Complex Systems and Computational Biology Approaches to Acute Inflammation

1. Front Matter

   Pages i-xi

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2. An Overview of the Translational Dilemma and the Need for Translational Systems Biology of Inflammation

   • Yoram Vodovotz, Gary An

   Pages 1-7

3. Complex Systems Methods and Applications

   1. Front Matter

      Pages 9-9

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   2. Translational Equation-Based Modeling

      • Gilles Clermont

      Pages 11-28

   3. Agent-Based Modeling in Translational Systems Biology

      • Scott Christley, Gary An

      Pages 29-49

   4. Analysis of Heart Rate Variability

      • Patrick R. Norris

      Pages 51-77

   5. Analysis of Ventilatory Pattern Variability

      • Thomas E. Dick, Rishi R. Dhingra, Yee-Hsee Hsieh, Mikkel Fishman, Farhad Kaffashi, Kenneth A. Loparo et al.

      Pages 79-99

4. Translational Modeling of Sepsis and Trauma

   1. Front Matter

      Pages 101-101

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   2. Disorder of Systemic Inflammation in Sepsis and Trauma: A Systems Perspective

      • Kent R. Zettel II, Timothy R. Billiar

      Pages 103-124

   3. Multiscale Equation-Based Models: Insights for Inflammation and Physiological Variability

      • Jeremy D. Scheff, Steve E. Calvano, Ioannis P. Androulakis

      Pages 125-141

   4. Integrating Data-Driven and Mechanistic Models of the Inflammatory Response in Sepsis and Trauma

      • Nabil Azhar, Qi Mi, Cordelia Ziraldo, Marius Buliga, Gregory M. Constantine, Yoram Vodovotz

      Pages 143-157

   5. In Silico Trials and Personalized Therapy for Sepsis and Trauma

      • Yoram Vodovotz, John Bartels, Gary An

      Pages 159-170

5. Translational Modeling of Wound Healing

   1. Front Matter

      Pages 171-171

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   2. Disorder of Localized Inflammation in Wound Healing: A Systems Perspective

      • Sashwati Roy, Amitava Das, Chandan K. Sen

      Pages 173-183

   3. Equation-Based Models of Wound Healing and Collective Cell Migration

      • Julia Arciero, David Swigon

      Pages 185-207

   4. Agent-Based Models of Wound Healing

      • Jordan R. Stern, Cordelia Ziraldo, Yoram Vodovotz, Gary An

      Pages 209-228

6. Translational Modeling of Host-Pathogen Interactions

   1. Front Matter

      Pages 229-229

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   2. Modeling Host–Pathogen Interactions in Necrotizing Enterocolitis

      • Julia Arciero, Jared Barber, Moses Kim

      Pages 231-264

   3. Modeling Host–Vector–Pathogen Immuno-inflammatory Interactions in Malaria

      • Yoram Vodovotz, Nabil Azhar, Natasa Miskov-Zivanov, Marius Buliga, Ruben Zamora, Bard Ermentrout et al.

      Pages 265-279

7. Future Perspectives: Translation to Implementation

   1. Front Matter

      Pages 281-281

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The difficulty in achieving effective translation of basic mechanistic biomedical knowledge into effective therapeutics, is the greatest challenge in biomedical research. Nowhere is this more apparent than in the reductionist approaches to understanding and manipulating the acute inflammatory response in the settings of sepsis, trauma/hemorrhage, wound healing, and related processes. This book discusses complex systems and computational biology methods and approaches that have advanced sufficiently to allow for knowledge generation, knowledge integration, and clinical translation in the settings of complex diseases related to the inflammatory response. Well-regulated, self-resolving inflammation is necessary for the appropriate communication and resolution of infection and trauma, and for maintenance of proper physiology and homeostasis. In contrast, self-sustaining inflammation drives the pathobiology of the aforementioned diseases. It is now increasingly recognized that controlling and reprogramming inflammation in order to reap the benefits of this evolutionarily-conserved process is preferred to simply abolishing indiscriminately.

• inflammation
• modeling
• systems biology

• University of Pittsburgh Inflammation and Regenerative Modeling, Pittsburgh, USA

  Yoram Vodovotz

• University of Chicago Medical Center MC 5094, Chicago, USA

  Gary An

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