Welcome to the course website for the 2026 PSTP Bioinformatics Bootcamp!
When: April 13-15 and 20-24; 3-5PM PDT
Where: MET 321
Instructor: Hannah Carter (hkcarter@health.ucsd.edu)
TAs:
Daniela Salgado Figueroa (dsalgadofigueroa@ucsd.edu)
Dante Bolzan (dbolzan@ucsd.edu)
Questions or concerns? Please reach out by email.
| Day | Date | Topic | Links | Instructors |
|---|---|---|---|---|
| Week 1 | Basics: Tools and environments for bioinformatics | |||
| 1 | 04/13/2026 | Module 1: Accessing HPC and Command Line Tutorial | Day_1 | TAs |
| 1 | 04/13/2026 | Project Work: Intoduce your project and data | NA | TAs |
| 2 | 04/14/2026 | Module 2: Basic Programming | Day_2 | TAs |
| 3 | 04/15/2026 | Module 3: Introduction to Data Analysis in Jupyter / Visualization | Day_3 | TAs |
| Week 2 | Specific Project Work | |||
| 4 | 04/20/2026 | Module 4: Exploratory Data Analysis (EDA) | Day_4 | TAs |
| 4 | 04/20/2026 | Project Work: Perform EDA on your own data | NA | TAs |
| 5 | 04/21/2026 | Module 5: Matching Algorithms for Clinical Data | Day_5 | TAs |
| 6 | 04/22/2026 | Module 6: AllofUs Workbench | NA | Melissa Gymrek, Ph.D. |
| 7 | 04/23/2026 | Project Work | NA | TAs |
| 8 | 04/24/2026 | Module 7: Vaccine Response Prediction | NA | Tal Einav, Ph.D. |
Extra time will be used for the submitted projects.
Biology Meets Programming: Bioinformatics for Beginners
Bioinformatics Algorithms: An Active Learning Approach (YouTube)
BIOM262 Quantitative Methods/Genetics - Several notebooks were taken/adapted from this course and I recommend it if you want an introduction to bioinformatics methods.
CSE284 Personal Genomics/Bioinformatics - This is an invaluable course (focusing on personal genomics) that blends theory and application seamlessly. Information from this course also made its way into bootcamp.
CSE258 Recommender Systems & Web Mining - This course is focused on machine learning applications (primarily in Python), while also providing some introductory theory. This is a great course to get your feet wet in the ocean of ML.
BNFO286 Network Biology & Biomedicine