-
1
-
-
84867001704
-
Alliance launched to model E. coli
-
Holden C (2002) Alliance launched to model E. coli. Science 297.
-
(2002)
Science
, pp. 297
-
-
Holden, C.1
-
3
-
-
75149129569
-
A protocol for generating a high-quality genome-scale metabolic reconstruction
-
Thiele I, Palsson B.Ø., (2010) A protocol for generating a high-quality genome-scale metabolic reconstruction. Nature Protocols 5: 93-121.
-
(2010)
Nature Protocols
, vol.5
, pp. 93-121
-
-
Thiele, I.1
Palsson, B.Ø.2
-
4
-
-
77956696072
-
High-throughput generation, optimization and analysis of genome-scale metabolic models
-
Henry CS, DeJongh M, Best AA, Frybarger PM, Linsay B, et al. (2010) High-throughput generation, optimization and analysis of genome-scale metabolic models. Nature Biotechnology 28: 977-982.
-
(2010)
Nature Biotechnology
, vol.28
, pp. 977-982
-
-
Henry, C.S.1
DeJongh, M.2
Best, A.A.3
Frybarger, P.M.4
Linsay, B.5
-
5
-
-
34347332311
-
A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information
-
Feist AM, Henry CS, Reed JL, Krummenacker M, Joyce AR, et al. (2007) A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. Molecular Systems Biology 3.
-
(2007)
Molecular Systems Biology
, pp. 3
-
-
Feist, A.M.1
Henry, C.S.2
Reed, J.L.3
Krummenacker, M.4
Joyce, A.R.5
-
6
-
-
70349345898
-
Three-dimensional structural view of the central metabolic network of Thermotoga maritima
-
Zhang Y, Thiele I, Weekes D, Li Z, Jaroszewski L, et al. (2009) Three-dimensional structural view of the central metabolic network of Thermotoga maritima. Science 325: 1544-1549.
-
(2009)
Science
, vol.325
, pp. 1544-1549
-
-
Zhang, Y.1
Thiele, I.2
Weekes, D.3
Li, Z.4
Jaroszewski, L.5
-
7
-
-
84857137366
-
Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis
-
Nogales J, Gudmundsson S, Knight EM, Palsson BO, Thiele I, (2012) Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis. Proceedings of the National Academy of Sciences 109: 2678-2683.
-
(2012)
Proceedings of the National Academy of Sciences
, vol.109
, pp. 2678-2683
-
-
Nogales, J.1
Gudmundsson, S.2
Knight, E.M.3
Palsson, B.O.4
Thiele, I.5
-
8
-
-
78651467275
-
A community effort towards a knowledgebase and mathematical model of the human pathogen Salmonella typhimurium LT2
-
Thiele I, Hyduke DR, Steeb B, Fankam G, Allen DK, et al. (2011) A community effort towards a knowledgebase and mathematical model of the human pathogen Salmonella typhimurium LT2. BMC Systems Biology 5: 8.
-
(2011)
BMC Systems Biology
, vol.5
, pp. 8
-
-
Thiele, I.1
Hyduke, D.R.2
Steeb, B.3
Fankam, G.4
Allen, D.K.5
-
9
-
-
84859856422
-
A systems biology approach to drug targets in Pseudomonas aeruginosa biofilm
-
Sigurdsson G, Fleming RMT, Heinken A, Thiele I, (2012) A systems biology approach to drug targets in Pseudomonas aeruginosa biofilm. PloS One 7: e34337.
-
(2012)
PloS One
, vol.7
-
-
Sigurdsson, G.1
Fleming, R.M.T.2
Heinken, A.3
Thiele, I.4
-
10
-
-
41149163825
-
Genome-scale metabolic network analysis of the opportunistic pathogen Pseudomonas aeruginosa PAO1
-
Oberhardt MA, Puchalka J, Fryer KE, Martins dos Santos VA, Papin JA, (2008) Genome-scale metabolic network analysis of the opportunistic pathogen Pseudomonas aeruginosa PAO1. Journal of Bacteriology 190: 2790-2803.
-
(2008)
Journal of Bacteriology
, vol.190
, pp. 2790-2803
-
-
Oberhardt, M.A.1
Puchalka, J.2
Fryer, K.E.3
Martins dos Santos, V.A.4
Papin, J.A.5
-
11
-
-
79955718307
-
Exploring metabolic pathway reconstruction and genome-wide expression profiling in Lactobacillus reuteri to define functional probiotic features
-
Saulnier DM, Santos F, Roos S, Mistretta T, Spinler J, et al. (2011) Exploring metabolic pathway reconstruction and genome-wide expression profiling in Lactobacillus reuteri to define functional probiotic features. PloS One 6: e18783.
-
(2011)
PloS One
, vol.6
-
-
Saulnier, D.M.1
Santos, F.2
Roos, S.3
Mistretta, T.4
Spinler, J.5
-
12
-
-
23644452487
-
An expanded metabolic reconstruction of Helicobacter pylori (iIT341 GSM/GPR): An in silico genome-scale characterization of single and double deletion mutants
-
Thiele I, Vo TD, Price ND, Palsson B, (2005) An expanded metabolic reconstruction of Helicobacter pylori (iIT341 GSM/GPR): An in silico genome-scale characterization of single and double deletion mutants. Journal of Bacteriology 187: 5818-5830.
-
(2005)
Journal of Bacteriology
, vol.187
, pp. 5818-5830
-
-
Thiele, I.1
Vo, T.D.2
Price, N.D.3
Palsson, B.4
-
13
-
-
80051537012
-
Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism
-
Chang RL, Ghamsari L, Manichaikul A, Hom EFY, Balaji S, et al. (2011) Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism. Molecular Systems Biology 7.
-
(2011)
Molecular Systems Biology
, pp. 7
-
-
Chang, R.L.1
Ghamsari, L.2
Manichaikul, A.3
Hom, E.F.Y.4
Balaji, S.5
-
14
-
-
77957924740
-
A detailed genome-wide reconstruction of mouse metabolism based on human Recon 1
-
Sigurdsson MI, Jamshidi N, Steingrimsson E, Thiele I, Palsson B.Ø., (2010) A detailed genome-wide reconstruction of mouse metabolism based on human Recon 1. BMC Systems Biology 4: 140.
-
(2010)
BMC Systems Biology
, vol.4
, pp. 140
-
-
Sigurdsson, M.I.1
Jamshidi, N.2
Steingrimsson, E.3
Thiele, I.4
Palsson, B.Ø.5
-
15
-
-
53749085229
-
A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology
-
Herrgard MJ, Swainston N, Dobson P, Dunn WB, Arga KY, et al. (2008) A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology. Nature Biotechnology 26: 1155-1160.
-
(2008)
Nature Biotechnology
, vol.26
, pp. 1155-1160
-
-
Herrgard, M.J.1
Swainston, N.2
Dobson, P.3
Dunn, W.B.4
Arga, K.Y.5
-
16
-
-
33846910173
-
Global reconstruction of the human metabolic network based on genomic and bibliomic data
-
Duarte NC, Becker SA, Jamshidi N, Thiele I, Mo ML, et al. (2007) Global reconstruction of the human metabolic network based on genomic and bibliomic data. Proceedings of the National Academy of Sciences 104: 1777-1782.
-
(2007)
Proceedings of the National Academy of Sciences
, vol.104
, pp. 1777-1782
-
-
Duarte, N.C.1
Becker, S.A.2
Jamshidi, N.3
Thiele, I.4
Mo, M.L.5
-
17
-
-
15844387127
-
Candidate metabolic network states in human mitochondria: Impact of diabetes, ischemia, and diet
-
Thiele I, Price ND, Vo TD, Palsson B.Ø., (2005) Candidate metabolic network states in human mitochondria: Impact of diabetes, ischemia, and diet. Journal of Biological Chemistry 280: 11683-11695.
-
(2005)
Journal of Biological Chemistry
, vol.280
, pp. 11683-11695
-
-
Thiele, I.1
Price, N.D.2
Vo, T.D.3
Palsson, B.Ø.4
-
18
-
-
84858439602
-
Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods
-
Lewis NE, Nagarajan H, Palsson B.Ø., (2012) Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods. Nature Reviews Microbiology 10: 291-305.
-
(2012)
Nature Reviews Microbiology
, vol.10
, pp. 291-305
-
-
Lewis, N.E.1
Nagarajan, H.2
Palsson, B.Ø.3
-
19
-
-
45149111660
-
The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli
-
Feist AM, Palsson B.Ø., (2008) The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli. Nature Biotechnology 26: 659-667.
-
(2008)
Nature Biotechnology
, vol.26
, pp. 659-667
-
-
Feist, A.M.1
Palsson, B.Ø.2
-
21
-
-
0037406843
-
Thirteen years of building constraint-based in silico models of Escherichia coli
-
Reed JL, Palsson B.Ø., (2003) Thirteen years of building constraint-based in silico models of Escherichia coli. Journal of Bacteriology 185: 2692-2699.
-
(2003)
Journal of Bacteriology
, vol.185
, pp. 2692-2699
-
-
Reed, J.L.1
Palsson, B.Ø.2
-
22
-
-
80054069179
-
A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011
-
Orth JD, Conrad TM, Na J, Lerman JA, Nam H, et al. (2011) A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011. Molecular Systems Biology 7.
-
(2011)
Molecular Systems Biology
, pp. 7
-
-
Orth, J.D.1
Conrad, T.M.2
Na, J.3
Lerman, J.A.4
Nam, H.5
-
23
-
-
63549148162
-
Genome-scale reconstruction of E. coli's transcriptional and translational machinery: A knowledge-base, its mathematical formulation, and its functional characterization
-
Thiele I, Jamshidi N, Fleming RMT, Palsson B.Ø., (2009) Genome-scale reconstruction of E. coli's transcriptional and translational machinery: A knowledge-base, its mathematical formulation, and its functional characterization. PLoS Computational Biology 5: e1000312.
-
(2009)
PLoS Computational Biology
, vol.5
-
-
Thiele, I.1
Jamshidi, N.2
Fleming, R.M.T.3
Palsson, B.Ø.4
-
24
-
-
2342648924
-
Integrating high-throughput and computational data elucidates bacterial networks
-
Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson B.Ø., (2004) Integrating high-throughput and computational data elucidates bacterial networks. Nature 429: 92-96.
-
(2004)
Nature
, vol.429
, pp. 92-96
-
-
Covert, M.W.1
Knight, E.M.2
Reed, J.L.3
Herrgard, M.J.4
Palsson, B.Ø.5
-
25
-
-
51749113592
-
Integrating metabolic, transcriptional regulatory and signal transduction models in Escherichia coli
-
Covert MW, Xiao N, Chen TJ, Karr JR, (2008) Integrating metabolic, transcriptional regulatory and signal transduction models in Escherichia coli. Bioinformatics 24: 2044-2050.
-
(2008)
Bioinformatics
, vol.24
, pp. 2044-2050
-
-
Covert, M.W.1
Xiao, N.2
Chen, T.J.3
Karr, J.R.4
-
26
-
-
44949247269
-
Dynamic analysis of integrated signaling, metabolic, and regulatory networks
-
Lee JM, Gianchandani EP, Eddy JA, Papin JA, (2008) Dynamic analysis of integrated signaling, metabolic, and regulatory networks. PLoS Computational Biology 4: e1000086-e1000086.
-
(2008)
PLoS Computational Biology
, vol.4
-
-
Lee, J.M.1
Gianchandani, E.P.2
Eddy, J.A.3
Papin, J.A.4
-
27
-
-
8744310123
-
Codon usage bias from tRNA's point of view: redundancy, specialization, and efficient decoding for translation optimization
-
Rocha EPC, (2004) Codon usage bias from tRNA's point of view: redundancy, specialization, and efficient decoding for translation optimization. Genome research 14: 2279-2286.
-
(2004)
Genome Research
, vol.14
, pp. 2279-2286
-
-
Rocha, E.P.C.1
-
28
-
-
77952774546
-
Functional characterization of alternate optimal solutions of Escherichia coli's transcriptional and translational machinery
-
Thiele I, Fleming RMT, Bordbar A, Schellenberger J, Palsson B.Ø., (2010) Functional characterization of alternate optimal solutions of Escherichia coli's transcriptional and translational machinery. Biophysical Journal 98: 2072-2081.
-
(2010)
Biophysical Journal
, vol.98
, pp. 2072-2081
-
-
Thiele, I.1
Fleming, R.M.T.2
Bordbar, A.3
Schellenberger, J.4
Palsson, B.Ø.5
-
30
-
-
0042902833
-
The cog database: an updated version includes eukaryotes
-
Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, et al. (2003) The cog database: an updated version includes eukaryotes. BMC Bioinformatics 4: 41-41.
-
(2003)
BMC Bioinformatics
, vol.4
, pp. 41
-
-
Tatusov, R.L.1
Fedorova, N.D.2
Jackson, J.D.3
Jacobs, A.R.4
Kiryutin, B.5
-
31
-
-
25844495901
-
Parallel adaptive evolution cultures of Escherichia coli lead to convergent growth phenotypes with different gene expression states
-
Fong SS, Joyce AR, Palsson B.Ø., (2005) Parallel adaptive evolution cultures of Escherichia coli lead to convergent growth phenotypes with different gene expression states. Genome Research 15: 1365-1372.
-
(2005)
Genome Research
, vol.15
, pp. 1365-1372
-
-
Fong, S.S.1
Joyce, A.R.2
Palsson, B.Ø.3
-
32
-
-
31544450286
-
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection
-
Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Molecular Systems Biology 2: 2006.0008-2006.0008.
-
(2006)
Molecular Systems Biology
, vol.2
-
-
Baba, T.1
Ara, T.2
Hasegawa, M.3
Takai, Y.4
Okumura, Y.5
-
34
-
-
33644876210
-
Drugbank: a comprehensive resource for in silico drug discovery and exploration
-
Wishart DS, Knox C, Guo AC, Shrivastava S, Hassanali M, et al. (2006) Drugbank: a comprehensive resource for in silico drug discovery and exploration. Nucleic Acids Research 34: D668.
-
(2006)
Nucleic Acids Research
, vol.34
-
-
Wishart, D.S.1
Knox, C.2
Guo, A.C.3
Shrivastava, S.4
Hassanali, M.5
-
35
-
-
0035017810
-
Flux-balance analysis of mitochondrial energy metabolism: consequences of systemic stoichiometric constraints
-
Ramakrishna R, Edwards JS, McCulloch A, Palsson B.Ø., (2001) Flux-balance analysis of mitochondrial energy metabolism: consequences of systemic stoichiometric constraints. American Journal of Physiology- Regulatory, Integrative and Comparative Physiology 280: R695-R704.
-
(2001)
American Journal of Physiology- Regulatory, Integrative and Comparative Physiology
, vol.280
-
-
Ramakrishna, R.1
Edwards, J.S.2
McCulloch, A.3
Palsson, B.Ø.4
-
36
-
-
66149148317
-
Gene expression profiling and the use of genome-scale in silico models of Escherichia coli for analysis: providing context for content
-
Lewis NE, Cho BK, Knight EM, Palsson BO, (2009) Gene expression profiling and the use of genome-scale in silico models of Escherichia coli for analysis: providing context for content. Journal of bacteriology 191: 3437-3444.
-
(2009)
Journal of Bacteriology
, vol.191
, pp. 3437-3444
-
-
Lewis, N.E.1
Cho, B.K.2
Knight, E.M.3
Palsson, B.O.4
-
37
-
-
34547588704
-
Kaas: an automatic genome annotation and pathway reconstruction server
-
Moriya Y, Itoh M, Okuda S, Yoshizawa AC, Kanehisa M, (2007) Kaas: an automatic genome annotation and pathway reconstruction server. Nucleic Acids Research 35: W182-W185.
-
(2007)
Nucleic Acids Research
, vol.35
-
-
Moriya, Y.1
Itoh, M.2
Okuda, S.3
Yoshizawa, A.C.4
Kanehisa, M.5
-
38
-
-
38549126643
-
Kegg for linking genomes to life and the environment
-
Kanehisa M, Araki M, Goto S, Hattori M, Hirakawa M, et al. (2008) Kegg for linking genomes to life and the environment. Nucleic Acids Research 36: D480-D484.
-
(2008)
Nucleic Acids Research
, vol.36
-
-
Kanehisa, M.1
Araki, M.2
Goto, S.3
Hattori, M.4
Hirakawa, M.5
-
39
-
-
1542618322
-
Codon usage between genomes is constrained by genome-wide mutational processes
-
Chen SL, Lee W, Hottes AK, Shapiro L, McAdams HH, (2004) Codon usage between genomes is constrained by genome-wide mutational processes. Proceedings of the National Academy of Sciences of the United States of America 101: 3480-3485.
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, pp. 3480-3485
-
-
Chen, S.L.1
Lee, W.2
Hottes, A.K.3
Shapiro, L.4
McAdams, H.H.5
-
40
-
-
0035220937
-
A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes
-
Knight RD, Freeland SJ, Landweber LF, (2001) A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes. Genome Biology 2: research0010.
-
(2001)
Genome Biology
, vol.2
-
-
Knight, R.D.1
Freeland, S.J.2
Landweber, L.F.3
-
41
-
-
76749155783
-
The systemic imprint of growth and its uses in ecological (meta) genomics
-
Vieira-Silva S, Rocha EPC, (2010) The systemic imprint of growth and its uses in ecological (meta) genomics. PLoS Genetics 6: 1-15.
-
(2010)
PLoS Genetics
, vol.6
, pp. 1-15
-
-
Vieira-Silva, S.1
Rocha, E.P.C.2
-
42
-
-
58549108388
-
Reconstruction of biochemical networks in microbial organisms
-
Feist AM, Herrgard MJ, Thiele I, Reed JL, Palsson B.Ø., (2009) Reconstruction of biochemical networks in microbial organisms. Nature Reviews Microbiology 7: 129-143.
-
(2009)
Nature Reviews Microbiology
, vol.7
, pp. 129-143
-
-
Feist, A.M.1
Herrgard, M.J.2
Thiele, I.3
Reed, J.L.4
Palsson, B.Ø.5
-
44
-
-
80055029470
-
The evolution of metabolic networks of E. coli
-
Baumler D, Peplinski R, Reed J, Glasner J, Perna N, (2011) The evolution of metabolic networks of E. coli. BMC Systems Biology 5: 182.
-
(2011)
BMC Systems Biology
, vol.5
, pp. 182
-
-
Baumler, D.1
Peplinski, R.2
Reed, J.3
Glasner, J.4
Perna, N.5
-
45
-
-
65649105134
-
Constraint-based analysis of metabolic capacity of Salmonella typhimurium during host-pathogen interaction
-
Raghunathan A, Reed J, Shin S, Palsson BO, Daefler S, (2009) Constraint-based analysis of metabolic capacity of Salmonella typhimurium during host-pathogen interaction. BMC Systems Biology 3: 38.
-
(2009)
BMC Systems Biology
, vol.3
, pp. 38
-
-
Raghunathan, A.1
Reed, J.2
Shin, S.3
Palsson, B.O.4
Daefler, S.5
-
46
-
-
79952789318
-
An experimentally validated genomescale metabolic reconstruction of Klebsiella pneumoniae MGH 78578, iYL1228
-
Liao YC, Huang TW, Chen FC, Charusanti P, Hong JSJ, et al. (2011) An experimentally validated genomescale metabolic reconstruction of Klebsiella pneumoniae MGH 78578, iYL1228. Journal of Bacteriology 193: 1710-1717.
-
(2011)
Journal of Bacteriology
, vol.193
, pp. 1710-1717
-
-
Liao, Y.C.1
Huang, T.W.2
Chen, F.C.3
Charusanti, P.4
Hong, J.S.J.5
-
47
-
-
57549101206
-
Bacteria as computers making computers
-
Danchin A, (2009) Bacteria as computers making computers. FEMS Microbiology Reviews 33: 3-26.
-
(2009)
FEMS Microbiology Reviews
, vol.33
, pp. 3-26
-
-
Danchin, A.1
-
48
-
-
80052031934
-
Systems-biology approaches for predicting genomic evolution
-
Papp B, Notebaart R, Pál C, (2011) Systems-biology approaches for predicting genomic evolution. Nature Reviews Genetics 12: 591-602.
-
(2011)
Nature Reviews Genetics
, vol.12
, pp. 591-602
-
-
Papp, B.1
Notebaart, R.2
Pál, C.3
-
50
-
-
0000640710
-
Modulation of chemical composition and other parameters of the cell by growth rate
-
In: Neidhardt FC, editor Washington, D.C.: ASM Press. 2nd edition, p. Chapter 97
-
Bremer H, Dennis PP (1996) Modulation of chemical composition and other parameters of the cell by growth rate. In: Neidhardt FC, editor, Escherichia coli and Salmonella: Cellular and Molecular Biology, Washington, D.C.: ASM Press. 2nd edition, p. Chapter 97.
-
(1996)
Escherichia coli and Salmonella: Cellular and Molecular Biology
-
-
Bremer, H.1
Dennis, P.P.2
-
51
-
-
33847687878
-
An environmental signature for 323 microbial genomes based on codon adaptation indices
-
Willenbrock H, Friis C, Juncker A, Ussery D, (2006) An environmental signature for 323 microbial genomes based on codon adaptation indices. Genome Biology 7: R114.
-
(2006)
Genome Biology
, vol.7
-
-
Willenbrock, H.1
Friis, C.2
Juncker, A.3
Ussery, D.4
-
52
-
-
27344446707
-
Over expression of a tRNALeu isoacceptor changes charging pattern of leucine tRNAs and reveals new codon reading
-
Sorensen MA, Elf J, Bouakaz E, Tenson T, Sanyal S, et al. (2005) Over expression of a tRNALeu isoacceptor changes charging pattern of leucine tRNAs and reveals new codon reading. Journal of molecular biology 354: 16-24.
-
(2005)
Journal of Molecular Biology
, vol.354
, pp. 16-24
-
-
Sorensen, M.A.1
Elf, J.2
Bouakaz, E.3
Tenson, T.4
Sanyal, S.5
-
53
-
-
78650304100
-
Synonymous but not the same: the causes and consequences of codon bias
-
Plotkin JB, Kudla G, (2011) Synonymous but not the same: the causes and consequences of codon bias. Nature Reviews Genetics 12: 32-42.
-
(2011)
Nature Reviews Genetics
, vol.12
, pp. 32-42
-
-
Plotkin, J.B.1
Kudla, G.2
-
55
-
-
0025941139
-
The selection-mutation-drift theory of synonymous codon usage
-
Bulmer M, (1991) The selection-mutation-drift theory of synonymous codon usage. Genetics 129: 897.
-
(1991)
Genetics
, vol.129
, pp. 897
-
-
Bulmer, M.1
-
57
-
-
0038179369
-
Selective charging of tRNA isoacceptors explains patterns of codon usage
-
Elf J, Nilsson D, Tenson T, Ehrenberg M, (2003) Selective charging of tRNA isoacceptors explains patterns of codon usage. Science 300: 1718-1721.
-
(2003)
Science
, vol.300
, pp. 1718-1721
-
-
Elf, J.1
Nilsson, D.2
Tenson, T.3
Ehrenberg, M.4
-
58
-
-
58149354386
-
Protein material costs: single atoms can make an evolutionary difference
-
Bragg JG, Wagner A, (2009) Protein material costs: single atoms can make an evolutionary difference. Trends in Genetics 25: 5-8.
-
(2009)
Trends in Genetics
, vol.25
, pp. 5-8
-
-
Bragg, J.G.1
Wagner, A.2
-
59
-
-
79551662521
-
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0
-
Schellenberger J, Que R, Fleming RMT, Thiele I, Orth JD, et al. (2011) Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0. Nature Protocols 6: 1290-1307.
-
(2011)
Nature Protocols
, vol.6
, pp. 1290-1307
-
-
Schellenberger, J.1
Que, R.2
Fleming, R.M.T.3
Thiele, I.4
Orth, J.D.5
-
60
-
-
6944256505
-
The E. coli ecocyc database: No longer just a metabolic pathway database
-
Karp PD, Arnaud M, Collado-Vides J, Ingraham J, Paulsen IT, et al. (2004) The E. coli ecocyc database: No longer just a metabolic pathway database. ASM News 70.
-
(2004)
ASM News
, pp. 70
-
-
Karp, P.D.1
Arnaud, M.2
Collado-Vides, J.3
Ingraham, J.4
Paulsen, I.T.5
-
61
-
-
31544443526
-
Escherichia coli K-12: a cooperatively developed annotation snapshot-2005
-
Riley M, Abe T, Arnaud MB, Berlyn MK, Blattner FR, et al. (2006) Escherichia coli K-12: a cooperatively developed annotation snapshot-2005. Nucleic Acids Research 34.
-
(2006)
Nucleic Acids Research
, pp. 34
-
-
Riley, M.1
Abe, T.2
Arnaud, M.B.3
Berlyn, M.K.4
Blattner, F.R.5
-
62
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner FR, Plunkett G, Bloch CA, Perna NT, Burland V, et al. (1997) The complete genome sequence of Escherichia coli K-12. Science 277: 1453-1474.
-
(1997)
Science
, vol.277
, pp. 1453-1474
-
-
Blattner, F.R.1
Plunkett, G.2
Bloch, C.A.3
Perna, N.T.4
Burland, V.5
-
63
-
-
0036073165
-
Shannon information theoretic computation of synonymous codon usage biases in coding regions of human and mouse genomes
-
Zeeberg B, (2002) Shannon information theoretic computation of synonymous codon usage biases in coding regions of human and mouse genomes. Genome research 12: 944-955.
-
(2002)
Genome Research
, vol.12
, pp. 944-955
-
-
Zeeberg, B.1
-
64
-
-
33751567092
-
Experimental and computational assessment of conditionally essential genes in Escherichia coli
-
Joyce AR, Reed JL, White A, Edwards R, Osterman A, et al. (2006) Experimental and computational assessment of conditionally essential genes in Escherichia coli. Journal of Bacteriology 188.
-
(2006)
Journal of Bacteriology
, pp. 188
-
-
Joyce, A.R.1
Reed, J.L.2
White, A.3
Edwards, R.4
Osterman, A.5
-
65
-
-
0022429084
-
Structure of ribosome-bound messenger RNA as revealed by enzymatic accessibility studies
-
Kang CW, Cantor CR, (1985) Structure of ribosome-bound messenger RNA as revealed by enzymatic accessibility studies. Journal of Molecular Biology 181: 241-251.
-
(1985)
Journal of Molecular Biology
, vol.181
, pp. 241-251
-
-
Kang, C.W.1
Cantor, C.R.2
-
66
-
-
0037338711
-
Trigger factor and DnaK possess overlapping substrate pools and binding specificities
-
Deuerling E, Patzelt H, Vorderwulbecke S, Rauch T, Kramer G, et al. (2003) Trigger factor and DnaK possess overlapping substrate pools and binding specificities. Molecular Microbiology 47: 1317-1328.
-
(2003)
Molecular Microbiology
, vol.47
, pp. 1317-1328
-
-
Deuerling, E.1
Patzelt, H.2
Vorderwulbecke, S.3
Rauch, T.4
Kramer, G.5
-
67
-
-
22744447508
-
Proteome-wide analysis of chaperonindependent protein folding in Escherichia coli
-
Kerner MJ, Naylor DJ, Ishihama Y, Maier T, Chang HC, et al. (2005) Proteome-wide analysis of chaperonindependent protein folding in Escherichia coli. Cell 122: 209-220.
-
(2005)
Cell
, vol.122
, pp. 209-220
-
-
Kerner, M.J.1
Naylor, D.J.2
Ishihama, Y.3
Maier, T.4
Chang, H.C.5
|