Part 1. System Modeling in Cellular Biology from concepts to nuts and bolts.
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Questions and Answers

Which type of feedback loop is typically responsible for regulation and central to homeostasis in biological systems?

  • Positive feedback
  • Non-linear feedback
  • Negative feedback (correct)
  • Delayed feedback

    • What is a characteristic of positive feedback loops?

  • They cancel each other out
  • They are not well-understood
  • They cause instability (correct)
  • They provide stability

    • What is a simple model system that exhibits positive feedback?

  • Laplace transform
  • Fourier transform
  • ODE manipulation
  • Polya urn (correct)

    • What kind of behavior can result from positive feedback in a resource-limited environment?

    <p>Chaotic behavior</p> Signup and view all the answers

    According to the text, which type of reasoning is best suited for data-rich but hypothesis-poor fields?

    <p>Inductive reasoning</p> Signup and view all the answers

    According to the text, what is the intellectual significance of prediction in science?

    <p>Prediction is used to support the correctness of a hypothesis</p> Signup and view all the answers

    According to the text, what is reductionism?

    <p>The process of breaking down complex systems into their constituent parts</p> Signup and view all the answers

    According to the text, why does reductionism ultimately fail in biology?

    <p>Biological systems are inherently complex</p> Signup and view all the answers

    Which term is used to describe the phenomenon where the behavior of a whole system is difficult to understand in terms of basic laws and the initial conditions of the system elements?

    <p>Emergence</p> Signup and view all the answers

    What is the main limitation of a reductionist approach in explaining many systems of interest?

    <p>The assumption that the behavior of constituent parts can be fully understood</p> Signup and view all the answers

    What is the main purpose of making models of biological systems and processes?

    <p>To simulate and predict properties of biological systems</p> Signup and view all the answers

    What is the relationship between chaotic and stable regions in systems involving interacting elements?

    <p>Chaotic and stable regions coexist within systems involving interacting elements</p> Signup and view all the answers

    Which of the following best describes the relationship between simulation and prediction in modeling?

    <p>Simulation is a type of prediction</p> Signup and view all the answers

    What is one of the main reasons for modeling a biological system?

    <p>To analyze which parts of the system contribute most to desired properties</p> Signup and view all the answers

    What does it mean for a model to accurately represent the behavior of a 'real' system?

    <p>The model might be accurate, but it is not certain</p> Signup and view all the answers

    What is one advantage of using numerical modeling in biology?

    <p>It allows for rapid analysis of the effects of manipulating experimental conditions</p> Signup and view all the answers

    According to the text, what is the iterative cycle between the world of ideas and the world of observations or data?

    <p>The cycle involves using data to inform cogitations that feed into the next set of experiments.</p> Signup and view all the answers

    According to the text, what is the role of modeling in biology?

    <p>Modeling includes various types of models such as diagrams, laws, graphs, plots, relationships, chemical formulae, and images.</p> Signup and view all the answers

    According to the text, what is the difference between hypothetico-deductive analysis and inductive reasoning?

    <p>Hypothetico-deductive analysis is more secure than inductive reasoning.</p> Signup and view all the answers

    According to the text, why has the reductionist and hypothesis-driven agenda been less fruitful in biology?

    <p>The reductionist and hypothesis-driven agenda has failed to record the existence and function of many genes.</p> Signup and view all the answers

    Which technique is designed to indicate to the experimenter which parameters must be known with the highest precision?

    <p>Sensitivity analysis</p> Signup and view all the answers

    What is the equivalent of sensitivity analysis in pharmacophore screening?

    <p>QSAR analysis</p> Signup and view all the answers

    Which type of analysis seeks to analyze systems in comparatively general or high-level terms?

    <p>Top-down analysis</p> Signup and view all the answers

    What is the purpose of hypothesis generation in modeling?

    <p>To predict interesting behavior</p> Signup and view all the answers

    Which technique can reduce the reliance on in vivo animal/human experimentation?

    <p>Modeling</p> Signup and view all the answers

    In which field is the analysis of multiple modulations of enzymatic properties important?

    <p>Metabolic engineering</p> Signup and view all the answers

    Which of the following is true about the use of models in biology according to the text?

    <p>Models are abstractions of reality</p> Signup and view all the answers

    What is the role of "model organisms" in biology?

    <p>They are organisms that are similar to many other organisms</p> Signup and view all the answers

    Which type of model has been outside the mainstream in molecular biology?

    <p>Quantitative mathematical models</p> Signup and view all the answers

    What is the purpose of developing mathematical models in biology?

    <p>To explain and understand biological systems</p> Signup and view all the answers

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