Koonin E.V. A minimal gene set for cellular life derived by comparison of complete bacterial genomes. Proc. Natl. Acad. Sci. USA 1996, 93:10268-10273.
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 10268-10273
-
-
Mushegian, A.R.1
Koonin, E.V.2
-
40
-
-
0142027026
-
Metabolic engineering for the microbial production of 1,3-propanediol
-
Nakamura C.E., Whited G.M. Metabolic engineering for the microbial production of 1,3-propanediol. Curr. Opin. Biotechnol. 2003, 14:454-459.
-
(2003)
Curr. Opin. Biotechnol.
, vol.14
, pp. 454-459
-
-
Nakamura, C.E.1
Whited, G.M.2
-
41
-
-
30044437327
-
Evolutionary programming as a platform for in silico metabolic engineering
-
Patil K., Rocha I., Forster J., Nielsen J. Evolutionary programming as a platform for in silico metabolic engineering. BMC Bioinform. 2005, 6:308.
-
(2005)
BMC Bioinform.
, vol.6
, pp. 308
-
-
Patil, K.1
Rocha, I.2
Forster, J.3
Nielsen, J.4
-
42
-
-
0344052685
-
Metatool: for studying metabolic networks
-
Pfeiffer T., Sanchez-Valdenebro I., Nuno J.C., Montero F., Schuster S. Metatool: for studying metabolic networks. Bioinformatics 1999, 15:251-257.
-
(1999)
Bioinformatics
, vol.15
, pp. 251-257
-
-
Pfeiffer, T.1
Sanchez-Valdenebro, I.2
Nuno, J.C.3
Montero, F.4
Schuster, S.5
-
43
-
-
8744224466
-
OptStrain: a computational framework for redesign of microbial production systems
-
Pharkya P., Burgard A., Maranas C. OptStrain: a computational framework for redesign of microbial production systems. Genome Res. 2004, 14:2367-2376.
-
(2004)
Genome Res.
, vol.14
, pp. 2367-2376
-
-
Pharkya, P.1
Burgard, A.2
Maranas, C.3
-
44
-
-
29544436058
-
An optimization framework for identifying reaction activation/inhibition or elimination candidates for overproduction in microbial systems
-
Pharkya P., Maranas C.D. An optimization framework for identifying reaction activation/inhibition or elimination candidates for overproduction in microbial systems. Metab. Eng. 2006, 8:1-13.
-
(2006)
Metab. Eng.
, vol.8
, pp. 1-13
-
-
Pharkya, P.1
Maranas, C.D.2
-
45
-
-
77954590959
-
OptForce: an optimization procedure for identifying all genetic manipulations leading to targeted overproductions
-
Ranganathan S., Suthers P.F., Maranas C.D. OptForce: an optimization procedure for identifying all genetic manipulations leading to targeted overproductions. PLoS Comput. Biol. 2010, 6:e1000744.
-
(2010)
PLoS Comput. Biol.
, vol.6
, pp. e1000744
-
-
Ranganathan, S.1
Suthers, P.F.2
Maranas, C.D.3
-
46
-
-
4644220226
-
Genome-scale in silico models of E. coli have multiple equivalent phenotypic states: assessment of correlated reaction subsets that comprise network states
-
Reed J.L., Palsson B.Ø. Genome-scale in silico models of E. coli have multiple equivalent phenotypic states: assessment of correlated reaction subsets that comprise network states. Genome Res. 2004, 14:1797-1805.
-
(2004)
Genome Res.
, vol.14
, pp. 1797-1805
-
-
Reed, J.L.1
Palsson, B.Ø.2
-
47
-
-
84899785053
-
Design of optimally constructed metabolic networks of minimal functionality
-
Ruckerbauer D.E., Jungreuthmayer C., Zanghellini J. Design of optimally constructed metabolic networks of minimal functionality. PLoS One 2014, 9:e92583.
-
(2014)
PLoS One
, vol.9
, pp. e92583
-
-
Ruckerbauer, D.E.1
Jungreuthmayer, C.2
Zanghellini, J.3
-
48
-
-
0035843170
-
Industrial biocatalysis today and tomorrow
-
Schmid A., Dordick J., Hauer B., Kiener A., Wubbolts M., Witholt B. Industrial biocatalysis today and tomorrow. Nature 2001, 409:258-268.
-
(2001)
Nature
, vol.409
, pp. 258-268
-
-
Schmid, A.1
Dordick, J.2
Hauer, B.3
Kiener, A.4
Wubbolts, M.5
Witholt, B.6
-
49
-
-
0034064689
-
A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks
-
326-332-326-332
-
Schuster S., Fell D.A., Dandekar T. A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks. Nat. Biotechnol. 2000, 18. 326-332-326-332.
-
(2000)
Nat. Biotechnol.
, vol.18
-
-
Schuster, S.1
Fell, D.A.2
Dandekar, T.3
-
50
-
-
0000311393
-
Elementary modes of functioning in biochemical networks
-
World Scientific, Singapore, R. Cuthbertson, M. Holcombe, R. Paton (Eds.)
-
Schuster S., Hilgetag C., Woods J.H., Fell D.A. Elementary modes of functioning in biochemical networks. Elementary Modes of Functioning in Biochemical Networks 1994, 151-165. World Scientific, Singapore. R. Cuthbertson, M. Holcombe, R. Paton (Eds.).
-
(1994)
Elementary Modes of Functioning in Biochemical Networks
, pp. 151-165
-
-
Schuster, S.1
Hilgetag, C.2
Woods, J.H.3
Fell, D.A.4
-
51
-
-
0037069467
-
Analysis of optimality in natural and perturbed metabolic networks
-
Segre D., Vitkup D., Church G.M. Analysis of optimality in natural and perturbed metabolic networks. Proc. Natl. Acad. Sci. USA 2002, 99:15112-15117.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 15112-15117
-
-
Segre, D.1
Vitkup, D.2
Church, G.M.3
-
52
-
-
79955611425
-
Driving forces enable high-titer anaerobic 1-butanol synthesis in Escherichia coli
-
Shen C.R., Lan E.I., Dekishima Y., Baez A., Cho K.M., Liao J.C. Driving forces enable high-titer anaerobic 1-butanol synthesis in Escherichia coli. Appl. Environ. Microbiol. 2011, 77:2905-2915.
-
(2011)
Appl. Environ. Microbiol.
, vol.77
, pp. 2905-2915
-
-
Shen, C.R.1
Lan, E.I.2
Dekishima, Y.3
Baez, A.4
Cho, K.M.5
Liao, J.C.6
-
53
-
-
77949495880
-
Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways
-
Tepper N., Shlomi T. Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways. Bioinformatics 2010, 26:536-543.
-
(2010)
Bioinformatics
, vol.26
, pp. 536-543
-
-
Tepper, N.1
Shlomi, T.2
-
54
-
-
52949098408
-
Large scale computation of elementary flux modes with bit pattern trees
-
Terzer M., Stelling J. Large scale computation of elementary flux modes with bit pattern trees. Bioinformatics 2008, 24(19):2229-2235.
-
(2008)
Bioinformatics
, vol.24
, Issue.19
, pp. 2229-2235
-
-
Terzer, M.1
Stelling, J.2
-
55
-
-
84864631184
-
Elucidating and reprogramming Escherichia coli metabolisms for obligate anaerobic n-butanol and isobutanol production
-
Trinh C.T. Elucidating and reprogramming Escherichia coli metabolisms for obligate anaerobic n-butanol and isobutanol production. Appl. Microbiol. Biotechnol. 2012, 95(4):1083-1094.
-
(2012)
Appl. Microbiol. Biotechnol.
, vol.95
, Issue.4
, pp. 1083-1094
-
-
Trinh, C.T.1
-
56
-
-
79961084093
-
Redesigning Escherichia coli metabolism for anaerobic production of isobutanol
-
Trinh C.T., Li J., Blanch H.W., Clark D.S. Redesigning Escherichia coli metabolism for anaerobic production of isobutanol. Appl. Environ. Microbiol. 2011, 77:4894-4904.
-
(2011)
Appl. Environ. Microbiol.
, vol.77
, pp. 4894-4904
-
-
Trinh, C.T.1
Li, J.2
Blanch, H.W.3
Clark, D.S.4
-
57
-
-
70350517579
-
Metabolic engineering of Escherichia coli for efficient conversion of glycerol to ethanol
-
Trinh C.T., Srienc F. Metabolic engineering of Escherichia coli for efficient conversion of glycerol to ethanol. Appl. Environ. Microbiol. 2009, 75:6696-6705.
-
(2009)
Appl. Environ. Microbiol.
, vol.75
, pp. 6696-6705
-
-
Trinh, C.T.1
Srienc, F.2
-
58
-
-
45749137679
-
Minimal Escherichia coli cell for the most efficient production of ethanol from hexoses and pentoses
-
Trinh C.T., Unrean P., Srienc F. Minimal Escherichia coli cell for the most efficient production of ethanol from hexoses and pentoses. Appl. Environ. Microbiol. 2008, 74:3634-3643.
-
(2008)
Appl. Environ. Microbiol.
, vol.74
, pp. 3634-3643
-
-
Trinh, C.T.1
Unrean, P.2
Srienc, F.3
-
59
-
-
58149154663
-
Elementary mode analysis: a useful metabolic pathway analysis tool for characterizing cellular metabolism
-
Trinh C.T., Wlaschin A., Srienc F. Elementary mode analysis: a useful metabolic pathway analysis tool for characterizing cellular metabolism. Appl. Microbiol. Biotechnol. 2009, 81:813-826.
-
(2009)
Appl. Microbiol. Biotechnol.
, vol.81
, pp. 813-826
-
-
Trinh, C.T.1
Wlaschin, A.2
Srienc, F.3
-
60
-
-
80555131153
-
Metabolic networks evolve towards states of maximum entropy production
-
Unrean P., Srienc F. Metabolic networks evolve towards states of maximum entropy production. Metab. Eng. 2011, 13:666-673.
-
(2011)
Metab. Eng.
, vol.13
, pp. 666-673
-
-
Unrean, P.1
Srienc, F.2
-
61
-
-
0027723421
-
Metabolic capabilities of Escherichia coli II. Optimal growth patterns
-
Varma A., Palsson B.O. Metabolic capabilities of Escherichia coli II. Optimal growth patterns. J. Theor. Biol. 1993, 165:503-522.
-
(1993)
J. Theor. Biol.
, vol.165
, pp. 503-522
-
-
Varma, A.1
Palsson, B.O.2
-
62
-
-
33747856186
-
Metatool 5.0: fast and flexible elementary modes analysis
-
von Kamp A., Schuster S. Metatool 5.0: fast and flexible elementary modes analysis. Bioinformatics 2006, 22:1930-1931.
-
(2006)
Bioinformatics
, vol.22
, pp. 1930-1931
-
-
von Kamp, A.1
Schuster, S.2
-
64
-
-
84856389651
-
Production of amorphadiene in yeast, and its conversion to dihydroartemisinic acid, precursor to the antimalarial agent artemisinin
-
Westfall P.J., Pitera D.J., Lenihan J.R., Eng D., Woolard F.X., Regentin R., Horning T., Tsuruta H., Melis D.J., Owens A., Fickes S., Diola D., Benjamin K.R., Keasling J.D., Leavell M.D., McPhee D.J., Renninger N.S., Newman J.D., Paddon C.J. Production of amorphadiene in yeast, and its conversion to dihydroartemisinic acid, precursor to the antimalarial agent artemisinin. Proc. Natl. Acad. Sci. USA 2012, 109:E111-E118.
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. E111-E118
-
-
Westfall, P.J.1
Pitera, D.J.2
Lenihan, J.R.3
Eng, D.4
Woolard, F.X.5
Regentin, R.6
Horning, T.7
Tsuruta, H.8
Melis, D.J.9
Owens, A.10
Fickes, S.11
Diola, D.12
Benjamin, K.R.13
Keasling, J.D.14
Leavell, M.D.15
McPhee, D.J.16
Renninger, N.S.17
Newman, J.D.18
Paddon, C.J.19
-
66
-
-
84892598828
-
ReacKnock: identifying reaction deletion strategies for microbial strain optimization based on genome-scale metabolic network
-
Xu Z., Zheng P., Sun J., Ma Y. ReacKnock: identifying reaction deletion strategies for microbial strain optimization based on genome-scale metabolic network. PLoS One 2013, 8:e72150.
-
(2013)
PLoS One
, vol.8
, pp. e72150
-
-
Xu, Z.1
Zheng, P.2
Sun, J.3
Ma, Y.4
-
67
-
-
79955145774
-
EMILiO: a fast algorithm for genome-scale strain design
-
Yang L., Cluett W.R., Mahadevan R. EMILiO: a fast algorithm for genome-scale strain design. Metab. Eng. 2011, 13:272-281.
-
(2011)
Metab. Eng.
, vol.13
, pp. 272-281
-
-
Yang, L.1
Cluett, W.R.2
Mahadevan, R.3
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