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Universität Stuttgart Die Universität Stuttgart unterstützt und fördert wissenschaftliches Publizieren nach dem Prinzip des Open Access: Open Access Policy der Universität Stuttgart

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Die Universitätsbibliothek Stuttgart unterstützt Open Access Publikationen bei Biomed Central, SpringerOpen und Chemistry Central durch eine Prepay Membership(institutionelle Mitgliedschaft mit Vorauszahlungsvereinbarung).
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Work published with BioMed Central, Chemistry Central and SpringerOpen by researchers at Universität Stuttgart

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26.

Research   Open Access

Modeling time delay in the NFκB signaling pathway following low dose IL-1 stimulation

Johannes Witt, Sandra Barisic, Oliver Sawodny, Michael Ederer, Dagmar Kulms, Thomas Sauter EURASIP Journal on Bioinformatics and Systems Biology 2011, 2011:3 (17 June 2011)

Abstract | Full text | PDF | PubMed

27.

Research   Open Access

A systems biology approach to analyse leaf carbohydrate metabolism in Arabidopsis thaliana

Sebastian Henkel, Thomas Nägele, Imke Hörmiller, Thomas Sauter, Oliver Sawodny, Michael Ederer, Arnd G Heyer EURASIP Journal on Bioinformatics and Systems Biology 2011, 2011:2 (17 June 2011)

Abstract | Full text | PDF | PubMed

28.

Research   Open Access Highly Accessed

Health impact assessment of waste management facilities in three European countries

Francesco Forastiere, Chiara Badaloni, Kees de Hoogh, Martin K von Kraus, Marco Martuzzi, Francesco Mitis, Lubica Palkovicova, Daniela Porta, Philipp Preiss, Andrea Ranzi, Carlo A Perucci, David Briggs Environmental Health 2011, 10:53 (2 June 2011)

Abstract | Full text | PDF | PubMed

29.

Research article   Open Access

Agent-based simulation of reactions in the crowded and structured intracellular environment: Influence of mobility and location of the reactants

Michael T Klann, Alexei Lapin, Matthias Reuss BMC Systems Biology 2011, 5:71 (14 May 2011)

Abstract | Full text | PDF | PubMed

30.

Research article   Open Access Highly Accessed

A systems biology approach to dynamic modeling and inter-subject variability of statin pharmacokinetics in human hepatocytes

Joachim Bucher, Stephan Riedmaier, Anke Schnabel, Katrin Marcus, Gabriele Vacun, Thomas S Weiss, Wolfgang E Thasler, Andreas K Nüssler, Ulrich M Zanger, Matthias Reuss BMC Systems Biology 2011, 5:66 (6 May 2011)

Abstract | Full text | PDF | PubMed

31.

Methodology article   Open Access

Identification of models of heterogeneous cell populations from population snapshot data

Jan Hasenauer, Steffen Waldherr, Malgorzata Doszczak, Nicole Radde, Peter Scheurich, Frank Allgöwer BMC Bioinformatics 2011, 12:125 (28 April 2011)

Abstract | Full text | PDF | PubMed

32.

Research   Open Access Highly Accessed

Engineering of a plasmid-free Escherichia coli strain for improved in vivo biosynthesis of astaxanthin

Karin Lemuth, Kristin Steuer, Christoph Albermann Microbial Cell Factories 2011, 10:29 (26 April 2011)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

33.

Research article   Open Access

Lipase-catalysed acylation of starch and determination of the degree of substitution by methanolysis and GC

Apostolos Alissandratos, Nina Baudendistel, Sabine L Flitsch, Bernhard Hauer, Peter J Halling BMC Biotechnology 2010, 10:82 (29 November 2010)

Abstract | Full text | PDF | PubMed

34.

Research article   Open Access Highly Accessed

Prediction and analysis of the modular structure of cytochrome P450 monooxygenases

Demet Sirim, Michael Widmann, Florian Wagner, Jürgen Pleiss BMC Structural Biology 2010, 10:34 (15 October 2010)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

35.

Database   Open Access

SHV Lactamase Engineering Database: a reconciliation tool for SHV β-lactamases in public databases

Quan K Thai, Juergen Pleiss BMC Genomics 2010, 11:563 (13 October 2010)

Abstract | Full text | PDF | PubMed

36.

Research article   Open Access

Bridging time scales in cellular decision making with a stochastic bistable switch

Steffen Waldherr, Jingbo Wu, Frank Allgöwer BMC Systems Biology 2010, 4:108 (9 August 2010)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

37.

Book review   Open Access Highly Accessed

Review of three Recent Books on the Boundary of Bioinformatics and Systems Biology

Eric Bullinger, Monica Schliemann BioMedical Engineering OnLine 2010, 9:33 (14 July 2010)

Abstract | Full text | PDF

38.

Research   Open Access

Molecular understanding of sterically controlled compound release through an engineered channel protein (FhuA)

Arcan Güven, Marco Fioroni, Bernhard Hauer, Ulrich Schwaneberg Journal of Nanobiotechnology 2010, 8:14 (25 June 2010)

Abstract | Full text | PDF | PubMed

39.

Research Article   Open Access

Attenuation Analysis of Lamb Waves Using the Chirplet Transform

Florian Kerber, Helge Sprenger, Marc Niethammer, Kritsakorn Luangvilai, LaurenceJ Jacobs EURASIP Journal on Advances in Signal Processing 2010, 2010:375171 (14 June 2010)

Abstract | Full text | PDF

40.

Research article   Open Access Highly Accessed

Dynamics and Control of the Central Carbon Metabolism in Hepatoma Cells

Klaus Maier, Ute Hofmann, Matthias Reuss, Klaus Mauch BMC Systems Biology 2010, 4:54 (28 April 2010)

Abstract | Full text | PDF | PubMed

41.

Research article   Open Access

Transcriptome survey of the anhydrobiotic tardigrade Milnesium tardigradum in comparison with Hypsibius dujardini and Richtersius coronifer

Brahim Mali, Markus A Grohme, Frank Förster, Thomas Dandekar, Martina Schnölzer, Dirk Reuter, Weronika Wełnicz, Ralph O Schill, Marcus Frohme BMC Genomics 2010, 11:168 (12 March 2010)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | F1000 Biology

42.

Research article   Open Access

Structural classification by the Lipase Engineering Database: a case study of Candida antarctica lipase A

Michael Widmann, P Benjamin Juhl, Jürgen Pleiss BMC Genomics 2010, 11:123 (19 February 2010)

Abstract | Full text | PDF | PubMed

43.

Database   Open Access Highly Accessed

The Thiamine diphosphate dependent Enzyme Engineering Database: A tool for the systematic analysis of sequence and structure relations

Michael Widmann, Robert Radloff, Jürgen Pleiss BMC Biochemistry 2010, 11:9 (1 February 2010)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

A database of thiamine diphosphate (ThDP) dependent enzymes includes multisequence alignments and phylogenetic trees for families of the enzymes, structural information, and SNPs of human enzymes that might be related to disease.

44.

Research article   Open Access

Amplitude distribution of stochastic oscillations in biochemical networks due to intrinsic noise

Moritz Lang, Steffen Waldherr, Frank Allgöwer PMC Biophysics 2009, 2:10 (17 November 2009)

Abstract | Full text | PDF | PubMed |  Editor’s summary

Intrinsic noise is a common phenomenon in biochemical reaction networks and may affect the occurence and amplitude of sustained oscillations in the states of the network. We present a new method to compute the amplitude distribution of the oscillations without the need for long-term stochastic simulations.

45.

Database   Open Access Highly Accessed

The Cytochrome P450 Engineering Database: integration of biochemical properties

Demet Sirim, Florian Wagner, Andrey Lisitsa, Jürgen Pleiss BMC Biochemistry 2009, 10:27 (12 November 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

The new version of the Cytochrome P450 Engineering Database (CYPED) contains information on the sequences of 8613 proteins and the structures of 47 proteins, and has been extended by integrating biochemical information from the Cytochrome P450 Knowledgebase.

46.

Research article   Open Access

Long-term prediction of fish growth under varying ambient temperature using a multiscale dynamic model

Nadav S Bar, Nicole Radde BMC Systems Biology 2009, 3:107 (10 November 2009)

Abstract | Full text | PDF | PubMed

47.

Research article   Open Access

The mitochondrial genomes of the ciliates Euplotes minuta and Euplotes crassus

Rob M de Graaf, Theo A van Alen, Bas E Dutilh, Jan WP Kuiper, Hanneke JAA van Zoggel, Minh Huynh, Hans-Dieter Görtz, Martijn A Huynen, Johannes HP Hackstein BMC Genomics 2009, 10:514 (6 November 2009)

Abstract | Full text | PDF | PubMed

48.

Research article   Open Access

Tardigrade workbench: comparing stress-related proteins, sequence-similar and functional protein clusters as well as RNA elements in tardigrades

Frank Förster, Chunguang Liang, Alexander Shkumatov, Daniela Beisser, Julia C Engelmann, Martina Schnölzer, Marcus Frohme, Tobias Müller, Ralph O Schill, Thomas Dandekar BMC Genomics 2009, 10:469 (12 October 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

49.

Research article   Open Access Highly Accessed

Modeling system states in liver cells: Survival, apoptosis and their modifications in response to viral infection

Nicole Philippi, Dorothee Walter, Rebekka Schlatter, Karine Ferreira, Michael Ederer, Oliver Sawodny, Jens Timmer, Christoph Borner, Thomas Dandekar BMC Systems Biology 2009, 3:97 (22 September 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

A Boolean network model for liver cells has four stable system states, two for survival and two for apoptosis, and is validated by successful predictions of the outcome of viral infection and varying growth substrate signals in the presence of FasL.

50.

Database   Open Access

The Lactamase Engineering Database: a critical survey of TEM sequences in public databases

Quan Thai, Fabian Bös, Jürgen Pleiss BMC Genomics 2009, 10:390 (21 August 2009)

Abstract | Full text | PDF | PubMed

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