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Items: 1 to 50 of 53

1.

Delving deeper: Relating the behaviour of a metabolic system to the properties of its components using symbolic metabolic control analysis.

Christensen CD, Hofmeyr JS, Rohwer JM.

PLoS One. 2018 Nov 28;13(11):e0207983. doi: 10.1371/journal.pone.0207983. eCollection 2018.

2.

STRENDA DB: enabling the validation and sharing of enzyme kinetics data.

Swainston N, Baici A, Bakker BM, Cornish-Bowden A, Fitzpatrick PF, Halling P, Leyh TS, O'Donovan C, Raushel FM, Reschel U, Rohwer JM, Schnell S, Schomburg D, Tipton KF, Tsai MD, Westerhoff HV, Wittig U, Wohlgemuth R, Kettner C.

FEBS J. 2018 Jun;285(12):2193-2204. doi: 10.1111/febs.14427. Epub 2018 Mar 23.

PMID:
29498804
3.

PySCeSToolbox: a collection of metabolic pathway analysis tools.

Christensen CD, Hofmeyr JS, Rohwer JM.

Bioinformatics. 2018 Jan 1;34(1):124-125. doi: 10.1093/bioinformatics/btx567.

PMID:
28968872
4.

Quantitative measures for redox signaling.

Pillay CS, Eagling BD, Driscoll SR, Rohwer JM.

Free Radic Biol Med. 2016 Jul;96:290-303. doi: 10.1016/j.freeradbiomed.2016.04.199. Epub 2016 May 2. Review.

PMID:
27151506
5.

Tracing regulatory routes in metabolism using generalised supply-demand analysis.

Christensen CD, Hofmeyr JH, Rohwer JM.

BMC Syst Biol. 2015 Dec 3;9:89. doi: 10.1186/s12918-015-0236-1.

6.

The glutaredoxin mono- and di-thiol mechanisms for deglutathionylation are functionally equivalent: implications for redox systems biology.

Mashamaite LN, Rohwer JM, Pillay CS.

Biosci Rep. 2015 Feb 25;35(1). pii: e00173. doi: 10.1042/BSR20140157.

7.

Deoxyxylulose 5-Phosphate Synthase Controls Flux through the Methylerythritol 4-Phosphate Pathway in Arabidopsis.

Wright LP, Rohwer JM, Ghirardo A, Hammerbacher A, Ortiz-Alcaide M, Raguschke B, Schnitzler JP, Gershenzon J, Phillips MA.

Plant Physiol. 2014 Aug;165(4):1488-1504. Epub 2014 Jul 1.

8.

Incorporating covalent and allosteric effects into rate equations: the case of muscle glycogen synthase.

Palm DC, Rohwer JM, Hofmeyr JH.

Biochem J. 2014 Sep 15;462(3):525-37. doi: 10.1042/BJ20140196.

PMID:
24969542
9.

Applications of kinetic modeling to plant metabolism.

Rohwer JM.

Methods Mol Biol. 2014;1083:275-86. doi: 10.1007/978-1-62703-661-0_16.

PMID:
24218221
10.

Potency of progestogens used in hormonal therapy: toward understanding differential actions.

Hapgood JP, Africander D, Louw R, Ray RM, Rohwer JM.

J Steroid Biochem Mol Biol. 2014 Jul;142:39-47. doi: 10.1016/j.jsbmb.2013.08.001. Epub 2013 Aug 14. Review.

PMID:
23954501
11.

A generic rate equation for catalysed, template-directed polymerisation.

Hofmeyr JH, Gqwaka OP, Rohwer JM.

FEBS Lett. 2013 Sep 2;587(17):2868-75. doi: 10.1016/j.febslet.2013.07.011. Epub 2013 Jul 12.

12.

Impact of glucocorticoid receptor density on ligand-independent dimerization, cooperative ligand-binding and basal priming of transactivation: a cell culture model.

Robertson S, Rohwer JM, Hapgood JP, Louw A.

PLoS One. 2013 May 22;8(5):e64831. doi: 10.1371/journal.pone.0064831. Print 2013.

13.

From top-down to bottom-up: computational modeling approaches for cellular redoxin networks.

Pillay CS, Hofmeyr JH, Mashamaite LN, Rohwer JM.

Antioxid Redox Signal. 2013 Jun 1;18(16):2075-86. doi: 10.1089/ars.2012.4771. Epub 2013 Feb 4. Review.

PMID:
23249367
14.

Regulation of glycogen synthase from mammalian skeletal muscle--a unifying view of allosteric and covalent regulation.

Palm DC, Rohwer JM, Hofmeyr JH.

FEBS J. 2013 Jan;280(1):2-27. doi: 10.1111/febs.12059. Epub 2012 Dec 6. Review.

15.

Reuteran and levan as carbohydrate sinks in transgenic sugarcane.

Bauer R, Basson CE, Bekker J, Eduardo I, Rohwer JM, Uys L, van Wyk JH, Kossmann J.

Planta. 2012 Dec;236(6):1803-15. doi: 10.1007/s00425-012-1731-x. Epub 2012 Aug 19.

PMID:
22903192
16.

From steady-state to synchronized yeast glycolytic oscillations I: model construction.

du Preez FB, van Niekerk DD, Kooi B, Rohwer JM, Snoep JL.

FEBS J. 2012 Aug;279(16):2810-22. doi: 10.1111/j.1742-4658.2012.08665.x. Epub 2012 Jul 9.

17.

Kinetic modelling of plant metabolic pathways.

Rohwer JM.

J Exp Bot. 2012 Mar;63(6):2275-92. doi: 10.1093/jxb/ers080. Epub 2012 Mar 14. Review.

PMID:
22419742
18.

Determining enzyme kinetics for systems biology with nuclear magnetic resonance spectroscopy.

Eicher JJ, Snoep JL, Rohwer JM.

Metabolites. 2012 Nov 6;2(4):818-43. doi: 10.3390/metabo2040818.

19.

Supply-demand analysis a framework for exploring the regulatory design of metabolism.

Hofmeyr JH, Rohwer JM.

Methods Enzymol. 2011;500:533-54. doi: 10.1016/B978-0-12-385118-5.00025-6.

PMID:
21943913
20.

The logic of kinetic regulation in the thioredoxin system.

Pillay CS, Hofmeyr JH, Rohwer JM.

BMC Syst Biol. 2011 Jan 25;5:15. doi: 10.1186/1752-0509-5-15.

21.

Kinetic and thermodynamic aspects of enzyme control and regulation.

Rohwer JM, Hofmeyr JH.

J Phys Chem B. 2010 Dec 16;114(49):16280-9. doi: 10.1021/jp108412s. Epub 2010 Oct 28.

PMID:
21028763
22.

Network analysis of enzyme activities and metabolite levels and their relationship to biomass in a large panel of Arabidopsis accessions.

Sulpice R, Trenkamp S, Steinfath M, Usadel B, Gibon Y, Witucka-Wall H, Pyl ET, Tschoep H, Steinhauser MC, Guenther M, Hoehne M, Rohwer JM, Altmann T, Fernie AR, Stitt M.

Plant Cell. 2010 Aug;22(8):2872-93. doi: 10.1105/tpc.110.076653. Epub 2010 Aug 10.

23.

Control of specific growth rate in Saccharomyces cerevisiae.

Snoep JL, Mrwebi M, Schuurmans JM, Rohwer JM, Teixeira de Mattos MJ.

Microbiology. 2009 May;155(Pt 5):1699-707. doi: 10.1099/mic.0.023119-0. Epub 2009 Apr 9.

PMID:
19359324
24.

Enzymes or redox couples? The kinetics of thioredoxin and glutaredoxin reactions in a systems biology context.

Pillay CS, Hofmeyr JH, Olivier BG, Snoep JL, Rohwer JM.

Biochem J. 2009 Jan 1;417(1):269-75. doi: 10.1042/BJ20080690.

PMID:
18694397
25.

Identifying and characterising regulatory metabolites with generalised supply-demand analysis.

Rohwer JM, Hofmeyr JH.

J Theor Biol. 2008 Jun 7;252(3):546-54. Epub 2007 Nov 1.

PMID:
18068730
26.

Kinetic model of sucrose accumulation in maturing sugarcane culm tissue.

Uys L, Botha FC, Hofmeyr JH, Rohwer JM.

Phytochemistry. 2007 Aug-Sep;68(16-18):2375-92. Epub 2007 Jun 6.

PMID:
17555779
27.

Is there an optimal ribosome concentration for maximal protein production?

Snoep JL, Westerhoff HV, Rohwer JM, Hofmeyr JH.

Syst Biol (Stevenage). 2006 Sep;153(5):398-400.

PMID:
16986326
28.

Software tools that facilitate kinetic modelling with large data sets: an example using growth modelling in sugarcane.

Uys L, Hofmeyr JH, Snoep JL, Rohwer JM.

Syst Biol (Stevenage). 2006 Sep;153(5):385-9.

PMID:
16986323
29.

Experimental evidence for allosteric modifier saturation as predicted by the bi-substrate Hill equation.

Hanekom AJ, Hofmeyr JH, Snoep JL, Rohwer JM.

Syst Biol (Stevenage). 2006 Sep;153(5):342-5.

PMID:
16986313
30.

Evaluation of a simplified generic bi-substrate rate equation for computational systems biology.

Rohwer JM, Hanekom AJ, Crous C, Snoep JL, Hofmeyr JH.

Syst Biol (Stevenage). 2006 Sep;153(5):338-41.

PMID:
16986312
31.

Comparing the regulatory behaviour of two cooperative, reversible enzyme mechanisms.

Olivier BG, Rohwer JM, Snoep JL, Hofmeyr JH.

Syst Biol (Stevenage). 2006 Sep;153(5):335-7.

PMID:
16986311
32.

Conditions for effective allosteric feedforward and feedback in metabolic pathways.

Hofmeyr JH, Rohwer JM, Snoep JL.

Syst Biol (Stevenage). 2006 Sep;153(5):327-31.

PMID:
16986309
33.

Summation theorems for flux and concentration control coefficients of dynamic systems.

Conradie R, Westerhoff HV, Rohwer JM, Hofmeyr JH, Snoep JL.

Syst Biol (Stevenage). 2006 Sep;153(5):314-7.

PMID:
16986306
34.

12th BTK meeting: 'Systems Biology: redefining BioThermoKinetics'.

Snoep JL, Rohwer JM, Hofmeyr JH.

Syst Biol (Stevenage). 2006 Sep;153(5):312-3. No abstract available.

PMID:
16986305
35.

Partial purification and characterisation of sucrose synthase in sugarcane.

Schäfer WE, Rohwer JM, Botha FC.

J Plant Physiol. 2005 Jan;162(1):11-20.

PMID:
15700416
36.

A kinetic study of sugarcane sucrose synthase.

Schäfer WE, Rohwer JM, Botha FC.

Eur J Biochem. 2004 Oct;271(20):3971-7.

37.

Modelling cellular systems with PySCeS.

Olivier BG, Rohwer JM, Hofmeyr JH.

Bioinformatics. 2005 Feb 15;21(4):560-1. Epub 2004 Sep 28.

PMID:
15454409
38.

Protein-level expression and localization of sucrose synthase in the sugarcane culm.

Schäfer WE, Rohwer JM, Botha FC.

Physiol Plant. 2004 Jun;121(2):187-195.

PMID:
15153185
39.

Modelling cellular processes with Python and Scipy.

Olivier BG, Rohwer JM, Hofmeyr JH.

Mol Biol Rep. 2002;29(1-2):249-54.

PMID:
12241066
40.

ThermoKinetic modelling. Membrane potential as a dependent variable in ion transport processes.

Rohwer JM, Kuchel PW, Maher AD.

Mol Biol Rep. 2002;29(1-2):217-25.

PMID:
12241061
41.

Experimental supply-demand analysis of anaerobic yeast energy metabolism.

Kroukamp O, Rohwer JM, Hofmeyr JH, Snoep JL.

Mol Biol Rep. 2002;29(1-2):203-9.

PMID:
12241058
42.

ECA: control in ecosystems.

Westerhoff HV, Getz WM, Bruggeman F, Hofmeyr JH, Rohwer JM, Snoep JL.

Mol Biol Rep. 2002;29(1-2):113-7.

PMID:
12241039
43.

How to distinguish between the vacuum cleaner and flippase mechanisms of the lmrA multi-drug transporter in Lactococcus lactis.

Hofmeyr JH, Rohwer JM, Snoep JL, Westerhoff HV, Konings WN.

Mol Biol Rep. 2002;29(1-2):107-12.

PMID:
12241038
44.

Metabolic control analysis of glycerol synthesis in Saccharomyces cerevisiae.

Cronwright GR, Rohwer JM, Prior BA.

Appl Environ Microbiol. 2002 Sep;68(9):4448-56.

45.
46.
47.

Subtleties in control by metabolic channelling and enzyme organization.

Kholodenko BN, Rohwer JM, Cascante M, Westerhoff HV.

Mol Cell Biochem. 1998 Jul;184(1-2):311-20.

PMID:
9746327
48.

Implications of macromolecular crowding for signal transduction and metabolite channeling.

Rohwer JM, Postma PW, Kholodenko BN, Westerhoff HV.

Proc Natl Acad Sci U S A. 1998 Sep 1;95(18):10547-52.

49.

Limits to inducer exclusion: inhibition of the bacterial phosphotransferase system by glycerol kinase.

Rohwer JM, Bader R, Westerhoff HV, Postma PW.

Mol Microbiol. 1998 Jul;29(2):641-52.

50.

How to recognize monofunctional units in a metabolic system.

Rohwer JM, Schuster S, Westerhoff HV.

J Theor Biol. 1996 Apr 7;179(3):213-28.

PMID:
8762334

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