BIOM285, Spring 2025

Course director: Kyle Gaulton (kgaulton@ucsd.edu)

Class times: MWF 1:30-2:30 PM, CMM East Room 2047

Office hours: F 2:30-3:30 PM, CMM East Room 1059

Slack: biom285-2025.slack.com
Link to join Slack: https://join.slack.com/t/biom285-2025/shared_invite/zt-31cqtenqu-AilOrbO55Wy3rPwZRyxtMA


Course syllabus:
NOTE: The first day of class is April 7

April 7-11 - Study design in biomedical science, intro to R
April 14-18 - Descriptive statistics, p-values, hypothesis testing
April 21-25 - Multiple testing, comparing means
April 28-May 2 - Comparing means, correlation
May 5-9 - Regression, categorical data
May 12-16 - Generalized linear models, linear mixed models
May 19-23 - Linear mixed models, Intro to machine learning
May 26-30 - Survey of statistics in BMS (no class Mon 5/26)
June 2-6 - Student group presentations

Assignments:
Assignment 1: link
Assignment 2: link
Assignment 3: link
Assignment 4: link

Examples - R script answer

Presentations:
Guide to presentations: link

Week 1 - April 7-11

Mon April 7 - slides
Wed April 9 - slides
Fri April 11 - slides | code: DataHub - April_11/

Week 2 - April 14-18

Mon April 14 - slides | code: DataHub - April_14/
Wed April 16 - slides | code: DataHub - April_16/
Fri April 18 - code: DataHub - April_18/

Week 3 - April 21-25

Mon April 21 - slides | code: DataHub - April_21/
Wed April 23 - slides | code: DataHub - April_23/
Fri April 25 - code: DataHub - April_25/

Week 4 - April 28 - May 2

Mon April 28 - slides | code: DataHub - April_28/
Wed April 30 - slides | code: DataHub - April_30/
Fri May 2 - code: DataHub - May_2/

Week 5 - May 5 - 9

Mon May 5 - slides | code: Datahub - May_5/
Wed May 7 - slides | code: Datahub - May_7/
Fri May 9 - code: Datahub - May_9/

Week 6 - May 12 - 16

Mon May 12 - slides | code: Datahub - May_12/
Wed May 14 - slides | code: Datahub - May_14/
Fri May 16 - slides | code: Datahub - May_16/

Week 7 - May 19 - 23

Mon May 19 - slides | code: Datahub - May_19/
Wed May 21 - slides | code: Datahub - May_21/
Fri May 23 - code: Datahub - May_23/

Week 8 - May 26 - 30

Mon May 26 - NO CLASS

Wed May 28:

  • Weston Elison - Mixed models in single cell epigenomics
  • Kellen Cavagnero - Transcriptomics
  • Emily Griffin - Genetic association

Fri May 30:

  • Xinkai Wu - Ribosome pausing
  • Lauren Clubb - Bulk transcriptomics, gene set enrichment

Week 9 - June 2 - 6

Mon Jun 2

  • Group 1 (Xinjian Katie Zia Dorothy)
  • Group 2 (Tiffany Hannah Megan Anushka)
  • Group 8 (Kyle Andre Derek Kian)

Wed Jun 4

  • Group 4 (Kelly Rhea Jason)
  • Group 5 (Cindy Janeth Eduardo Natalia)
  • Group 6 (Courtney Ilse Mark Caitlyn)

Fri Jun 6

  • Group 7 (Ziyi Yuren)
  • Group 3 (Lena Jaynia Gele Brittany)
  • Group 9 (Priscilla Ananya Andrea Adriana)