UQ-bio Summer School

UQ-Bio Schedule 2024

Below is the schedule of the 2024 UQ-Bio Summer School.  All 9am-10am lectures and 10:15am-12:15pm tutorials will be broadcast live and recorded. 

To obtain links for these sessions, you must register at: https://forms.gle/E8hE41z4dWXJepg36

Upon registering you will be sent a link to join the UQ-Bio Slack Channel, where you will find links to all lectures.

 

Schedule Pre-Course

Slides (.pdf): WelcomeVirtualSession

  • Welcome Sessions and Review
  • Introductions to the course organizers
  • Overview of Course Objectives and Philosophy
  • Breakout for assistance to find course materials and install key software
  • Breakout to go over first tutorial and notebook questions

Review session to go over the first three homework assignments (in three breakout groups).  Due to technical difficulties, only the main room was recorded.

 

Recording of Breakout Session One. This recording primarily focused on helping participants to set up GitHub and VS code.

 

 

Review session to go over the first three homework assignments (in three breakout groups). Video of breakout session zero — further assistance with installing and running github. Work through a few of the problems in the various homework problem sets. Video of breakout session onecomplete review of homework 1, including workflow to stage and commit changes to GitHub and a full step-by-step solution to all problems in Homework 1. Video of breakout session two: working session to review some of the material covered in Homework 2.  

Schedule Week 1

  • 12pm-5pm – Check in to dormitories
  • 5pm – 7pm – Welcome Reception (Scott Atrium)
  • 07:00 – 08:30, Breakfast
  • 09:00 – 10:00, Welcome Address, Brian Munsky, Slides: IntroductionJune4, [Link to Video]
  • 10:15 – 12:15, Python Tutorial – Image Processing 1 (Basics) – Luis Aguilera, [Link to Video]
  • 12:30 – 13:45, Group Lunch
  • 14:00 – 15:00, UQ-Bio Challenge Introduction, [Link to Video]
  • 15:00 – 17:00, UQ-Bio Challenge, Stage 1 Collaborative Work
  • 07:00 – 08:45, Breakfast
  • 09:00 – 10:00, Labeling and Imaging Technology Lecture – Eric Ron, [Link to Video]
  • 10:15 – 12:15, Python Tutorial – Image Processing 2 (Segmentation/Tracking) – Luis Aguilera, [Link to Video]
  • 12:30 – 13:45, Group Lunch
  • 14:00 – 14:30, Introduction to interim mini-challenge, [Link to Video]
  • 14:30 – 17:00, Project Work
  • 07:00 – 08:45, Breakfast
  • 09:00 – 10:00, Invited Seminar – Prof. Sabrina Spencer, [Link to Video] (Request access by emailing qbio_summer_school@colostate.edu)
  • 10:15 – 12:15, Python Tutorial – Statistics – Prof. Keisha Cook, Link to Video
  • 12:30 – 13:45, Group Lunch
  • 14:00 – 15:15, Project Work
  • 15:30 – 17:00, Career Discussion Panel 1 – DEI In STEM (Dr. Keisha Cook (Moderator), Dr. Will Raymond, Dr. Melisa A. Burt, Dr. Erin Nishimura), [Link to Video]
  • 07:00 – 08:45, Breakfast
  • 09:00 – 10:00, Invited Seminar – Prof. Keisha Cook, [Link to Video]
  • 10:15 – 12:15, Python Tutorial – Machine Learning – Dr. Will Raymond, [Link to Video]
  • 12:30 – 13:45, Group Lunch
  • 14:00 – 14:30, Example for how to code part of course challenge using GitHub CoPilot, [Link to Video]
  • 14:30 — 15:00, Project Work
  • 07:00 – 08:45, Breakfast
  • Free Time

Schedule Week 2

  • 07:00 – 08:45, Breakfast
  • 09:00 – 17:00 Experiment Labs and Lab Tours
  • 07:00 – 08:45, Breakfast
  • 09:00 – 10:00, Invited Seminar – Prof. Doug Shepherd
  • 10:15 – 12:15, Python Tutorial – Stoichiometries, Propensity functions, and ODE Models – Connor King
  • 12:30 – 13:45, Group Lunch
  • 14:00 – 15:00, Project Work
  • 15:30 – 17:00, Career Discussion Panel 2 – Choosing the right graduate program or team (Dr. Alex Popinga (moderator), Dr. Carol Wilusz, Dr. Doug Shepherd, Dr. Jessica Hill, Dr. Stuart Tobet).
  • 07:00 – 08:45, Breakfast
  • 09:00 – 10:00, Invited Seminar – Prof. Erin Nishimura
  • 10:15 – 12:15, Python Tutorial – Stochastic Simulation – Jack Forman and Alex David
  • 12:30 – 13:45, Group Lunch
  • 14:00 – 17:00, Project Work
  • 07:00 – 08:45, Breakfast
  • 09:00 – 10:00, Invited Seminar – Prof. Jesse Wilson
  • 10:15 – 12:15, Python Tutorial – Chemical Master Equation and FSP – Dr. Alexandra Popinga
  • 12:30 – 13:45, Group Lunch
  • 14:00 – 15:00, Project Work
  • 15:30 – 17:00, Career Discussion Panel 3 – Industry-Focused Career Discussion (Dmitri Svetlov (moderator), Prof. German Parada, Dr. Reyes Murrieta, Dr. Linda Forero)
  • 07:00 – 08:45, Breakfast
  • 09:00 – 10:00, Invited Seminar – Prof. Soham Ghosh
  • 10:15 – 12:15, Python Tutorial for MCMC – Dr. Kaan Ocal
  • 12:30 – 13:45, Group Lunch
  • 14:00 – 17:00, Project Work
  • 07:00 – 08:45, Breakfast
  • Free Time
  • 07:00 – 08:45, Breakfast
  • Free Time

qCMB/UQ-Bio Symposium

  • 07:00 – 08:45, Breakfast
  • 09:00 – 17:00, qCMB/UQ-Bio Symposium day 1
  • 07:00 – 08:45, Breakfast
  • 09:00 – 12:30, qCMB/UQ-Bio Symposium day 2
  • 12:30 – 14:00, Lunch
  • 14:00 – 16:00, UQ-Bio Final Project Presentations
  • 17:00 – 19:00, qCMB/UQ-Bio Symposium Picnic and Volleyball

Departure - Wednesday, June 19

  • 07:00 – 08:45, Breakfast
  • Departure – Check-out before 10:00 am. Don’t forget to return the keycard!
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