-
1
-
-
34447523907
-
Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli
-
doi: 10.1038/msb4100162 PMID: 17625511
-
Schuetz R, Kuepfer L, Sauer U. Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli, Mol Syst Biol. 2007; 3:119. doi: 10.1038/msb4100162 PMID: 17625511.
-
(2007)
Mol Syst Biol
, vol.3
, Issue.119
-
-
Schuetz, R.1
Kuepfer, L.2
Sauer, U.3
-
2
-
-
70049110173
-
Interpreting expression data with metabolic flux models: Predicting mycobacterium tuberculosis mycolic acid production
-
Aug, PMID: 19714220
-
Colijn C, Brandes A, Zucker J, Lun DS, Weiner B, Farhat MR, et al. Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production, PLoS Comput Biol. 2009 Aug; 5(8):e1000489. doi: 10.1371/journal.pcbi.1000489 PMID: 19714220.
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.8
, pp. e1000489
-
-
Colijn, C.1
Brandes, A.2
Zucker, J.3
Lun, D.S.4
Weiner, B.5
Farhat, M.R.6
-
3
-
-
0028146781
-
Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia coli W3110
-
Oct, PMID: 7986045
-
Varma A, Palsson BØ. Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia coli W3110, Appl Environ Microbiol. 1994 Oct; 60:3724- 31. PMID: 7986045.
-
(1994)
Appl Environ Microbiol
, vol.60
, pp. 3724-3731
-
-
Varma, A.1
Palsson B.Ø.2
-
4
-
-
51349092391
-
Network-based prediction of human tissuespecific metabolism
-
Sep, PMID: 18711341
-
Shlomi T, Cabili MN, Herrgård MJ, Palsson BØ, Ruppin E. Network-based prediction of human tissuespecific metabolism, Nat Biotechnol. 2008 Sep; 26:1003-10. doi: 10.1038/nbt.1487 PMID: 18711341.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1003-1010
-
-
Shlomi, T.1
Cabili, M.N.2
Herrgård, M.J.3
Palsson B.Ø.4
Ruppin, E.5
-
5
-
-
84901306814
-
Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism
-
Apr, PMID: 24762745
-
Machado D, Herrgård M. Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism, PLoS Comput Biol. 2014 Apr; 10(4):e1003580. doi: 10.1371/journal.pcbi.1003580 PMID: 24762745.
-
(2014)
PLoS Comput Biol
, vol.10
, Issue.4
, pp. e1003580
-
-
Machado, D.1
Herrgård, M.2
-
6
-
-
24144473033
-
Genomic approach to identifying the putative target of and mechanisms of resistance to mefloquine in mycobacteria
-
Sep, PMID: 16127044
-
Danelishvili L, Wu M, Young LS, Bermudez LE. Genomic approach to identifying the putative target of and mechanisms of resistance to mefloquine in mycobacteria, Antimicrob Agents Chemother. 2005 Sep; 49(9):3707-14. doi: 10.1128/AAC.49.9.3707-3714.2005 PMID: 16127044.
-
(2005)
Antimicrob Agents Chemother
, vol.49
, Issue.9
, pp. 3707-3714
-
-
Danelishvili, L.1
Wu, M.2
Young, L.S.3
Bermudez, L.E.4
-
7
-
-
0345701347
-
Genes required for mycobacterial growth defined by high density mutagenesis
-
Apr, PMID: 12657046
-
Sassetti CM, Boyd DH, Rubin EJ. Genes required for mycobacterial growth defined by high density mutagenesis, Mol Microbiol. 2003 Apr; 48(1):77-84. doi: 10.1046/j.1365-2958.2003.03425.x PMID: 12657046.
-
(2003)
Mol Microbiol
, vol.48
, Issue.1
, pp. 77-84
-
-
Sassetti, C.M.1
Boyd, D.H.2
Rubin, E.J.3
-
8
-
-
4644223350
-
Prospects for new antitubercular drugs
-
Oct, PMID: 15451500
-
Duncan K, Barry CE. Prospects for new antitubercular drugs, Curr Opin Microbiol. 2004 Oct; 7:460-5doi: 10.1016/j.mib.2004.08.011 PMID: 15451500.
-
(2004)
Curr Opin Microbiol
, vol.7
-
-
Duncan, K.1
Barry, C.E.2
-
9
-
-
78149474564
-
Time-kill kinetics of anti-tuberculosis drugs, and emergence of resistance, in relation to metabolic activity of Mycobacterium tuberculosis
-
Dec, PMID: 20947621
-
de Steenwinkel JE, de Knegt GJ, ten Kate MT, van Belkum A, Verbrugh HA, Kremer K, et al. Time-kill kinetics of anti-tuberculosis drugs, and emergence of resistance, in relation to metabolic activity of Mycobacterium tuberculosis, J Antimicrob Chemother. 2010 Dec; 65(12):2582-9. doi: 10.1093/jac/dkq374 PMID: 20947621.
-
(2010)
J Antimicrob Chemother
, vol.65
, Issue.12
, pp. 2582-2589
-
-
Steenwinke De, J.E.1
Knegt De, G.J.2
Kate Ten, M.T.3
Belkum Van., A.4
Verbrugh, H.A.5
Kremer, K.6
-
10
-
-
84861149869
-
The surface proteome of Mycobacterium avium subsp hominissuis in the early stages of macrophage infection
-
May, PMID: 22392927
-
McNamara M, Tzeng SC, Maier C, Zhang L, Bermudez LE. The surface proteome of Mycobacterium avium subsp hominissuis in the early stages of macrophage infection, Infect Immun. 2012 May; 80 (5):1868-80. doi: 10.1128/IAI.06151-11 PMID: 22392927.
-
(2012)
Infect Immun
, vol.80
, Issue.5
, pp. 1868-1880
-
-
McNamara, M.1
Tzeng, S.C.2
Maier, C.3
Zhang, L.4
Bermudez, L.E.5
-
11
-
-
84888260768
-
Surface-exposed proteins of Mycobacteria and the role of Cu-Zn superoxide dismutase in macrophage and neutrophil survival
-
PMID: 24283571
-
McNamara M, Tzeng SC, Maier C, Wu M, Rose S, Bermudez LE. Surface-exposed proteins of Mycobacteria and the role of Cu-Zn superoxide dismutase in macrophage and neutrophil survival, Proteome Sci. 2013; 11:45. doi: 10.1186/1477-5956-11-45 PMID: 24283571.
-
(2013)
Proteome Sci
, vol.11
, Issue.45
-
-
McNamara, M.1
Tzeng, S.C.2
Maier, C.3
Wu, M.4
Rose, S.5
Bermudez, L.E.6
-
12
-
-
84941896635
-
Proteome software
-
Dec. Available
-
Proteome Software. Proteome Software Wikispaces-Proteomics. 2014 Dec. Available: http://proteome-software.wikispaces.com/Proteomics.
-
(2014)
Proteome Software Wikispaces-Proteomics
-
-
-
13
-
-
0032508046
-
Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence
-
Jun 11 PMID:9634230
-
Cole ST, Brosch R, Parkhill J, Garnier T, Churcher C, Harris D et al. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence, Nature. 1998 Jun 11; 393(6685):537-44doi:10.1038/31159PMID:9634230.
-
(1998)
Nature
, vol.393
, Issue.6685
, pp. 537-544
-
-
Cole, S.T.1
Brosch, R.2
Parkhill, J.3
Garnier, T.4
Churcher, C.5
Harris, D.6
-
14
-
-
77749320898
-
What is flux balance analysis?
-
Mar, PMID: 20212490
-
Orth JD, Thiele I, Palsson BØ, What is Flux Balance Analysis?, Nat Biotechnol. 2010 Mar; 28(3):245-8. doi: 10.1038/nbt.1614 PMID: 20212490.
-
(2010)
Nat Biotechnol
, vol.28
, Issue.3
, pp. 245-248
-
-
Orth, J.D.1
Thiele, I.2
Palsson, B.3
-
15
-
-
67449096729
-
Flux balance analysis of biological systems: Applications and challenges
-
Jul, PMID: 19287049
-
Raman K, Chandra N. Flux balance analysis of biological systems: Applications and challenges, Brief Bioinform. 2009 Jul; 10(4):435-49. doi: 10.1093/bib/bbp011 PMID: 19287049.
-
(2009)
Brief Bioinform.
, vol.10
, Issue.4
, pp. 435-449
-
-
Raman, K.1
Chandra, N.2
-
16
-
-
34548861262
-
GSMN-TB: A webbased genome scale network model of Mycobacterium tuberculosis metabolism
-
Jan,R89. PMID: 17521419
-
Beste DJ, Hooper T, Stewart G, Bonde B, Avignone-Rossa C, Bushell ME, et al. GSMN-TB: A webbased genome scale network model of Mycobacterium tuberculosis metabolism, Genome Biol. 2007 Jan; 8(5):R89. doi: 10.1186/gb-2007-8-5-r89 PMID: 17521419.
-
(2007)
Genome Biol
, vol.8
, Issue.5
-
-
Beste, D.J.1
Hooper, T.2
Stewart, G.3
Bonde, B.4
Avignone-Rossa, C.5
Bushell, M.E.6
-
17
-
-
12444346818
-
From annotated genomes to metabolic flux models and kinetic parameter fitting
-
Fall
-
Segrè D, Zucker J, Katz J, Lin X, D'haeseleer P, Rindone WP, et al. From annotated genomes to metabolic flux models and kinetic parameter fitting, OMICS. 2003 Fall; 7(3):301-16. doi: 10.1089/153623103322452413.
-
(2003)
OMICS
, vol.7
, Issue.3
, pp. 301-316
-
-
Segrè, D.1
Zucker, J.2
Katz, J.3
Lin, X.4
D'haeseleer, P.5
Rindone, W.P.6
-
18
-
-
78449291015
-
Predicting metabolic fluxes using gene expression differences as constraints
-
Jan-Mar,PMID: 21071808
-
van Berlo RJ, de Ridder D, Daran JM, Daran-Lapujade PA, Teusink B, Reinders MJ. Predicting metabolic fluxes using gene expression differences as constraints, IEEE/ACM Trans Comput Biol Bioinform. 2011 Jan-Mar; 8(1):206-16. doi: 10.1109/TCBB.2009.55 PMID: 21071808.
-
(2011)
IEEE/ACM Trans Comput Biol Bioinform
, vol.8
, Issue.1
, pp. 206-216
-
-
Van, B.R.J.1
De Ridder, D.2
Daran, J.M.3
Daran-Lapujade, P.A.4
Teusink, B.5
Reinders, M.J.6
-
19
-
-
79551582182
-
SurreyFBA: A command line tool and graphics user interface for constraint-based modeling of genome-scale metabolic reaction networks
-
2011 Feb, PMID: 21148545
-
Gevorgyan A, Bushell ME, Avignone-Rossa C, Kierzek AM. SurreyFBA: A command line tool and graphics user interface for constraint-based modeling of genome-scale metabolic reaction networks, Bioinformatics. 2011 Feb; 27(3):433-4. doi: 10.1093/bioinformatics/btq679 PMID: 21148545.
-
Bioinformatics
, vol.27
, Issue.3
, pp. 433-434
-
-
Gevorgyan, A.1
Bushell, M.E.2
Avignone-Rossa, C.3
Kierzek, A.M.4
-
20
-
-
84892991094
-
Software Applications for Flux Balance Analysis
-
Jan, PMID: 23131418
-
Lakshmanan M, Koh G, Chung BKS, Lee DY. Software Applications for Flux Balance Analysis, Brief Bioinform. 2014 Jan; 15(1):108-22. doi: 10.1093/bib/bbs069 PMID: 23131418.
-
(2014)
Brief Bioinform
, vol.15
, Issue.1
, pp. 108-122
-
-
Lakshmanan, M.1
Koh, G.2
Chung, B.K.S.3
Lee, D.Y.4
-
21
-
-
33847654799
-
Flux balance analysis of mycolic acid Pathway: Targets for anti-tubercular drugs
-
Oct, PMID: 16261191
-
Raman K, Rajagopalan P, Chandra N. Flux Balance Analysis of Mycolic Acid Pathway: Targets for Anti-Tubercular Drugs, PLoS Comput Biol. 2005 Oct; 1(5):e46. doi: 10.1371/journal.pcbi.0010046 PMID: 16261191.
-
(2005)
PLoS Comput Biol
, vol.1
, Issue.5
, pp. e46
-
-
Raman, K.1
Rajagopalan, P.2
Chandra, N.3
-
22
-
-
10744230452
-
The Mycobacterium tuberculosis ino1 gene is essential for growth and virulence
-
Feb, PMID: 14763976
-
Movahedzadeh F, Smith DA, Norman RA, Dinadayala P, Murray-Rust J, Russell DG, et al. The Mycobacterium tuberculosis ino1 gene is essential for growth and virulence, Mol Microbiol. 2004 Feb; 51 (4):1003-14. doi: 10.1046/j.1365-2958.2003.03900.x PMID: 14763976.
-
(2004)
Mol Microbiol
, vol.51
, Issue.4
, pp. 1003-1014
-
-
Movahedzadeh, F.1
Smith, D.A.2
Norman, R.A.3
Dinadayala, P.4
Murray-Rust, J.5
Russell, D.G.6
-
23
-
-
1642457253
-
The effects of alternate optimal solutions in constraint-based genomescale metabolic models
-
Oct, PMID: 14642354
-
Mahadevan R, Schilling CH. The effects of alternate optimal solutions in constraint-based genomescale metabolic models. Metab Eng. 2003 Oct; 5(4):264-76. doi: 10.1016/j.ymben.2003.09.002 PMID: 14642354.
-
(2003)
Metab Eng
, vol.5
, Issue.4
, pp. 264-276
-
-
Mahadevan, R.1
Schilling, C.H.2
-
24
-
-
4644220226
-
Genome-scale in silico models of E. Coli have multiple equivalent phenotypic states: Assessment of correlated reaction subsets that comprise network states
-
Sep, PMID: 15342562
-
Reed JL, Palsson BØ. 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 Sep; 14(9):1797-805. doi: 10.1101/gr.2546004 PMID: 15342562.
-
(2004)
Genome Res
, vol.14
, Issue.9
, pp. 1797-1805
-
-
Reed, J.L.1
Palsson B.Ø.2
-
25
-
-
79960444757
-
The transcriptional regulatory network of Mycobacterium tuberculosis
-
PMID: 21818301
-
Sanz J, Navarro J, Arbués A, Martín C, Marijuán PC, Moreno Y. The transcriptional regulatory network of Mycobacterium tuberculosis, PLoS One. 2011; 6(7):e22178. doi: 10.1371/journal.pone.0022178 PMID: 21818301.
-
(2011)
PLoS One
, vol.6
, Issue.7
, pp. e22178
-
-
Sanz, J.1
Navarro, J.2
Arbués, A.3
Martín, C.4
Marijuán, P.C.5
Moreno, Y.6
-
26
-
-
2342648924
-
Integrating high-throughput and computational data elucidates bacterial networks
-
2004 May 6, :, doi: 10.1038/nature02456 PMID: 15129285
-
Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson BO. Integrating high-throughput and computational data elucidates bacterial networks, Nature. 2004 May 6; 429(6987):92-6. doi: 10.1038/nature02456 PMID: 15129285.
-
Nature
, vol.429
, Issue.6987
, pp. 92-96
-
-
Covert, M.W.1
Knight, E.M.2
Reed, J.L.3
Herrgard, M.J.4
Palsson, B.O.5
-
27
-
-
0035824029
-
Regulation of gene expression in flux balance models of metabolism
-
Nov 7, :, doi: 10.1006/jtbi.2001.2405 PMID: 11708855
-
Covert MW, Schilling CH, Palsson B. Regulation of gene expression in flux balance models of metabolism, J Theor Biol. 2001 Nov 7; 213(1):73-88. doi: 10.1006/jtbi.2001.2405 PMID: 11708855.
-
(2001)
J Theor Biol
, vol.213
, Issue.1
, pp. 73-88
-
-
Covert, M.W.1
Schilling, C.H.2
Palsson, B.3
|