Advances in Systems Biology

1. Modular Analysis of Biological Networks
Hans-Michael Kaltenbach, Jörg Stelling

2. Modeling Signaling Networks Using High-throughput Phospho-proteomics
Camille Terfve, Julio Saez-Rodriguez

3. An Integrated Bayesian Framework for Identifying Phosphorylation Networks in Stimulated Cells
Tapesh Santra, Boris Kholodenko, Walter Kolch

4. Signaling Cascades: Consequences of Varying Substrate and Phosphatase Levels
Elisenda Feliu, Michael Knudsen, Carsten Wiuf

5. Heterogeneous Biological Network Visualization System: Case Study in Context of Medical Image Data
Erno Lindfors, Jussi Mattila, Peddinti V. Gopalacharyulu, Antti Pesonen, Jyrki Lötjönen, Matej Orešič

6. Evolution of the Cognitive Proteome: From Static to Dynamic Network Models
J. Douglas Armstrong, Oksana Sorokina

7. Molecular Systems Biology of Sic1 in Yeast Cell Cycle Regulation Through Multiscale Modeling
Matteo Barberis

8. Proteome-Wide Screens in Saccharomyces cerevisiae Using the Yeast GFP Collection
Yolanda T. Chong, Michael J. Cox, Brenda Andrews

9. Unraveling the Complex Regulatory Relationships Between Metabolism and Signal Transduction in Cancer
Michelle L. Wynn, Sofia D. Merajver, Santiago Schnell

10. The Cell as a Thermostat: How Much does it Know?
Dennis Bray

11. Stem Cell Differentiation as a Renewal-Reward Process: Predictions and Validation in the Colonic Crypt
Kiran Gireesan Vanaja, Andrew P. Feinberg, Andre Levchenko

12. A Dynamic Physical Model of Cell Migration, Differentiation and Apoptosis in Caenorhabditis elegans

Antje Beyer, Ralf Eberhard, Nir Piterman, Michael O. Hengartner, Alex Hajnal, Jasmin Fisher

13. A Modular Model of the Apoptosis Machinery
E. O. Kutumova, I. N. Kiselev, R. N. Sharipov, I. N. Lavrik, Fedor A. Kolpakov

14. An Ensemble Approach for Inferring Semi-quantitative Regulatory Dynamics for the Differentiation of Mouse Embryonic Stem Cells Using Prior Knowledge
Dominik Lutter, Philipp Bruns, Fabian J. Theis

15. Cell Death and Life in Cancer: Mathematical Modeling of Cell Fate Decisions
Andrei Zinovyev, Simon Fourquet, Laurent Tournier, Laurence Calzone, Emmanuel Barillot

16. Theoretical Aspects of Cellular Decision-Making and Information-Processing
Tetsuya J. Kobayashi, Atsushi Kamimura

17. Zooming in on Yeast Osmoadaptation
Clemens Kühn, Edda Klipp

18. Receptor Dynamics in Signaling
Verena Becker, Jens Timmer, Ursula Klingmüller

19. A Systems-Biology Approach to Yeast Actin Cables
Tyler Drake, Eddy Yusuf, Dimitrios Vavylonis

20. Modeling Morphodynamic Phenotypes and Dynamic Regimes of Cell Motion
Mihaela Enculescu, Martin Falcke

21. Time-Structure of the Yeast Metabolism In vivo
Kalesh Sasidharan, Masaru Tomita, Miguel Aon, David Lloyd, Douglas B. Murray

22. Coarse Graining Escherichia coli Chemotaxis: From Multi-flagella Propulsion to Logarithmic Sensing
Tine Curk, Franziska Matthäus, Yifat Brill-Karniely, Jure Dobnikar

23. Self-Feedback in Actin Polymerization
Anders E. Carlsson

24. Global Optimization in Systems Biology: Stochastic Methods and Their Applications
Eva Balsa-Canto, J. R. Banga, J. A. Egea, A. Fernandez-Villaverde, G. M. Hijas-Liste

25. Mathematical Modeling of the Human Energy Metabolism Based on the Selfish Brain Theory
Matthias Chung, Britta Göbel

26. Identification of Sensitive Enzymes in the Photosynthetic Carbon Metabolism
Renato Umeton, Giovanni Stracquadanio, Alessio Papini, Jole Costanza, Pietro Liò, Giuseppe Nicosia

27. Formal Methods for Checking the Consistency of Biological Models
Allan Clark, Vashti Galpin, Stephen Gilmore, Maria Luisa Guerriero, Jane Hillston

28. Global Parameter Identification of Stochastic Reaction Networks from Single Trajectories
Christian L. Müller, Rajesh Ramaswamy, Ivo F. Sbalzarini

29. A Systems Biology View of Adaptation in Sensory Mechanisms
Pablo A. Iglesias

30. Leveraging Modeling Approaches: Reaction Networks and Rules
Michael L. Blinov, Ion I. Moraru

31. Why and How to Expand the Role of Systems Biology in Pharmaceutical Research and Development
Robert D. Phair

32. Multiscale Mechanistic Modeling in Pharmaceutical Research and Development
Lars Kuepfer, Jörg Lippert, Thomas Eissing

33. Re-analysis of Bipolar Disorder and Schizophrenia Gene Expression Complements the Kraepelinian Dichotomy
Kui Qian, Antonio Lieto, Jukka Corander, Petri Auvinen, Dario Greco

34. Bringing Together Models from Bottom-Up and Top-Down Approaches: An Application for Growth of Escherichia coli on Different Carbohydrates
Andeas Kremling

35. A Differential Equation Model to Investigate the Dynamics of the Bovine Estrous Cycle
H. M. T. Boer, C. Stötzel, S. Röblitz, H. Woelders

36. Reducing Systems Biology to Practice in Pharmaceutical Company Research; Selected Case Studies
N. Benson, L. Cucurull-Sanchez, O. Demin, S. Smirnov, P. Graaf

37. System-Scale Network Modeling of Cancer Using EPoC
Tobias Abenius, Rebecka Jörnsten, Teresia Kling, Linnéa Schmidt, José Sánchez, Sven Nelander

38. Early Patient Stratification and Predictive Biomarkers in Drug Discovery and Development
Daphna Laifenfeld, David A. Drubin, Natalie L. Catlett, Jennifer S. Park, Aaron A. Hooser, Brian P. Frushour, David Graaf, David A. Fryburg, Renée Deehan

39. Biomedical Atlases: Systematics, Informatics and Analysis
Richard A. Baldock, Albert Burger

Avainsanat: Life Sciences, Systems Biology, Bioinformatics, Biomedicine general