This course introduces how to perform abstraction of genetic circuit models. The first module teaches reaction-based abstraction methods that apply steady-state approximations to reduce the complexity and improve the analysis time of these models. The second module describes piecewise approximations to simplify non-linear reaction-based models of genetic circuits. The third module presents Markov chain models and methods for analyzing them. The fourth module provides methods to abstract models even further using state-based abstraction methods. Finally, the fifth module demonstrates methods, such as infinite-state stochastic model checking, to determine the likelihood that a genetic circuit hazard will cause circuit failure.
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This course introduces how to perform abstraction of genetic circuit models. The first module teaches reaction-based abstraction methods that apply steady-state approximations to reduce the complexity and improve the analysis time of these models. The second module describes piecewise approximations to simplify non-linear reaction-based models of genetic circuits. The third module presents Markov chain models and methods for analyzing them. The fourth module provides methods to abstract models even further using state-based abstraction methods. Finally, the fifth module demonstrates methods, such as infinite-state stochastic model checking, to determine the likelihood that a genetic circuit hazard will cause circuit failure.
This course introduces how to perform abstraction of genetic circuit models. The first module teaches reaction-based abstraction methods that apply steady-state approximations to reduce the complexity and improve the analysis time of these models. The second module describes piecewise approximations to simplify non-linear reaction-based models of genetic circuits. The third module presents Markov chain models and methods for analyzing them. The fourth module provides methods to abstract models even further using state-based abstraction methods. Finally, the fifth module demonstrates methods, such as infinite-state stochastic model checking, to determine the likelihood that a genetic circuit hazard will cause circuit failure.
This course can also be taken for academic credit as ECEA 5935, part of CU Boulder’s Master of Science in Electrical Engineering.
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Reaction-based Abstraction
This module will introduce methods to simplify chemical reaction models using automated model abstraction techniques.
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Syllabus
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Activities
Review basic statistics
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Reviewing basic statistics will prepare students for the statistical analysis component of the course.
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Statistics
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Review the concepts of probability and distributions.
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Practice solving probability and distribution problems.
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Take a practice quiz to test your understanding.
Review Introductory Molecular Biology and Chemistry
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Reviewing introductory molecular biology and chemistry can ensure that students have the foundational knowledge they need to succeed.
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Molecular Biology
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Review basic concepts of molecular biology, such as the structure and function of DNA and RNA.
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Review the basics of chemistry, such as atomic structure, bonding, and chemical reactions.
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Take practice problems and quizzes to test your understanding.
Find a mentor in the field of genetic circuit modeling
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Finding a mentor can help students learn from experienced professionals.
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-
Attend networking events and meet people in the field.
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Reach out to professors and researchers in the field.
-
Ask friends and family for recommendations.
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Complete online tutorials on genetic circuit modeling
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Completing online tutorials can help students learn the basics of genetic circuit modeling.
Show steps
-
Find online tutorials on genetic circuit modeling.
-
Follow the tutorials and complete the exercises.
-
Ask questions in the discussion forums if you need help.
Solve practice problems on genetic circuit modeling
Show steps
Solving practice problems can help students improve their understanding and skills in genetic circuit modeling.
Show steps
-
Find practice problems on genetic circuit modeling.
-
Solve the practice problems.
-
Check your answers and identify areas where you need more practice.
Create a diagram of a genetic circuit model
Show steps
Creating a diagram of a genetic circuit model can help students visualize and understand the circuit.
Show steps
-
Choose a genetic circuit to model.
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Draw a diagram of the circuit, including all of the components and their interactions.
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Label the diagram with the names of the components and their functions.
Build a genetic circuit model in a simulation software
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Building a genetic circuit model in a simulation software can help students apply their knowledge and skills in a practical setting.
Show steps
-
Choose a simulation software.
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Create a new model in the software.
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Add the components of the genetic circuit to the model.
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Simulate the model and analyze the results.
Present your genetic circuit model to your classmates
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Presenting their genetic circuit model to their classmates can help students improve their communication and presentation skills.
Show steps
-
Prepare a presentation on your genetic circuit model.
-
Present your model to your classmates.
-
Answer questions from your classmates.
Volunteer at a local biotechnology lab
Show steps
Volunteering at a local biotechnology lab can help students gain hands-on experience in the field.
Show steps
-
Find a local biotechnology lab that is looking for volunteers.
-
Apply for a volunteer position.
-
Complete the required training.
-
Start volunteering!
Review basic statistics
Show steps
Reviewing basic statistics will prepare students for the statistical analysis component of the course.
Browse courses on
Statistics
Show steps
- Review the concepts of probability and distributions.
- Practice solving probability and distribution problems.
- Take a practice quiz to test your understanding.
Review Introductory Molecular Biology and Chemistry
Show steps
Reviewing introductory molecular biology and chemistry can ensure that students have the foundational knowledge they need to succeed.
Browse courses on
Molecular Biology
Show steps
- Review basic concepts of molecular biology, such as the structure and function of DNA and RNA.
- Review the basics of chemistry, such as atomic structure, bonding, and chemical reactions.
- Take practice problems and quizzes to test your understanding.
Find a mentor in the field of genetic circuit modeling
Show steps
Finding a mentor can help students learn from experienced professionals.
Show steps
- Attend networking events and meet people in the field.
- Reach out to professors and researchers in the field.
- Ask friends and family for recommendations.
Complete online tutorials on genetic circuit modeling
Show steps
Completing online tutorials can help students learn the basics of genetic circuit modeling.
Show steps
- Find online tutorials on genetic circuit modeling.
- Follow the tutorials and complete the exercises.
- Ask questions in the discussion forums if you need help.
Solve practice problems on genetic circuit modeling
Show steps
Solving practice problems can help students improve their understanding and skills in genetic circuit modeling.
Show steps
- Find practice problems on genetic circuit modeling.
- Solve the practice problems.
- Check your answers and identify areas where you need more practice.
Create a diagram of a genetic circuit model
Show steps
Creating a diagram of a genetic circuit model can help students visualize and understand the circuit.
Show steps
- Choose a genetic circuit to model.
- Draw a diagram of the circuit, including all of the components and their interactions.
- Label the diagram with the names of the components and their functions.
Build a genetic circuit model in a simulation software
Show steps
Building a genetic circuit model in a simulation software can help students apply their knowledge and skills in a practical setting.
Show steps
- Choose a simulation software.
- Create a new model in the software.
- Add the components of the genetic circuit to the model.
- Simulate the model and analyze the results.
Present your genetic circuit model to your classmates
Show steps
Presenting their genetic circuit model to their classmates can help students improve their communication and presentation skills.
Show steps
- Prepare a presentation on your genetic circuit model.
- Present your model to your classmates.
- Answer questions from your classmates.
Volunteer at a local biotechnology lab
Show steps
Volunteering at a local biotechnology lab can help students gain hands-on experience in the field.
Show steps
- Find a local biotechnology lab that is looking for volunteers.
- Apply for a volunteer position.
- Complete the required training.
- Start volunteering!
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