Abstract (Expand)

In systems biology, one of the major tasks is to tailor model complexity to information content of the data. A useful model should describe the data and produce well-determined parameter estimates and ...

Authors: T. Maiwald, H. Hass, Bernhard Steiert, Joep Vanlier, R. Engesser, A. Raue, F. Kipkeew, H. H. Bock, D. Kaschek, C. Kreutz, Jens Timmer

Date Published: 3rd Sep 2016

Journal: PLoS One

Abstract (Expand)

Our understanding of the complex, transcriptional feedback loops in the circadian clock mechanism has depended upon quantitative, timeseries data from disparate sources. We measure clock gene RNA ...

Authors: A. Flis, A. P. Fernandez, T. Zielinski, V. Mengin, R. Sulpice, K. Stratford, A. Hume, A. Pokhilko, M. M. Southern, D. D. Seaton, H. G. McWatters, M. Stitt, K. J. Halliday, Andrew Millar

Date Published: 16th Oct 2015

Journal: Open Biol

Abstract (Expand)

Modeling of dynamical systems using ordinary differential equations is a popular approach in the field of systems biology. Two of the most critical steps in this approach are to construct dynamical ...

Authors: A. Raue, Bernhard Steiert, M. Schelker, C. Kreutz, T. Maiwald, H. Hass, J. Vanlier, Christian Tönsing, Lorenz Adlung, R. Engesser, W. Mader, T. Heinemann, J. Hasenauer, Marcel Schilling, T. Hofer, E. Klipp, F. Theis, U. Klingmuller, B. Schoberl, J. Timmer

Date Published: 3rd Jul 2015

Journal: Bioinformatics

Abstract (Expand)

Signaling pathways are characterized by crosstalk, feedback and feedforward mechanisms giving rise to highly complex and cell-context specific signaling networks. Dissecting the underlying relations ...

Authors: L. A. D'Alessandro, R. Samaga, T. Maiwald, S. H. Rho, S. Bonefas, A. Raue, N. Iwamoto, A. Kienast, K. Waldow, R. Meyer, Marcel Schilling, J. Timmer, S. Klamt, U. Klingmuller

Date Published: 23rd Apr 2015

Journal: PLoS Comput Biol

Abstract (Expand)

We previously demonstrated that leukemia cell lines expressing CD44 and hematopoietic progenitor cells (HPC) from umbilical cord blood (CB) showed rolling on hyaluronic acid (HA)-coated surfaces under ...

Authors: M. Hanke, I. Hoffmann, C. Christophis, M. Schubert, V. T. Hoang, A. Zepeda-Moreno, N. Baran, V. Eckstein, P. Wuchter, A. Rosenhahn, A. D. Ho

Date Published: 22nd Nov 2013

Journal: Biomaterials

Abstract (Expand)

In pathogenic trypanosomes, trypanothione synthetase (TryS) catalyzes the synthesis of both glutathionylspermidine (Gsp) and trypanothione [bis(glutathionyl)spermidine, T(SH)2]. Here we present a ...

Authors: None

Date Published: 3rd Jul 2013

Journal: J. Biol. Chem.

Abstract (Expand)

Mycoplasma pneumoniae, a threatening pathogen with a minimal genome, is a model organism for bacterial systems biology for which substantial experimental information is available. With the goal of ...

Authors: Judith Wodke, J. Puchalka, M. Lluch-Senar, J. Marcos, Eva Yus, M. Godinho, R. Gutierrez-Gallego, V. A. dos Santos, Luis Serrano, Edda Klipp, T. Maier

Date Published: 4th Apr 2013

Journal: Mol Syst Biol

Abstract (Expand)

We develop a strategic ‘domino’ approach that starts with one key feature of cell function and the main process providing for it, and then adds additional processes and components only as necessary to ...

Authors: None

Date Published: 1st Sep 2012

Journal: Biochimica et Biophysica Acta (BBA) - Bioenergetics

Abstract (Expand)

Kinetic models of metabolism require detailed knowledge of kinetic parameters. However, due to measurement errors or lack of data this knowledge is often uncertain. The model of glycolysis in the ...

Authors: None

Date Published: 19th Jan 2012

Journal: PLoS Comput Biol

Abstract (Expand)

The RNA degradosome is a multiprotein macromolecular complex that is involved in the degradation of messenger RNA in bacteria. The composition of this complex has been found to display a high degree ...

Authors: Joseph Newman, Lorraine Hewitt, Cecilia Rodrigues, Alexandra S Solovyova, Colin Harwood, Rick Lewis

Date Published: 16th Dec 2011

Journal: J. Mol. Biol.

Abstract (Expand)

Cellular signal transduction is governed by multiple feedback mechanisms to elicit robust cellular decisions. The specific contributions of individual feedback regulators, however, remain unclear. Based ...

Authors: J. Bachmann, A. Raue, Marcel Schilling, Martin Böhm, C. Kreutz, D. Kaschek, H. Busch, N. Gretz, W. D. Lehmann, Jens Timmer, Ursula Klingmüller

Date Published: 2011

Journal: Molecular Systems Biology

Abstract (Expand)

The topology of nuclear receptor (NR) signaling is captured in a systems biological graphical notation. This enables us to identify a number of ‘design’ aspects of the topology of these networks that ...

Authors: Alexey N Kolodkin, Frank J Bruggeman, Nick Plant, Martijn J Moné, Barbara M Bakker, Moray J Campbell, Johannes P T M van Leeuwen, Carsten Carlberg, Jacky Snoep, Hans V Westerhoff

Date Published: 21st Dec 2010

Journal: Mol Syst Biol

Abstract (Expand)

Mutations in DNA replication initiator genes in both prokaryotes and eukaryotes lead to a pleiotropic array of phenotypes, including defects in chromosome segregation, cytokinesis, cell cycle regulation ...

Authors: Graham Scholefield, Jan-Willem Veening, Heath Murray

Date Published: 27th Aug 2010

Journal: Trends Cell Biol.

Abstract (Expand)

Glutathione constitutes a key player in the thiol redox buffer in many organisms. However, the gram-positive bacteria Bacillus subtilis and Staphylococcus aureus lack this low-molecular-weight thiol. ...

Authors: Dierk-Christoph Pöther, Manuel Liebeke, Falko Hochgräfe, Haike Antelmann, Dörte Becher, Michael Lalk, Ulrike Lindequist, Ilya Borovok, Gerald Cohen, Yair Aharonowitz, Michael Hecker

Date Published: 16th Oct 2009

Journal: J. Bacteriol.

Abstract (Expand)

SUMMARY: Quinones are highly toxic naturally occurring thiol-reactive compounds. We have previously described novel pathways for quinone detoxification in the Gram-positive bacterium Bacillus subtilis. ...

Authors: Manuel Liebeke, Dierk-Christoph Pöther, Nguyen van Duy, Dirk Albrecht, Dörte Becher, Falko Hochgräfe, Michael Lalk, Michael Hecker, Haike Antelmann

Date Published: 30th Jul 2008

Journal: Mol. Microbiol.

Abstract (Expand)

Background Signalling pathways are complex systems in which not only simple monomeric molecules interact, but also more complex structures that include constitutive or induced protein assemblies. In ...

Authors: Julio Vera, Thomas Millat, Walter Kolch, Olaf Wolkenhauer

Date Published: 2008

Journal: BMC Syst Biol


Not specified

Authors: A. Schmoldt, H. F. Benthe, G. Haberland

Date Published: 1st Sep 1975

Journal: Biochem Pharmacol

Abstract (Expand)

BACKGROUND: Unicellular cyanobacteria of the genus Cyanothece are recognized for their ability to execute nitrogen (N2)-fixation in the dark and photosynthesis in the light. An understanding of these ...

Authors: U. K. Aryal, J. Stockel, R. K. Krovvidi, M. A. Gritsenko, M. E. Monroe, R. J. Moore, D. W. Koppenaal, R. D. Smith, H. B. Pakrasi, J. M. Jacobs

Date Published: No date defined

Journal: BMC Syst Biol

Abstract (Expand)

Thraustochytrids are unicellular, marine protists, and there is a growing industrial interest in these organisms, particularly because some species, including strains belonging to the genus Aurantiochytrium, ...

Authors: B. Liu, H. Ertesvag, I. M. Aasen, O. Vadstein, T. Brautaset, T. M. Heggeset

Date Published: No date defined

Journal: Genom Data

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