-
1
-
-
41349108042
-
Old acetogens, new light
-
10.1196/annals.1419.016, 18378590
-
Drake HL, Gössner AS, Daniel SL. Old acetogens, new light. Ann N Y Acad Sci 2008, 1125:100-128. 10.1196/annals.1419.016, 18378590.
-
(2008)
Ann N Y Acad Sci
, vol.1125
, pp. 100-128
-
-
Drake, H.L.1
Gössner, A.S.2
Daniel, S.L.3
-
2
-
-
79955675417
-
Electrosynthesis of organic compounds from carbon dioxide Is catalyzed by a diversity of acetogenic microorganisms
-
10.1128/AEM.02642-10, 3126412, 21378039
-
Nevin KP, Hensley SA, Franks AE, Summers ZM, Ou J, Woodard TL, Snoeyenbos-West OL, Lovley DR. Electrosynthesis of organic compounds from carbon dioxide Is catalyzed by a diversity of acetogenic microorganisms. Appl Environ Microbiol 2011, 77:2882-2886. 10.1128/AEM.02642-10, 3126412, 21378039.
-
(2011)
Appl Environ Microbiol
, vol.77
, pp. 2882-2886
-
-
Nevin, K.P.1
Hensley, S.A.2
Franks, A.E.3
Summers, Z.M.4
Ou, J.5
Woodard, T.L.6
Snoeyenbos-West, O.L.7
Lovley, D.R.8
-
3
-
-
78650173757
-
Microbial electrosynthesis: feeding microbes electricity to convert carbon dioxide and water to multicarbon extracellular organic compounds
-
2921159, 20714445
-
Nevin KP, Woodard TL, Franks AE, Summers ZM, Lovley DR. Microbial electrosynthesis: feeding microbes electricity to convert carbon dioxide and water to multicarbon extracellular organic compounds. MBio 2010, 1:e00103-e00110. 2921159, 20714445.
-
(2010)
MBio
, vol.1
-
-
Nevin, K.P.1
Woodard, T.L.2
Franks, A.E.3
Summers, Z.M.4
Lovley, D.R.5
-
4
-
-
84888861042
-
Crystal ball- 2013
-
Curtis T, Daran J-M, Pronk JT, Frey J, Jansson JK, Robbins-Pianka A, Knight R, Schnürer A, Smets BF, Smid EJ, et al. Crystal ball- 2013. J Microbial Biotechnol 2013, 6:3-16.
-
(2013)
J Microbial Biotechnol
, vol.6
, pp. 3-16
-
-
Curtis, T.1
Daran, J.-M.2
Pronk, J.T.3
Frey, J.4
Jansson, J.K.5
Robbins-Pianka, A.6
Knight, R.7
Schnürer, A.8
Smets, B.F.9
Smid, E.J.10
-
5
-
-
84857143067
-
Hydrogen, metals, bifurcating electrons, and proton gradients: the early evolution of biological energy conservation
-
10.1016/j.febslet.2011.09.031, 21978488
-
Martin WF. Hydrogen, metals, bifurcating electrons, and proton gradients: the early evolution of biological energy conservation. FEBS Lett 2012, 586:485-493. 10.1016/j.febslet.2011.09.031, 21978488.
-
(2012)
FEBS Lett
, vol.586
, pp. 485-493
-
-
Martin, W.F.1
-
6
-
-
77952029003
-
Tight coupling of partial reactions in the acetyl-CoA decarbonylase/synthase (ACDS) multienzyme complex from Methanosarcina thermophila: acetyl C-C bond fragmentation at the a cluster promoted by protein conformational changes
-
10.1074/jbc.M109.080994, 2865265, 20202935
-
Gencic S, Duin EC, Grahame DA. Tight coupling of partial reactions in the acetyl-CoA decarbonylase/synthase (ACDS) multienzyme complex from Methanosarcina thermophila: acetyl C-C bond fragmentation at the a cluster promoted by protein conformational changes. J Biol Chem 2010, 285:15450-15463. 10.1074/jbc.M109.080994, 2865265, 20202935.
-
(2010)
J Biol Chem
, vol.285
, pp. 15450-15463
-
-
Gencic, S.1
Duin, E.C.2
Grahame, D.A.3
-
7
-
-
84859090257
-
An ancient pathway combining carbon dioxide fixation with the generation and utilization of a sodium ion gradient for ATP synthesis
-
10.1371/journal.pone.0033439, 3315566, 22479398
-
Poehlein A, Schmidt S, Kaster A-K, Goenrich M, Vollmers J, Thürmer A, Bertsch J, Schuchmann K, Voigt B, Hecker M, et al. An ancient pathway combining carbon dioxide fixation with the generation and utilization of a sodium ion gradient for ATP synthesis. PLoS One 2012, 7:e33439. 10.1371/journal.pone.0033439, 3315566, 22479398.
-
(2012)
PLoS One
, vol.7
-
-
Poehlein, A.1
Schmidt, S.2
Kaster, A.-K.3
Goenrich, M.4
Vollmers, J.5
Thürmer, A.6
Bertsch, J.7
Schuchmann, K.8
Voigt, B.9
Hecker, M.10
-
8
-
-
84871712835
-
Energy conservation via electron bifurcating ferredoxin reduction and proton/Na(+) translocating ferredoxin oxidation
-
Buckel W, Thauer RK. Energy conservation via electron bifurcating ferredoxin reduction and proton/Na(+) translocating ferredoxin oxidation. Biochim Biophys Acta 2012, 8:94-113.
-
(2012)
Biochim Biophys Acta
, vol.8
, pp. 94-113
-
-
Buckel, W.1
Thauer, R.K.2
-
9
-
-
84858439602
-
Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods
-
3536058, 22367118
-
Lewis NE, Nagarajan H, Palsson B. Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods. Nat Rev Microbiol 2012, 10:291-305. 3536058, 22367118.
-
(2012)
Nat Rev Microbiol
, vol.10
, pp. 291-305
-
-
Lewis, N.E.1
Nagarajan, H.2
Palsson, B.3
-
10
-
-
84879002382
-
Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli
-
3658273, 23632383
-
McCloskey D, Palsson B, Feist AM. Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli. Mol Syst Biol 2013, 9:661. 3658273, 23632383.
-
(2013)
Mol Syst Biol
, vol.9
, pp. 661
-
-
McCloskey, D.1
Palsson, B.2
Feist, A.M.3
-
11
-
-
79959374585
-
Metabolic engineering of Escherichia coli for direct production of 1,4-butanediol
-
10.1038/nchembio.580, 21602812
-
Yim H, Haselbeck R, Niu W, Pujol-Baxley C, Burgard A, Boldt J, Khandurina J, Trawick JD, Osterhout RE, Stephen R, et al. Metabolic engineering of Escherichia coli for direct production of 1,4-butanediol. Nat Chem Biol 2011, 7:445-452. 10.1038/nchembio.580, 21602812.
-
(2011)
Nat Chem Biol
, vol.7
, pp. 445-452
-
-
Yim, H.1
Haselbeck, R.2
Niu, W.3
Pujol-Baxley, C.4
Burgard, A.5
Boldt, J.6
Khandurina, J.7
Trawick, J.D.8
Osterhout, R.E.9
Stephen, R.10
-
12
-
-
77955610491
-
Clostridium ljungdahlii represents a microbial production platform based on syngas
-
10.1073/pnas.1004716107, 2919952, 20616070
-
Köpke M, Held C, Hujer S, Liesegang H, Wiezer A, Wollherr A, Ehrenreich A, Liebl W, Gottschalk G, Dürre P. Clostridium ljungdahlii represents a microbial production platform based on syngas. Proc Natl Acad Sci USA 2010, 107:13087-13092. 10.1073/pnas.1004716107, 2919952, 20616070.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 13087-13092
-
-
Köpke, M.1
Held, C.2
Hujer, S.3
Liesegang, H.4
Wiezer, A.5
Wollherr, A.6
Ehrenreich, A.7
Liebl, W.8
Gottschalk, G.9
Dürre, P.10
-
13
-
-
77956696072
-
High-throughput generation, optimization and analysis of genome-scale metabolic models
-
10.1038/nbt.1672, 20802497
-
Henry CS, DeJongh M, Best AA, Frybarger PM, Linsay B, Stevens RL. High-throughput generation, optimization and analysis of genome-scale metabolic models. Nat Biotechnol 2010, 28:977-982. 10.1038/nbt.1672, 20802497.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 977-982
-
-
Henry, C.S.1
DeJongh, M.2
Best, A.A.3
Frybarger, P.M.4
Linsay, B.5
Stevens, R.L.6
-
14
-
-
51849115840
-
Genome-scale reconstruction and in silico analysis of the Clostridium acetobutylicum ATCC 824 metabolic network
-
10.1007/s00253-008-1654-4, 18758767
-
Lee J, Yun H, Feist AM, Palsson B, Lee SY. Genome-scale reconstruction and in silico analysis of the Clostridium acetobutylicum ATCC 824 metabolic network. Appl Microbiol Biotechnol 2008, 80:849-862. 10.1007/s00253-008-1654-4, 18758767.
-
(2008)
Appl Microbiol Biotechnol
, vol.80
, pp. 849-862
-
-
Lee, J.1
Yun, H.2
Feist, A.M.3
Palsson, B.4
Lee, S.Y.5
-
15
-
-
51849142353
-
Genome-scale model for Clostridium acetobutylicum: part I. Metabolic network resolution and analysis
-
10.1002/bit.22010, 2760220, 18767192
-
Senger RS, Papoutsakis ET. Genome-scale model for Clostridium acetobutylicum: part I. Metabolic network resolution and analysis. Biotechnol Bioeng 2008, 101:1036-1052. 10.1002/bit.22010, 2760220, 18767192.
-
(2008)
Biotechnol Bioeng
, vol.101
, pp. 1036-1052
-
-
Senger, R.S.1
Papoutsakis, E.T.2
-
16
-
-
77954736119
-
Genome-scale metabolic analysis of Clostridium thermocellum for bioethanol production
-
10.1186/1752-0509-4-31, 2852388, 20307315
-
Roberts SB, Gowen CM, Brooks JP, Fong SS. Genome-scale metabolic analysis of Clostridium thermocellum for bioethanol production. BMC Syst Biol 2010, 4:31. 10.1186/1752-0509-4-31, 2852388, 20307315.
-
(2010)
BMC Syst Biol
, vol.4
, pp. 31
-
-
Roberts, S.B.1
Gowen, C.M.2
Brooks, J.P.3
Fong, S.S.4
-
17
-
-
80051641411
-
Metabolic network reconstruction and genome-scale model of butanol-producing strain Clostridium beijerinckii NCIMB 8052
-
10.1186/1752-0509-5-130, 3212993, 21846360
-
Milne CB, Eddy JA, Raju R, Ardekani S, Kim P-J, Senger RS, Jin Y-S, Blaschek HP, Price ND. Metabolic network reconstruction and genome-scale model of butanol-producing strain Clostridium beijerinckii NCIMB 8052. BMC Syst Biol 2011, 5:130. 10.1186/1752-0509-5-130, 3212993, 21846360.
-
(2011)
BMC Syst Biol
, vol.5
, pp. 130
-
-
Milne, C.B.1
Eddy, J.A.2
Raju, R.3
Ardekani, S.4
Kim, P.-J.5
Senger, R.S.6
Jin, Y.-S.7
Blaschek, H.P.8
Price, N.D.9
-
18
-
-
0033982936
-
KEGG: kyoto encyclopedia of genes and genomes
-
10.1093/nar/28.1.27, 102409, 10592173
-
Kanehisa M, Goto S. KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res 2000, 28:27-30. 10.1093/nar/28.1.27, 102409, 10592173.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
19
-
-
78651335279
-
Systematizing the generation of missing metabolic knowledge
-
10.1002/bit.22844, 3119652, 20589842
-
Orth JD, Palsson B. Systematizing the generation of missing metabolic knowledge. Biotechnol Bioeng 2010, 107:403-412. 10.1002/bit.22844, 3119652, 20589842.
-
(2010)
Biotechnol Bioeng
, vol.107
, pp. 403-412
-
-
Orth, J.D.1
Palsson, B.2
-
20
-
-
33751226921
-
Systems approach to refining genome annotation
-
10.1073/pnas.0603364103, 1859954, 17088549
-
Reed JL, Patel TR, Chen KH, Joyce AR, Applebee MK, Herring CD, Bui OT, Knight EM, Fong SS, Palsson B. Systems approach to refining genome annotation. Proc Natl Acad Sci USA 2006, 103:17480-17484. 10.1073/pnas.0603364103, 1859954, 17088549.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 17480-17484
-
-
Reed, J.L.1
Patel, T.R.2
Chen, K.H.3
Joyce, A.R.4
Applebee, M.K.5
Herring, C.D.6
Bui, O.T.7
Knight, E.M.8
Fong, S.S.9
Palsson, B.10
-
21
-
-
0027460190
-
Clostridium ljungdahlii sp. nov., an acetogenic species in clostridial rRNA homology group I
-
10.1099/00207713-43-2-232, 7684239
-
Tanner RS, Miller LM, Yang D. Clostridium ljungdahlii sp. nov., an acetogenic species in clostridial rRNA homology group I. Int J Syst Bacteriol 1993, 43:232-236. 10.1099/00207713-43-2-232, 7684239.
-
(1993)
Int J Syst Bacteriol
, vol.43
, pp. 232-236
-
-
Tanner, R.S.1
Miller, L.M.2
Yang, D.3
-
22
-
-
79961098783
-
2,3-Butanediol production by acetogenic bacteria, an alternative route to chemical synthesis, using industrial waste gas
-
10.1128/AEM.00355-11, 3147483, 21685168
-
Köpke M, Mihalcea C, Liew F, Tizard JH, Ali MS, Conolly JJ, Al-Sinawi B, Simpson SD. 2,3-Butanediol production by acetogenic bacteria, an alternative route to chemical synthesis, using industrial waste gas. Appl Environ Microbiol 2011, 77:5467-5475. 10.1128/AEM.00355-11, 3147483, 21685168.
-
(2011)
Appl Environ Microbiol
, vol.77
, pp. 5467-5475
-
-
Köpke, M.1
Mihalcea, C.2
Liew, F.3
Tizard, J.H.4
Ali, M.S.5
Conolly, J.J.6
Al-Sinawi, B.7
Simpson, S.D.8
-
23
-
-
61449257456
-
Adaptations to submarine hydrothermal environments exemplified by the genome of Nautilia profundicola
-
10.1371/journal.pgen.1000362, 2628731, 19197347
-
Campbell BJ, Smith JL, Hanson TE, Klotz MG, Stein LY, Lee CK, Wu D, Robinson JM, Khouri HM, Eisen JA, Cary SC. Adaptations to submarine hydrothermal environments exemplified by the genome of Nautilia profundicola. PLoS Genet 2009, 5:e1000362. 10.1371/journal.pgen.1000362, 2628731, 19197347.
-
(2009)
PLoS Genet
, vol.5
-
-
Campbell, B.J.1
Smith, J.L.2
Hanson, T.E.3
Klotz, M.G.4
Stein, L.Y.5
Lee, C.K.6
Wu, D.7
Robinson, J.M.8
Khouri, H.M.9
Eisen, J.A.10
Cary, S.C.11
-
24
-
-
0016667968
-
The physiological function of nitrate reduction in Clostridium perfringens
-
10.1099/00221287-87-1-120, 166143
-
Hasan SM, Hall JB. The physiological function of nitrate reduction in Clostridium perfringens. J Gen Microbiol 1975, 87:120-128. 10.1099/00221287-87-1-120, 166143.
-
(1975)
J Gen Microbiol
, vol.87
, pp. 120-128
-
-
Hasan, S.M.1
Hall, J.B.2
-
26
-
-
84894403238
-
Does acetogenesis really require especially low reduction potential?
-
10.1016/j.bbabio.2012.1010.1007
-
Bar-Even A. Does acetogenesis really require especially low reduction potential?. Biochim Biophys Acta 2012, 10.1016/j.bbabio.2012.1010.1007.
-
(2012)
Biochim Biophys Acta
-
-
Bar-Even, A.1
-
27
-
-
0022526191
-
The autotrophic pathway of acetate synthesis in acetogenic bacteria
-
10.1146/annurev.mi.40.100186.002215, 3096193
-
Ljungdahl LG. The autotrophic pathway of acetate synthesis in acetogenic bacteria. Annu Rev Microbiol 1986, 40:415-450. 10.1146/annurev.mi.40.100186.002215, 3096193.
-
(1986)
Annu Rev Microbiol
, vol.40
, pp. 415-450
-
-
Ljungdahl, L.G.1
-
28
-
-
84874639721
-
The Rnf complex of Clostridium ljungdahlii is a proton-translocating ferredoxin: NAD + oxidoreductase essential for autotrophic growth
-
3531802, 23269825
-
Tremblay PL, Zhang T, Dar SA, Leang C, Lovley DR. The Rnf complex of Clostridium ljungdahlii is a proton-translocating ferredoxin: NAD + oxidoreductase essential for autotrophic growth. MBio 2012, 4:e00406-e00412. 3531802, 23269825.
-
(2012)
MBio
, vol.4
-
-
Tremblay, P.L.1
Zhang, T.2
Dar, S.A.3
Leang, C.4
Lovley, D.R.5
-
29
-
-
77957326597
-
NADP + reduction with reduced ferredoxin and NADP + reduction with NADH are coupled via an electron-bifurcating enzyme complex in Clostridium kluyveri
-
10.1128/JB.00612-10, 2944534, 20675474
-
Wang S, Huang H, Moll J, Thauer RK. NADP + reduction with reduced ferredoxin and NADP + reduction with NADH are coupled via an electron-bifurcating enzyme complex in Clostridium kluyveri. J Bacteriol 2010, 192:5115-5123. 10.1128/JB.00612-10, 2944534, 20675474.
-
(2010)
J Bacteriol
, vol.192
, pp. 5115-5123
-
-
Wang, S.1
Huang, H.2
Moll, J.3
Thauer, R.K.4
-
30
-
-
84864008626
-
Electron bifurcation involved in the energy metabolism of the acetogenic bacterium Moorella thermoacetica growing on glucose or H2 plus CO2
-
10.1128/JB.00385-12, 3393501, 22582275
-
Huang H, Wang S, Moll J, Thauer RK. Electron bifurcation involved in the energy metabolism of the acetogenic bacterium Moorella thermoacetica growing on glucose or H2 plus CO2. J Bacteriol 2012, 194:3689-3699. 10.1128/JB.00385-12, 3393501, 22582275.
-
(2012)
J Bacteriol
, vol.194
, pp. 3689-3699
-
-
Huang, H.1
Wang, S.2
Moll, J.3
Thauer, R.K.4
-
31
-
-
84884198848
-
NADP-specific electron-bifurcating [FeFe]-hydrogenase in a functional complex with formate dehydrogenase in Clostridium autoethanogenum grown on CO
-
10.1128/JB.00678-13, 23893107
-
Wang S, Huang H, Kahnt J, Mueller AP, Köpke M, Thauer RK. NADP-specific electron-bifurcating [FeFe]-hydrogenase in a functional complex with formate dehydrogenase in Clostridium autoethanogenum grown on CO. J Bacteriol 2013, 195:4373-4386. 10.1128/JB.00678-13, 23893107.
-
(2013)
J Bacteriol
, vol.195
, pp. 4373-4386
-
-
Wang, S.1
Huang, H.2
Kahnt, J.3
Mueller, A.P.4
Köpke, M.5
Thauer, R.K.6
-
32
-
-
34548216842
-
Life in hot carbon monoxide: the complete genome sequence of Carboxydothermus hydrogenoformans Z-2901
-
10.1371/journal.pgen.0010065, 1287953, 16311624
-
Wu M, Ren Q, Durkin AS, Daugherty SC, Brinkac LM, Dodson RJ, Madupu R, Sullivan SA, Kolonay JF, Haft DH, et al. Life in hot carbon monoxide: the complete genome sequence of Carboxydothermus hydrogenoformans Z-2901. PLoS Genet 2005, 1:e65. 10.1371/journal.pgen.0010065, 1287953, 16311624.
-
(2005)
PLoS Genet
, vol.1
-
-
Wu, M.1
Ren, Q.2
Durkin, A.S.3
Daugherty, S.C.4
Brinkac, L.M.5
Dodson, R.J.6
Madupu, R.7
Sullivan, S.A.8
Kolonay, J.F.9
Haft, D.H.10
-
33
-
-
84885169552
-
RNA-seq-based comparative transcriptome analysis of the syngas-utilizing bacterium Clostridium ljungdahlii DSM 13528 grown autotrophically and heterotrophically
-
Tan Y, Liu J, Chen X, Zheng H, Li F. RNA-seq-based comparative transcriptome analysis of the syngas-utilizing bacterium Clostridium ljungdahlii DSM 13528 grown autotrophically and heterotrophically. Mol Bio Syst 2013, 9:2775-2784.
-
(2013)
Mol Bio Syst
, vol.9
, pp. 2775-2784
-
-
Tan, Y.1
Liu, J.2
Chen, X.3
Zheng, H.4
Li, F.5
-
34
-
-
84866142108
-
A bacterial electron-bifurcating hydrogenase
-
10.1074/jbc.M112.395038, 3438948, 22810230
-
Schuchmann K, Müller V. A bacterial electron-bifurcating hydrogenase. J Biol Chem 2012, 287:31165-31171. 10.1074/jbc.M112.395038, 3438948, 22810230.
-
(2012)
J Biol Chem
, vol.287
, pp. 31165-31171
-
-
Schuchmann, K.1
Müller, V.2
-
35
-
-
84874738185
-
A genetic system for Clostridium ljungdahlii: a chassis for autotrophic production of biocommodities and a model homoacetogen
-
10.1128/AEM.02891-12, 3568603, 23204413
-
Leang C, Ueki T, Nevin KP, Lovley DR. A genetic system for Clostridium ljungdahlii: a chassis for autotrophic production of biocommodities and a model homoacetogen. Appl Environ Microbiol 2013, 79:1102-1109. 10.1128/AEM.02891-12, 3568603, 23204413.
-
(2013)
Appl Environ Microbiol
, vol.79
, pp. 1102-1109
-
-
Leang, C.1
Ueki, T.2
Nevin, K.P.3
Lovley, D.R.4
-
36
-
-
77952886804
-
The biomass objective function
-
10.1016/j.mib.2010.03.003, 2912156, 20430689
-
Feist AM, Palsson B. The biomass objective function. Curr Opin Microbiol 2010, 13:344-349. 10.1016/j.mib.2010.03.003, 2912156, 20430689.
-
(2010)
Curr Opin Microbiol
, vol.13
, pp. 344-349
-
-
Feist, A.M.1
Palsson, B.2
-
37
-
-
35348934254
-
Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data
-
10.1074/jbc.M703759200, 17573341
-
Oh Y-K, Palsson B, Park SM, Schilling CH, Mahadevan R. Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data. J Biol Chem 2007, 282:28791-28799. 10.1074/jbc.M703759200, 17573341.
-
(2007)
J Biol Chem
, vol.282
, pp. 28791-28799
-
-
Oh, Y.-K.1
Palsson, B.2
Park, S.M.3
Schilling, C.H.4
Mahadevan, R.5
-
38
-
-
73649136784
-
The wall teichoic acid and lipoteichoic acid polymers of Staphylococcus aureus
-
10.1016/j.ijmm.2009.10.001, 19896895
-
Xia G, Kohler T, Peschel A. The wall teichoic acid and lipoteichoic acid polymers of Staphylococcus aureus. Int J Med Microbiol 2010, 300:148-154. 10.1016/j.ijmm.2009.10.001, 19896895.
-
(2010)
Int J Med Microbiol
, vol.300
, pp. 148-154
-
-
Xia, G.1
Kohler, T.2
Peschel, A.3
-
39
-
-
34347332311
-
A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information
-
1911197, 17593909
-
Feist AM, Henry CS, Reed JL, Krummenacker M, Joyce AR, Karp PD, Broadbelt LJ, Hatzimanikatis V, Palsson B. A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. Mol Syst Biol 2007, 3:121. 1911197, 17593909.
-
(2007)
Mol Syst Biol
, vol.3
, pp. 121
-
-
Feist, A.M.1
Henry, C.S.2
Reed, J.L.3
Krummenacker, M.4
Joyce, A.R.5
Karp, P.D.6
Broadbelt, L.J.7
Hatzimanikatis, V.8
Palsson, B.9
-
40
-
-
77749320898
-
What is flux balance analysis?
-
10.1038/nbt.1614, 3108565, 20212490
-
Orth JD, Thiele I, Palsson B. What is flux balance analysis?. Nat Biotechnol 2010, 28:245-248. 10.1038/nbt.1614, 3108565, 20212490.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 245-248
-
-
Orth, J.D.1
Thiele, I.2
Palsson, B.3
-
41
-
-
79551662521
-
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA toolbox v2.0
-
10.1038/nprot.2011.308, 3319681, 21886097
-
Schellenberger J, Que R, Fleming RMT, Thiele I, Orth JD, Feist AM, Zielinski DC, Bordbar A, Lewis NE, Rahmanian S, et al. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA toolbox v2.0. Nat Protoc 2011, 6:1290-1307. 10.1038/nprot.2011.308, 3319681, 21886097.
-
(2011)
Nat Protoc
, vol.6
, pp. 1290-1307
-
-
Schellenberger, J.1
Que, R.2
Fleming, R.M.T.3
Thiele, I.4
Orth, J.D.5
Feist, A.M.6
Zielinski, D.C.7
Bordbar, A.8
Lewis, N.E.9
Rahmanian, S.10
-
42
-
-
84871763919
-
Sulfide-driven microbial electrosynthesis
-
Gong Y, Ebrahim A, Feist AM, Embree M, Zhang T, Lovley D, Zengler K. Sulfide-driven microbial electrosynthesis. Environ Sci Tech 2013, 47:568-573.
-
(2013)
Environ Sci Tech
, vol.47
, pp. 568-573
-
-
Gong, Y.1
Ebrahim, A.2
Feist, A.M.3
Embree, M.4
Zhang, T.5
Lovley, D.6
Zengler, K.7
-
43
-
-
57449102586
-
Aerobic fermentation of D-glucose by an evolved cytochrome oxidase-deficient Escherichia coli strain
-
10.1128/AEM.00880-08, 2607145, 18952873
-
Portnoy VA, Herrgard MJ, Palsson B. Aerobic fermentation of D-glucose by an evolved cytochrome oxidase-deficient Escherichia coli strain. Appl Environ Microbiol 2008, 74:7561-7569. 10.1128/AEM.00880-08, 2607145, 18952873.
-
(2008)
Appl Environ Microbiol
, vol.74
, pp. 7561-7569
-
-
Portnoy, V.A.1
Herrgard, M.J.2
Palsson, B.3
-
44
-
-
0035098194
-
A flow injection-fluorometric method for the determination of ammonium in fresh and saline waters with a view to in situ analyses
-
10.1016/S0043-1354(00)00429-2, 11329680
-
Aminot A, Kerouel R, Birot D. A flow injection-fluorometric method for the determination of ammonium in fresh and saline waters with a view to in situ analyses. Water Res 2001, 35:1777-1785. 10.1016/S0043-1354(00)00429-2, 11329680.
-
(2001)
Water Res
, vol.35
, pp. 1777-1785
-
-
Aminot, A.1
Kerouel, R.2
Birot, D.3
-
45
-
-
0021260185
-
Nitrate reduction by shaking with cadmium: alternative to cadmium columns
-
Jones MN. Nitrate reduction by shaking with cadmium: alternative to cadmium columns. Water Res 1984, 18:643-646.
-
(1984)
Water Res
, vol.18
, pp. 643-646
-
-
Jones, M.N.1
-
46
-
-
70350653808
-
Transcriptome analysis by strand-specific sequencing of complementary DNA
-
10.1093/nar/gkp596, 2764448, 19620212
-
Parkhomchuk D, Borodina T, Amstislavskiy V, Banaru M, Hallen L, Krobitsch S, Lehrach H, Soldatov A. Transcriptome analysis by strand-specific sequencing of complementary DNA. Nucleic Acids Res 2009, 37:e123. 10.1093/nar/gkp596, 2764448, 19620212.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Parkhomchuk, D.1
Borodina, T.2
Amstislavskiy, V.3
Banaru, M.4
Hallen, L.5
Krobitsch, S.6
Lehrach, H.7
Soldatov, A.8
-
47
-
-
79961230772
-
High-throughput Illumina strand-specific RNA sequencing library preparation
-
Zhong S, Joung J-G, Zheng Y, Chen Y-R, Liu B, Shao Y, Xiang JZ, Fei Z, Giovannoni JJ. High-throughput Illumina strand-specific RNA sequencing library preparation. Cold Spring Harb Protoc 2011, 2011:940-949.
-
(2011)
Cold Spring Harb Protoc
, vol.2011
, pp. 940-949
-
-
Zhong, S.1
Joung, J.-G.2
Zheng, Y.3
Chen, Y.-R.4
Liu, B.5
Shao, Y.6
Xiang, J.Z.7
Fei, Z.8
Giovannoni, J.J.9
-
48
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
10.1186/gb-2009-10-3-r25, 2690996, 19261174
-
Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 2009, 10:R25. 10.1186/gb-2009-10-3-r25, 2690996, 19261174.
-
(2009)
Genome Biol
, vol.10
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
49
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
10.1038/nbt.1621, 3146043, 20436464
-
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol 2010, 28:511-515. 10.1038/nbt.1621, 3146043, 20436464.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
van Baren, M.J.6
Salzberg, S.L.7
Wold, B.J.8
Pachter, L.9
|