-
1
-
-
79953663708
-
Consensus-phenotype integration of transcriptomic and metabolomic data implies a role for metabolism in the chemosensitivity of tumour cells
-
10.1371/journal.pcbi.1001113, 3068923, 21483477
-
Cavill R, Kamburov A, Ellis JK, Athersuch TJ, Blagrove MS, Herwig R, Ebbels TM, Keun HC. Consensus-phenotype integration of transcriptomic and metabolomic data implies a role for metabolism in the chemosensitivity of tumour cells. PLoS Comput Biol 2011, 7(3):e1001113. 10.1371/journal.pcbi.1001113, 3068923, 21483477.
-
(2011)
PLoS Comput Biol
, vol.7
, Issue.3
-
-
Cavill, R.1
Kamburov, A.2
Ellis, J.K.3
Athersuch, T.J.4
Blagrove, M.S.5
Herwig, R.6
Ebbels, T.M.7
Keun, H.C.8
-
2
-
-
3042750616
-
Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana
-
10.1073/pnas.0403218101, 454188, 15199185
-
Hirai MY, Yano M, Goodenowe DB, Kanaya S, Kimura T, Awazuhara M, Arita M, Fujiwara T, Saito K. Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana. Proc Natl Acad Sci USA 2004, 101(27):10205-10210. 10.1073/pnas.0403218101, 454188, 15199185.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, Issue.27
, pp. 10205-10210
-
-
Hirai, M.Y.1
Yano, M.2
Goodenowe, D.B.3
Kanaya, S.4
Kimura, T.5
Awazuhara, M.6
Arita, M.7
Fujiwara, T.8
Saito, K.9
-
3
-
-
0035805255
-
Integrated genomic and proteomic analyses of a systematically perturbed metabolic network
-
10.1126/science.292.5518.929, 11340206
-
Ideker T, Thorsson V, Ranish JA, Christmas R, Buhler J, Eng JK, Bumgarner R, Goodlett DR, Aebersold R, Hood L. Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science 2001, 292(5518):929-934. 10.1126/science.292.5518.929, 11340206.
-
(2001)
Science
, vol.292
, Issue.5518
, pp. 929-934
-
-
Ideker, T.1
Thorsson, V.2
Ranish, J.A.3
Christmas, R.4
Buhler, J.5
Eng, J.K.6
Bumgarner, R.7
Goodlett, D.R.8
Aebersold, R.9
Hood, L.10
-
4
-
-
33644527950
-
The model organism as a system: integrating 'omics' data sets
-
10.1038/nrm1857, 16496022
-
Joyce AR, Palsson BO. The model organism as a system: integrating 'omics' data sets. Nat Rev Mol Cell Biol 2006, 7(3):198-210. 10.1038/nrm1857, 16496022.
-
(2006)
Nat Rev Mol Cell Biol
, vol.7
, Issue.3
, pp. 198-210
-
-
Joyce, A.R.1
Palsson, B.O.2
-
5
-
-
78650088693
-
Phenomic and transcriptomic analyses reveal that autophagy plays a major role in desiccation tolerance in Saccharomyces cerevisiae
-
10.1039/c0mb00114g, 20963216
-
Ratnakumar S, Hesketh A, Gkargkas K, Wilson M, Rash BM, Hayes A, Tunnacliffe A, Oliver SG. Phenomic and transcriptomic analyses reveal that autophagy plays a major role in desiccation tolerance in Saccharomyces cerevisiae. Mol Biosyst 2011, 7(1):139-149. 10.1039/c0mb00114g, 20963216.
-
(2011)
Mol Biosyst
, vol.7
, Issue.1
, pp. 139-149
-
-
Ratnakumar, S.1
Hesketh, A.2
Gkargkas, K.3
Wilson, M.4
Rash, B.M.5
Hayes, A.6
Tunnacliffe, A.7
Oliver, S.G.8
-
6
-
-
73149122136
-
Applications of genome-scale metabolic reconstructions
-
2795471, 19888215
-
Oberhardt MA, Palsson BO, Papin JA. Applications of genome-scale metabolic reconstructions. Mol Syst Biol 2009, 5:320. 2795471, 19888215.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 320
-
-
Oberhardt, M.A.1
Palsson, B.O.2
Papin, J.A.3
-
7
-
-
71849086611
-
Direct photosynthetic recycling of carbon dioxide to isobutyraldehyde
-
10.1038/nbt.1586, 19915552
-
Atsumi S, Higashide W, Liao JC. Direct photosynthetic recycling of carbon dioxide to isobutyraldehyde. Nat Biotechnol 2009, 27(12):1177-1180. 10.1038/nbt.1586, 19915552.
-
(2009)
Nat Biotechnol
, vol.27
, Issue.12
, pp. 1177-1180
-
-
Atsumi, S.1
Higashide, W.2
Liao, J.C.3
-
8
-
-
84878854426
-
Next generation biofuel engineering in prokaryotes
-
10.1016/j.cbpa.2013.03.037, 23623045
-
Gronenberg LS, Marcheschi RJ, Liao JC. Next generation biofuel engineering in prokaryotes. Curr Opin Chem Biol 2013, 17(3):462-471. 10.1016/j.cbpa.2013.03.037, 23623045.
-
(2013)
Curr Opin Chem Biol
, vol.17
, Issue.3
, pp. 462-471
-
-
Gronenberg, L.S.1
Marcheschi, R.J.2
Liao, J.C.3
-
9
-
-
79957440851
-
Modification of the genome of Rhodobacter sphaeroides and construction of synthetic operons
-
Jaschke PR, Saer RG, Noll S, Beatty JT. Modification of the genome of Rhodobacter sphaeroides and construction of synthetic operons. Methods Enzymol 2011, 497:519-538.
-
(2011)
Methods Enzymol
, vol.497
, pp. 519-538
-
-
Jaschke, P.R.1
Saer, R.G.2
Noll, S.3
Beatty, J.T.4
-
10
-
-
0000947778
-
The biochemistry and metabolic regulation of carbon metabolism and CO2-fixation in purple bacteria
-
The Netherlands: Kluwer Academic Publishers, Blankenship RE, Madigan MT, Bauer CE, Blankenship RE, Madigan MT, Bauer CE
-
Tabita FR. The biochemistry and metabolic regulation of carbon metabolism and CO2-fixation in purple bacteria. Anoxygenic Photosynthetic Bacteria 1995, 885-914. The Netherlands: Kluwer Academic Publishers, Blankenship RE, Madigan MT, Bauer CE, Blankenship RE, Madigan MT, Bauer CE.
-
(1995)
Anoxygenic Photosynthetic Bacteria
, pp. 885-914
-
-
Tabita, F.R.1
-
11
-
-
79960558167
-
IRsp1095: a genome-scale reconstruction of the Rhodobacter sphaeroides metabolic network
-
10.1186/1752-0509-5-116, 3152904, 21777427
-
Imam S, Yilmaz S, Sohmen U, Gorzalski AS, Reed JL, Noguera DR, Donohue TJ. iRsp1095: a genome-scale reconstruction of the Rhodobacter sphaeroides metabolic network. BMC Syst Biol 2011, 5:116. 10.1186/1752-0509-5-116, 3152904, 21777427.
-
(2011)
BMC Syst Biol
, vol.5
, pp. 116
-
-
Imam, S.1
Yilmaz, S.2
Sohmen, U.3
Gorzalski, A.S.4
Reed, J.L.5
Noguera, D.R.6
Donohue, T.J.7
-
12
-
-
35848942389
-
Postgenomic adventures with Rhodobacter sphaeroides
-
10.1146/annurev.micro.61.080706.093402, 17506668
-
Mackenzie C, Eraso JM, Choudhary M, Roh JH, Zeng X, Bruscella P, Puskas A, Kaplan S. Postgenomic adventures with Rhodobacter sphaeroides. Annu Rev Microbiol 2007, 61:283-307. 10.1146/annurev.micro.61.080706.093402, 17506668.
-
(2007)
Annu Rev Microbiol
, vol.61
, pp. 283-307
-
-
Mackenzie, C.1
Eraso, J.M.2
Choudhary, M.3
Roh, J.H.4
Zeng, X.5
Bruscella, P.6
Puskas, A.7
Kaplan, S.8
-
13
-
-
76649103695
-
Electron partitioning during light- and nutrient-powered hydrogen production by Rhodobacter sphaeroides
-
Yilmaz LS, Kontur WS, Sanders AP, Sohmen U, Donohue TJ, Noguera DR. Electron partitioning during light- and nutrient-powered hydrogen production by Rhodobacter sphaeroides. Bioenerg Res 2010, 1:55-66.
-
(2010)
Bioenerg Res
, vol.1
, pp. 55-66
-
-
Yilmaz, L.S.1
Kontur, W.S.2
Sanders, A.P.3
Sohmen, U.4
Donohue, T.J.5
Noguera, D.R.6
-
14
-
-
40849083830
-
Molecular hydrogen production by nitrogenase of Rhodobacter sphaeroides and by Fe-only hydrogenase of Rhodospirillum rubrum
-
Kim E, Lee M, Kim M, Lee JK. Molecular hydrogen production by nitrogenase of Rhodobacter sphaeroides and by Fe-only hydrogenase of Rhodospirillum rubrum. Int J Hydrogen Energy 2008, 33(5):1516-1521.
-
(2008)
Int J Hydrogen Energy
, vol.33
, Issue.5
, pp. 1516-1521
-
-
Kim, E.1
Lee, M.2
Kim, M.3
Lee, J.K.4
-
15
-
-
82955205919
-
Pathways involved in reductant distribution during photobiological H(2) production by Rhodobacter sphaeroides
-
10.1128/AEM.05273-11, 3194864, 21856820
-
Kontur WS, Ziegelhoffer EC, Spero MA, Imam S, Noguera DR, Donohue TJ. Pathways involved in reductant distribution during photobiological H(2) production by Rhodobacter sphaeroides. Appl Environ Microbiol 2011, 77(20):7425-7429. 10.1128/AEM.05273-11, 3194864, 21856820.
-
(2011)
Appl Environ Microbiol
, vol.77
, Issue.20
, pp. 7425-7429
-
-
Kontur, W.S.1
Ziegelhoffer, E.C.2
Spero, M.A.3
Imam, S.4
Noguera, D.R.5
Donohue, T.J.6
-
16
-
-
77952242863
-
Coenzyme Q10 production in a 150-l reactor by a mutant strain of Rhodobacter sphaeroides
-
10.1007/s10295-010-0699-4, 20195885
-
Kien NB, Kong IS, Lee MG, Kim JK. Coenzyme Q10 production in a 150-l reactor by a mutant strain of Rhodobacter sphaeroides. J Ind Microbiol Biotechnol 2010, 37(5):521-529. 10.1007/s10295-010-0699-4, 20195885.
-
(2010)
J Ind Microbiol Biotechnol
, vol.37
, Issue.5
, pp. 521-529
-
-
Kien, N.B.1
Kong, I.S.2
Lee, M.G.3
Kim, J.K.4
-
17
-
-
0002061480
-
Polyhydroxybutyrate accumulation and hydrogen evolution by Rhodobacter sphaeroides as a function of nitrogen availability
-
Khatipov E, Miyake M, Miyake J, Asada Y. Polyhydroxybutyrate accumulation and hydrogen evolution by Rhodobacter sphaeroides as a function of nitrogen availability. Biohydrogen 1999, III:157-161.
-
(1999)
Biohydrogen
, vol.3
, pp. 157-161
-
-
Khatipov, E.1
Miyake, M.2
Miyake, J.3
Asada, Y.4
-
18
-
-
84860210506
-
Practical removal of radioactivity from sediment mud in a swimming pool in Fukushima, Japan by immobilized photosynthetic bacteria
-
10.1271/bbb.110853, 22484938
-
Sasaki K, Morikawa H, Kishibe T, Mikami A, Harada T, Ohta M. Practical removal of radioactivity from sediment mud in a swimming pool in Fukushima, Japan by immobilized photosynthetic bacteria. Biosci Biotechnol Biochem 2012, 76(4):859-862. 10.1271/bbb.110853, 22484938.
-
(2012)
Biosci Biotechnol Biochem
, vol.76
, Issue.4
, pp. 859-862
-
-
Sasaki, K.1
Morikawa, H.2
Kishibe, T.3
Mikami, A.4
Harada, T.5
Ohta, M.6
-
19
-
-
77956789483
-
Synthetic biology guides biofuel production
-
doi:10.1155/2010/541698.
-
Connor MR, Atsumi S. Synthetic biology guides biofuel production. J Biomed Biotechnol 2010, doi:10.1155/2010/541698.
-
(2010)
J Biomed Biotechnol
-
-
Connor, M.R.1
Atsumi, S.2
-
21
-
-
0037379691
-
New technologies to assess genotype-phenotype relationships
-
Bochner BR. New technologies to assess genotype-phenotype relationships. Nat Rev Genet 2003, 4(4):309-314.
-
(2003)
Nat Rev Genet
, vol.4
, Issue.4
, pp. 309-314
-
-
Bochner, B.R.1
-
22
-
-
0034911878
-
Phenotype microarrays for high-throughput phenotypic testing and assay of gene function
-
10.1101/gr.186501, 311101, 11435407
-
Bochner BR, Gadzinski P, Panomitros E. Phenotype microarrays for high-throughput phenotypic testing and assay of gene function. Genome Res 2001, 11(7):1246-1255. 10.1101/gr.186501, 311101, 11435407.
-
(2001)
Genome Res
, vol.11
, Issue.7
, pp. 1246-1255
-
-
Bochner, B.R.1
Gadzinski, P.2
Panomitros, E.3
-
23
-
-
84856430277
-
Application of phenotypic microarrays to environmental microbiology
-
10.1016/j.copbio.2011.12.006, 22217654
-
Borglin S, Joyner D, DeAngelis KM, Khudyakov J, D'Haeseleer P, Joachimiak MP, Hazen T. Application of phenotypic microarrays to environmental microbiology. Curr Opin Biotechnol 2012, 23(1):41-48. 10.1016/j.copbio.2011.12.006, 22217654.
-
(2012)
Curr Opin Biotechnol
, vol.23
, Issue.1
, pp. 41-48
-
-
Borglin, S.1
Joyner, D.2
DeAngelis, K.M.3
Khudyakov, J.4
D'Haeseleer, P.5
Joachimiak, M.P.6
Hazen, T.7
-
24
-
-
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 BO. 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.O.9
-
25
-
-
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 YK, Palsson BO, 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(39):28791-28799. 10.1074/jbc.M703759200, 17573341.
-
(2007)
J Biol Chem
, vol.282
, Issue.39
, pp. 28791-28799
-
-
Oh, Y.K.1
Palsson, B.O.2
Park, S.M.3
Schilling, C.H.4
Mahadevan, R.5
-
26
-
-
0032317176
-
Site-directed mutagenesis of the proton-pumping pyridine nucleotide transhydrogenase of Escherichia coli
-
Bragg PD. Site-directed mutagenesis of the proton-pumping pyridine nucleotide transhydrogenase of Escherichia coli. Biochim Biophys Acta 1998, 1365(1-2):98-104.
-
(1998)
Biochim Biophys Acta
, vol.1365
, Issue.1-2
, pp. 98-104
-
-
Bragg, P.D.1
-
27
-
-
0015499043
-
Function of energy-dependent transhydrogenase in Escherichia coli
-
10.1016/0006-291X(72)90969-2, 4337747
-
Bragg PD, Davies PL, Hou C. Function of energy-dependent transhydrogenase in Escherichia coli. Biochem Biophys Res Commun 1972, 47(5):1248-1255. 10.1016/0006-291X(72)90969-2, 4337747.
-
(1972)
Biochem Biophys Res Commun
, vol.47
, Issue.5
, pp. 1248-1255
-
-
Bragg, P.D.1
Davies, P.L.2
Hou, C.3
-
29
-
-
1342325419
-
The soluble and membrane-bound transhydrogenases UdhA and PntAB have divergent functions in NADPH metabolism of Escherichia coli
-
Sauer U, Canonaco F, Heri S, Perrenoud A, Fischer E. The soluble and membrane-bound transhydrogenases UdhA and PntAB have divergent functions in NADPH metabolism of Escherichia coli. J Biol Chem 2004, 279(8):6613-6619.
-
(2004)
J Biol Chem
, vol.279
, Issue.8
, pp. 6613-6619
-
-
Sauer, U.1
Canonaco, F.2
Heri, S.3
Perrenoud, A.4
Fischer, E.5
-
30
-
-
77955429093
-
High NADPH/NADP+ ratio improves thymidine production by a metabolically engineered Escherichia coli strain
-
Lee HC, Kim JS, Jang W, Kim SY. High NADPH/NADP+ ratio improves thymidine production by a metabolically engineered Escherichia coli strain. J Biotechnol 2010, 149(1-2):24-32.
-
(2010)
J Biotechnol
, vol.149
, Issue.1-2
, pp. 24-32
-
-
Lee, H.C.1
Kim, J.S.2
Jang, W.3
Kim, S.Y.4
-
31
-
-
0036135679
-
Link between the membrane-bound pyridine nucleotide transhydrogenase and glutathione-dependent processes in Rhodobacter sphaeroides
-
10.1128/JB.184.2.400-409.2002, 139586, 11751816
-
Hickman JW, Barber RD, Skaar EP, Donohue TJ. Link between the membrane-bound pyridine nucleotide transhydrogenase and glutathione-dependent processes in Rhodobacter sphaeroides. J Bacteriol 2002, 184(2):400-409. 10.1128/JB.184.2.400-409.2002, 139586, 11751816.
-
(2002)
J Bacteriol
, vol.184
, Issue.2
, pp. 400-409
-
-
Hickman, J.W.1
Barber, R.D.2
Skaar, E.P.3
Donohue, T.J.4
-
32
-
-
0037424378
-
Aspartate dehydrogenase, a novel enzyme identified from structural and functional studies of TM1643
-
10.1074/jbc.M211892200, 12496312
-
Yang Z, Savchenko A, Yakunin A, Zhang R, Edwards A, Arrowsmith C, Tong L. Aspartate dehydrogenase, a novel enzyme identified from structural and functional studies of TM1643. J Biol Chem 2003, 278(10):8804-8808. 10.1074/jbc.M211892200, 12496312.
-
(2003)
J Biol Chem
, vol.278
, Issue.10
, pp. 8804-8808
-
-
Yang, Z.1
Savchenko, A.2
Yakunin, A.3
Zhang, R.4
Edwards, A.5
Arrowsmith, C.6
Tong, L.7
-
33
-
-
33745218027
-
The first archaeal L-aspartate dehydrogenase from the hyperthermophile Archaeoglobus fulgidus: gene cloning and enzymological characterization
-
10.1016/j.bbapap.2006.04.006, 16731057
-
Yoneda K, Kawakami R, Tagashira Y, Sakuraba H, Goda S, Ohshima T. The first archaeal L-aspartate dehydrogenase from the hyperthermophile Archaeoglobus fulgidus: gene cloning and enzymological characterization. Biochim Biophys Acta 2006, 1764(6):1087-1093. 10.1016/j.bbapap.2006.04.006, 16731057.
-
(2006)
Biochim Biophys Acta
, vol.1764
, Issue.6
, pp. 1087-1093
-
-
Yoneda, K.1
Kawakami, R.2
Tagashira, Y.3
Sakuraba, H.4
Goda, S.5
Ohshima, T.6
-
34
-
-
14244256095
-
Experimental identification and quantification of glucose metabolism in seven bacterial species
-
10.1128/JB.187.5.1581-1590.2005, 1064017, 15716428
-
Fuhrer T, Fischer E, Sauer U. Experimental identification and quantification of glucose metabolism in seven bacterial species. J Bacteriol 2005, 187(5):1581-1590. 10.1128/JB.187.5.1581-1590.2005, 1064017, 15716428.
-
(2005)
J Bacteriol
, vol.187
, Issue.5
, pp. 1581-1590
-
-
Fuhrer, T.1
Fischer, E.2
Sauer, U.3
-
35
-
-
0023968065
-
Molecular genetics of photosynthetic membrane biosynthesis in Rhodobacter sphaeroides
-
372705, 3280966
-
Kiley PJ, Kaplan S. Molecular genetics of photosynthetic membrane biosynthesis in Rhodobacter sphaeroides. Microbiol Rev 1988, 52(1):50-69. 372705, 3280966.
-
(1988)
Microbiol Rev
, vol.52
, Issue.1
, pp. 50-69
-
-
Kiley, P.J.1
Kaplan, S.2
-
36
-
-
77951612556
-
BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions
-
10.1186/1471-2105-11-213, 2874806, 20426874
-
Schellenberger J, Park JO, Conrad TM, Palsson BO. BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions. BMC Bioinformatics 2010, 11:213. 10.1186/1471-2105-11-213, 2874806, 20426874.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 213
-
-
Schellenberger, J.1
Park, J.O.2
Conrad, T.M.3
Palsson, B.O.4
-
37
-
-
0022555851
-
Bacterial periplasmic transport systems: structure, mechanism, and evolution
-
10.1146/annurev.bi.55.070186.002145, 3527048
-
Ames GF. Bacterial periplasmic transport systems: structure, mechanism, and evolution. Annu Rev Biochem 1986, 55:397-425. 10.1146/annurev.bi.55.070186.002145, 3527048.
-
(1986)
Annu Rev Biochem
, vol.55
, pp. 397-425
-
-
Ames, G.F.1
-
38
-
-
0035019469
-
ABC transporters: physiology, structure and mechanism-an overview
-
Higgins CF. ABC transporters: physiology, structure and mechanism-an overview. Res Microbiol 2001, 152(3-4):205-210.
-
(2001)
Res Microbiol
, vol.152
, Issue.3-4
, pp. 205-210
-
-
Higgins, C.F.1
-
39
-
-
0031943304
-
The Escherichia coli ATP-binding cassette (ABC) proteins
-
Linton KJ, Higgins CF. The Escherichia coli ATP-binding cassette (ABC) proteins. Mol Microbiol 1998, 28(1):5-13.
-
(1998)
Mol Microbiol
, vol.28
, Issue.1
, pp. 5-13
-
-
Linton, K.J.1
Higgins, C.F.2
-
40
-
-
60749083913
-
ABC transporters: the power to change
-
10.1038/nrm2646, 2830722, 19234479
-
Rees DC, Johnson E, Lewinson O. ABC transporters: the power to change. Nat Rev Mol Cell Biol 2009, 10(3):218-227. 10.1038/nrm2646, 2830722, 19234479.
-
(2009)
Nat Rev Mol Cell Biol
, vol.10
, Issue.3
, pp. 218-227
-
-
Rees, D.C.1
Johnson, E.2
Lewinson, O.3
-
41
-
-
84861398402
-
Comparative multi-omics systems analysis of Escherichia coli strains B and K-12
-
10.1186/gb-2012-13-5-r37, 3446290, 22632713
-
Yoon SH, Han MJ, Jeong H, Lee CH, Xia XX, Lee DH, Shim JH, Lee SY, Oh TK, Kim JF. Comparative multi-omics systems analysis of Escherichia coli strains B and K-12. Genome Biol 2012, 13(5):R37. 10.1186/gb-2012-13-5-r37, 3446290, 22632713.
-
(2012)
Genome Biol
, vol.13
, Issue.5
-
-
Yoon, S.H.1
Han, M.J.2
Jeong, H.3
Lee, C.H.4
Xia, X.X.5
Lee, D.H.6
Shim, J.H.7
Lee, S.Y.8
Oh, T.K.9
Kim, J.F.10
-
42
-
-
78349239648
-
An automated phenotype-driven approach (GeneForce) for refining metabolic and regulatory models
-
10.1371/journal.pcbi.1000970, 2965739, 21060853
-
Barua D, Kim J, Reed JL. An automated phenotype-driven approach (GeneForce) for refining metabolic and regulatory models. PLoS Comput Biol 2010, 6(10):e1000970. 10.1371/journal.pcbi.1000970, 2965739, 21060853.
-
(2010)
PLoS Comput Biol
, vol.6
, Issue.10
-
-
Barua, D.1
Kim, J.2
Reed, J.L.3
-
43
-
-
80054069179
-
A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011
-
3261703, 21988831
-
Orth JD, Conrad TM, Na J, Lerman JA, Nam H, Feist AM, Palsson BO. A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011. Mol Syst Biol 2011, 7:535. 3261703, 21988831.
-
(2011)
Mol Syst Biol
, vol.7
, pp. 535
-
-
Orth, J.D.1
Conrad, T.M.2
Na, J.3
Lerman, J.A.4
Nam, H.5
Feist, A.M.6
Palsson, B.O.7
-
44
-
-
78650595350
-
Improving the iMM904 S. cerevisiae metabolic model using essentiality and synthetic lethality data
-
10.1186/1752-0509-4-178, 3023687, 21190580
-
Zomorrodi AR, Maranas CD. Improving the iMM904 S. cerevisiae metabolic model using essentiality and synthetic lethality data. BMC Syst Biol 2010, 4:178. 10.1186/1752-0509-4-178, 3023687, 21190580.
-
(2010)
BMC Syst Biol
, vol.4
, pp. 178
-
-
Zomorrodi, A.R.1
Maranas, C.D.2
-
45
-
-
72849182812
-
A requirement for sodium in the growth of Rhodopseudomonas spheroides
-
10.1099/00221287-22-3-778, 14447230
-
Sistrom WR. A requirement for sodium in the growth of Rhodopseudomonas spheroides. J Gen Microbiol 1960, 22:778-785. 10.1099/00221287-22-3-778, 14447230.
-
(1960)
J Gen Microbiol
, vol.22
, pp. 778-785
-
-
Sistrom, W.R.1
-
46
-
-
58349122104
-
Overcoming the anaerobic hurdle in phenotypic microarrays: generation and visualization of growth curve data for Desulfovibrio vulgaris Hildenborough
-
10.1016/j.mimet.2008.10.003, 18996155
-
Borglin S, Joyner D, Jacobsen J, Mukhopadhyay A, Hazen TC. Overcoming the anaerobic hurdle in phenotypic microarrays: generation and visualization of growth curve data for Desulfovibrio vulgaris Hildenborough. J Microbiol Methods 2009, 76(2):159-168. 10.1016/j.mimet.2008.10.003, 18996155.
-
(2009)
J Microbiol Methods
, vol.76
, Issue.2
, pp. 159-168
-
-
Borglin, S.1
Joyner, D.2
Jacobsen, J.3
Mukhopadhyay, A.4
Hazen, T.C.5
-
47
-
-
0021971186
-
A new medium for the enumeration and subculture of bacteria from potable water
-
238333, 3883894
-
Reasoner DJ, Geldreich EE. A new medium for the enumeration and subculture of bacteria from potable water. Appl Environ Microbiol 1985, 49(1):1-7. 238333, 3883894.
-
(1985)
Appl Environ Microbiol
, vol.49
, Issue.1
, pp. 1-7
-
-
Reasoner, D.J.1
Geldreich, E.E.2
-
48
-
-
0028289983
-
Small mobilizable multi-purpose cloning vectors derived from the Escherichia coli plasmids pK18 and pK19: selection of defined deletions in the chromosome of Corynebacterium glutamicum
-
10.1016/0378-1119(94)90324-7, 8045426
-
Schafer A, Tauch A, Jager W, Kalinowski J, Thierbach G, Puhler A. Small mobilizable multi-purpose cloning vectors derived from the Escherichia coli plasmids pK18 and pK19: selection of defined deletions in the chromosome of Corynebacterium glutamicum. Gene 1994, 145(1):69-73. 10.1016/0378-1119(94)90324-7, 8045426.
-
(1994)
Gene
, vol.145
, Issue.1
, pp. 69-73
-
-
Schafer, A.1
Tauch, A.2
Jager, W.3
Kalinowski, J.4
Thierbach, G.5
Puhler, A.6
-
49
-
-
22544463928
-
Identification of genes required for recycling reducing power during photosynthetic growth
-
10.1128/JB.187.15.5249-5258.2005, 1196016, 16030219
-
Tavano CL, Podevels AM, Donohue TJ. Identification of genes required for recycling reducing power during photosynthetic growth. J Bacteriol 2005, 187(15):5249-5258. 10.1128/JB.187.15.5249-5258.2005, 1196016, 16030219.
-
(2005)
J Bacteriol
, vol.187
, Issue.15
, pp. 5249-5258
-
-
Tavano, C.L.1
Podevels, A.M.2
Donohue, T.J.3
-
50
-
-
0035710746
-
Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method
-
10.1006/meth.2001.1262, 11846609
-
Livak KJ, Schmittgen TD. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods 2001, 25(4):402-408. 10.1006/meth.2001.1262, 11846609.
-
(2001)
Methods
, vol.25
, Issue.4
, pp. 402-408
-
-
Livak, K.J.1
Schmittgen, T.D.2
-
51
-
-
0028108519
-
Metabolic flux balancing: basic concepts, scientific and practical use
-
Varma A, Palsson BO. Metabolic flux balancing: basic concepts, scientific and practical use. Nat Biotechnol 1994, 12:994-998.
-
(1994)
Nat Biotechnol
, vol.12
, pp. 994-998
-
-
Varma, A.1
Palsson, B.O.2
-
52
-
-
1642457253
-
The effects of alternate optimal solutions in constraint-based genome-scale metabolic models
-
10.1016/j.ymben.2003.09.002, 14642354
-
Mahadevan R, Schilling CH. The effects of alternate optimal solutions in constraint-based genome-scale metabolic models. Metab Eng 2003, 5(4):264-276. 10.1016/j.ymben.2003.09.002, 14642354.
-
(2003)
Metab Eng
, vol.5
, Issue.4
, pp. 264-276
-
-
Mahadevan, R.1
Schilling, C.H.2
-
53
-
-
0034661295
-
Recursive MILP model for finding all the alternate optima in LP models for metabolic networks
-
Lee S, Phalakornkule C, Domach MM, Grossmann IE. Recursive MILP model for finding all the alternate optima in LP models for metabolic networks. Computers & Chemical Engineering 2000, 24(2-7):711-716.
-
(2000)
Computers & Chemical Engineering
, vol.24
, Issue.2-7
, pp. 711-716
-
-
Lee, S.1
Phalakornkule, C.2
Domach, M.M.3
Grossmann, I.E.4
-
54
-
-
4644220226
-
Genome-scale in silico models of E. coli have multiple equivalent phenotypic states: assessment of correlated reaction subsets that comprise network states
-
10.1101/gr.2546004, 515326, 15342562
-
Reed JL, Palsson BO. 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(9):1797-1805. 10.1101/gr.2546004, 515326, 15342562.
-
(2004)
Genome Res
, vol.14
, Issue.9
, pp. 1797-1805
-
-
Reed, J.L.1
Palsson, B.O.2
-
55
-
-
70049110173
-
Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production
-
10.1371/journal.pcbi.1000489, 2726785, 19714220
-
Colijn C, Brandes A, Zucker J, Lun DS, Weiner B, Farhat MR, Cheng TY, Moody DB, Murray M, Galagan JE. Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production. PLoS Comput Biol 2009, 5(8):e1000489. 10.1371/journal.pcbi.1000489, 2726785, 19714220.
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.8
-
-
Colijn, C.1
Brandes, A.2
Zucker, J.3
Lun, D.S.4
Weiner, B.5
Farhat, M.R.6
Cheng, T.Y.7
Moody, D.B.8
Murray, M.9
Galagan, J.E.10
-
56
-
-
0036081062
-
The KEGG databases at GenomeNet
-
10.1093/nar/30.1.42, 99091, 11752249
-
Kanehisa M, Goto S, Kawashima S, Nakaya A. The KEGG databases at GenomeNet. Nucleic Acids Res 2002, 30(1):42-46. 10.1093/nar/30.1.42, 99091, 11752249.
-
(2002)
Nucleic Acids Res
, vol.30
, Issue.1
, pp. 42-46
-
-
Kanehisa, M.1
Goto, S.2
Kawashima, S.3
Nakaya, A.4
-
57
-
-
78651330012
-
BRENDA, the enzyme information system in 2011
-
Database issue, 3013686, 21062828
-
Scheer M, Grote A, Chang A, Schomburg I, Munaretto C, Rother M, Sohngen C, Stelzer M, Thiele J, Schomburg D. BRENDA, the enzyme information system in 2011. Nucleic Acids Res 2011, 39(Database issue):D670-D676. 3013686, 21062828.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Scheer, M.1
Grote, A.2
Chang, A.3
Schomburg, I.4
Munaretto, C.5
Rother, M.6
Sohngen, C.7
Stelzer, M.8
Thiele, J.9
Schomburg, D.10
-
58
-
-
0036081012
-
BRENDA, enzyme data and metabolic information
-
10.1093/nar/30.1.47, 99121, 11752250
-
Schomburg I, Chang A, Schomburg D. BRENDA, enzyme data and metabolic information. Nucleic Acids Res 2002, 30(1):47-49. 10.1093/nar/30.1.47, 99121, 11752250.
-
(2002)
Nucleic Acids Res
, vol.30
, Issue.1
, pp. 47-49
-
-
Schomburg, I.1
Chang, A.2
Schomburg, D.3
-
59
-
-
78651104413
-
Biotechnological potential of the ethylmalonyl-CoA pathway
-
10.1007/s00253-010-2873-z, 20882276
-
Alber BE. Biotechnological potential of the ethylmalonyl-CoA pathway. Appl Microbiol Biotechnol 2011, 89(1):17-25. 10.1007/s00253-010-2873-z, 20882276.
-
(2011)
Appl Microbiol Biotechnol
, vol.89
, Issue.1
, pp. 17-25
-
-
Alber, B.E.1
|