UQ-bio Summer School

Course Topics

Description of course topics and instruction format.

The 2022 UQ-BIO program will be a condensed offering of five modules.  These include an online introductory Python Module 9including self-study and two zoom meetings) that will need to be completed before the program. Descriptions of the modules and tentative dates are below:

Prior to the start of the in person program, we will provide some assistance and instruction to get students started with Python.  This will consist of several recorded videos to help students get started writing python scripts using Google Collab, then we will have two live and recorded sessions over Zoom in which we do live coding to demonstrate some basic tools to load, analyze, and manipulate images in Python.

  • Learn how to define different variable and data types in Python
  • Learn basics for how to write functions and create notebooks in Python
  • Learn how to read and write data to files using Python
  • Learn how to make and save plots
  • Learn how to search for Python libraries to find and load different biosimulation or bioinformatic tools
  • Learn about different modern microscopy techniques
  • Learn about different fluorescent labeling techniques used in single-cell research
  • Learn how to apply basic image processing tools to extract single-cell data
  • Learn about important probability distributions and different statistical tools to represent and visualize the multiple variables in single-cell data
  • Learn different regression tools to relate different single-cell observations to one another
  • Learn different clustering approaches to explore phenotypical differences between different cell types
  • Learn basic machine learning tools for supervised and unsupervised analyses of single-cell data
  • Learn about how discrete chemical reactions lead to stochasticity or noise in single- cell responses
  • Learn how to describe single-cell reaction processes in terms of the stoichiometry vectors and propensity functions
  • Learn how to write your own stochastic simulation algorithm and use existing software packages to simulate single-cell phenomena
  • Explore how non-linearities and stochasticity combine to create different phenotypical behaviors in single-cells
  • Learn the meaning of the Chemical Master Equation to solve for the probability distributions of single-cell behaviors
  • Learn mathematics of moment generating functions and how they can be used to solve for the statistics of the CME
  • Learn how to use the Finite State Projection analysis to generate single-cell probability distributions in fluctuating environments

See more details and schedule at: Detailed q-bio Schedule

Want to see some example lectures or tutorials?

The First Annual Undergraduate Quantitative Biology Summer School (2021) was held entirely online and included six weeks of instruction on six topics related to single-cell biology.  If you would like to see some examples of course lectures, please browse through the videos posted at: [2021 Course Materials].

Want to be informed about future q-bio summer school, conference, or mentoring events? Please sign up for our email list using the form at: http://eepurl.com/hv1oaf


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