The [course_title] course examines the computational and experimental analysis of biological systems. You will know this analysis from genetic, molecular, cellular, and cell population levels. The course focuses on the modelling of complex dynamic systems and protein design and engineering. You will learn about gene sequence analysis, molecular modelling, metabolic and gene regulation networks, signal transduction pathways and cell populations in tissues in the course.
This course does not involve any written exams. Students need to answer 5 assignment questions to complete the course, the answers will be in the form of written work in pdf or word. Students can write the answers in their own time. Each answer need to be 200 words (1 Page). Once the answers are submitted, the tutor will check and assess the work.
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Course Credit: MIT
|Introduction: Modeling and Manipulating Biomolecular Interactions||00:30:00|
|Protein Structure and Energetics||00:45:00|
|Molecular Design Part 1||01:00:00|
|Protein Structure Prediction||00:30:00|
|Introduction, goals and rationale for the course, protein-ligand interactions||00:15:00|
|Enzyme kinetics, Michaelis-Menten kinetics||00:30:00|
|Kinase engineering, competitive inhibition, non-competitive inhibition, epidermal growth factor receptor (EGFR) in cancer, regulation of kinase activity||00:30:00|
|Constitutive kinases, modeling kinases, how to shut down kinases, multiple substrates, modeling abstraction, mitogen-activated protein kinase (MAPK) cascade||00:30:00|
|Ultrasensitivity / amplification in the MAPK cascade||00:30:00|
|Transcription factor (TF) phosphorylation||00:30:00|
|Transcriptional regulation: Simple regulation, positive and negative autoregulation||00:30:00|
|Predictive models of biology, genome editing, sensors, light-activated proteins, new enzymes, electrostatics||00:30:00|
|Hydrogen bonding, the hydrophobic effect, how we represent proteins||00:15:00|
|Paralogues and orthologues, protein therapeutics||00:15:00|
|The metropolis algorithm||00:15:00|
|Gradient descent, molecular dynamics, ΔΔG for small molecules, pharma priorities||00:30:00|
|Drug development case study: Imatinib||00:15:00|
|Impact of drug delivery of effectiveness||00:15:00|
|Protein folding: thermodynamics||00:15:00|
|Kinetics of folding, predicting protein structure||00:30:00|
|Structure from sequence||00:15:00|
|Kinases, graph theory, experimental and computational techniques||00:30:00|
|Submit Your Assignment||00:00:00|
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