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Silence on the relevant literature and errors in implementation.

Bastiaens P, Birtwistle MR, Blüthgen N, Bruggeman FJ, Cho KH, Cosentino C, de la Fuente A, Hoek JB, Kiyatkin A, Klamt S, Kolch W, Legewie S, Mendes P, Naka T, Santra T, Sontag E, Westerhoff HV, Kholodenko BN.

Nat Biotechnol. 2015 Apr 7;33(4):336-9. doi: 10.1038/nbt.3185. No abstract available.


Diabetes mellitus in children and adolescents - a global epidemic which has become neglected.

Kiess W, Gorski T, Penke M, Klamt S, Kapellen TM.

J Pediatr Endocrinol Metab. 2015 Mar 1;28(3-4):247-50. doi: 10.1515/jpem-2015-0900. No abstract available.


T160-phosphorylated CDK2 defines threshold for HGF-dependent proliferation in primary hepatocytes.

Mueller S, Huard J, Waldow K, Huang X, D'Alessandro LA, Bohl S, Börner K, Grimm D, Klamt S, Klingmüller U, Schilling M.

Mol Syst Biol. 2015 Mar 14;11:795. doi: 10.15252/msb.20156032.


Cyanobacterial biofuels: new insights and strain design strategies revealed by computational modeling.

Erdrich P, Knoop H, Steuer R, Klamt S.

Microb Cell Fact. 2014 Sep 19;13:128. doi: 10.1186/s12934-014-0128-x.


The avian cell line AGE1.CR.pIX characterized by metabolic flux analysis.

Lohr V, Hädicke O, Genzel Y, Jordan I, Büntemeyer H, Klamt S, Reichl U.

BMC Biotechnol. 2014 Jul 30;14:72. doi: 10.1186/1472-6750-14-72.


A model integration approach linking signalling and gene-regulatory logic with kinetic metabolic models.

Ryll A, Bucher J, Bonin A, Bongard S, Gonçalves E, Saez-Rodriguez J, Niklas J, Klamt S.

Biosystems. 2014 Oct;124:26-38. doi: 10.1016/j.biosystems.2014.07.002. Epub 2014 Jul 23.


Complication and mortality rate after percutaneous endoscopic gastrostomy are low and indication-dependent.

Schneider AS, Schettler A, Markowski A, Luettig B, Kaufmann B, Klamt S, Lenzen H, Momma M, Seipt C, Lankisch T, Negm AA; *Conference presentation: 36th ESPEN Congress in Leipzig, Germany on August 31st – September 3rd, 2013.

Scand J Gastroenterol. 2014 Jul;49(7):891-8. doi: 10.3109/00365521.2014.916343. Epub 2014 Jun 4.


Enumeration of smallest intervention strategies in genome-scale metabolic networks.

von Kamp A, Klamt S.

PLoS Comput Biol. 2014 Jan;10(1):e1003378. doi: 10.1371/journal.pcbi.1003378. Epub 2014 Jan 2.


SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools.

Chaouiya C, Bérenguier D, Keating SM, Naldi A, van Iersel MP, Rodriguez N, Dräger A, Büchel F, Cokelaer T, Kowal B, Wicks B, Gonçalves E, Dorier J, Page M, Monteiro PT, von Kamp A, Xenarios I, de Jong H, Hucka M, Klamt S, Thieffry D, Le Novère N, Saez-Rodriguez J, Helikar T.

BMC Syst Biol. 2013 Dec 10;7:135. doi: 10.1186/1752-0509-7-135.


Comparison and improvement of algorithms for computing minimal cut sets.

Jungreuthmayer C, Nair G, Klamt S, Zanghellini J.

BMC Bioinformatics. 2013 Nov 6;14:318. doi: 10.1186/1471-2105-14-318.


In silico profiling of Escherichia coli and Saccharomyces cerevisiae as terpenoid factories.

Gruchattka E, Hädicke O, Klamt S, Schütz V, Kayser O.

Microb Cell Fact. 2013 Sep 23;12:84. doi: 10.1186/1475-2859-12-84.


Detecting and removing inconsistencies between experimental data and signaling network topologies using integer linear programming on interaction graphs.

Melas IN, Samaga R, Alexopoulos LG, Klamt S.

PLoS Comput Biol. 2013;9(9):e1003204. doi: 10.1371/journal.pcbi.1003204. Epub 2013 Sep 5.


Reconstruction of large-scale regulatory networks based on perturbation graphs and transitive reduction: improved methods and their evaluation.

Pinna A, Heise S, Flassig RJ, de la Fuente A, Klamt S.

BMC Syst Biol. 2013 Aug 8;7:73. doi: 10.1186/1752-0509-7-73.


Modeling approaches for qualitative and semi-quantitative analysis of cellular signaling networks.

Samaga R, Klamt S.

Cell Commun Signal. 2013 Jun 26;11(1):43. doi: 10.1186/1478-811X-11-43.


Evaluating differences of metabolic performances: statistical methods and their application to animal cell cultivations.

Hädicke O, Lohr V, Genzel Y, Reichl U, Klamt S.

Biotechnol Bioeng. 2013 Oct;110(10):2633-42. doi: 10.1002/bit.24926. Epub 2013 Apr 30.


Bridging the layers: towards integration of signal transduction, regulation and metabolism into mathematical models.

Gonçalves E, Bucher J, Ryll A, Niklas J, Mauch K, Klamt S, Rocha M, Saez-Rodriguez J.

Mol Biosyst. 2013 Jul;9(7):1576-83. doi: 10.1039/c3mb25489e. Epub 2013 Mar 25. Review.


An effective framework for reconstructing gene regulatory networks from genetical genomics data.

Flassig RJ, Heise S, Sundmacher K, Klamt S.

Bioinformatics. 2013 Jan 15;29(2):246-54. doi: 10.1093/bioinformatics/bts679. Epub 2012 Nov 21.


An integrative model links multiple inputs and signaling pathways to the onset of DNA synthesis in hepatocytes.

Huard J, Mueller S, Gilles ED, Klingmüller U, Klamt S.

FEBS J. 2012 Sep;279(18):3290-313. doi: 10.1111/j.1742-4658.2012.08572.x. Epub 2012 Apr 10.


Minimal cut sets in a metabolic network are elementary modes in a dual network.

Ballerstein K, von Kamp A, Klamt S, Haus UU.

Bioinformatics. 2012 Feb 1;28(3):381-7. doi: 10.1093/bioinformatics/btr674. Epub 2011 Dec 21.


Large-scale network models of IL-1 and IL-6 signalling and their hepatocellular specification.

Ryll A, Samaga R, Schaper F, Alexopoulos LG, Klamt S.

Mol Biosyst. 2011 Dec;7(12):3253-70. doi: 10.1039/c1mb05261f. Epub 2011 Oct 3.

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