Computational Bioinformatics

Schedule

Schedule

Below is a tentative schedule of covered topics and associated activities. The schedule is subject to change with the addition of guest appearances.

Week 1
  • Lecture: Introduction to the course and careers.
  • Lab: No lab.
  • Reading: Read the syllabus.
  • Learn more: Career Paths
Week 2
  • Lecture: DNA basics, Central Dogma, replication, Activity 01.
  • Lab: Software tools.
  • Reading: Chapter 1.
  • Learn more: Tools and Environments
Week 3
  • Lecture: BioPython basics, Activity 02.
  • Lab: BioPython and silent mutations.
  • Reading: Chapter 1.
  • Learn more: Assignments
Week 4
  • Lecture: Reading frames, mutations, sequence alignment, Activity 03.
  • Lab: Tool intro and presentation.
  • Reading: Chapters 2 and 3.
  • Learn more: Data Sources
Week 5
  • Lecture: Sequence alignment and Needleman-Wunsch (global alignment).
  • Lab: No new assignment.
  • Reading: Chapter 3.
  • Learn more: Bioinformatics Resources
Week 6
  • Lecture: Biopython and sequence alignment, Activity 04.
  • Lab: Sequence analysis.
  • Reading: Chapters 3 and 4.
  • Learn more: Assignments
Week 7
  • Lecture: Fall break, no class.
  • Lab: No lab.
  • Activity: Activity 05 BuildADatabase.
  • Learn more: Assignments
Week 8
Week 9
  • Lecture: Substitution matrices (PAM, BLOSUM). Test week: Activity 06 (video).
  • Lab: See last week’s lab.
  • Learn more: Assignments
Week 10
Week 11
  • Lecture: Protein research websites, Activity 08.
  • Lab: Hand out.
  • Learn more: Data Sources
Week 12
  • Lecture: Final project assignment.
  • Lab: Hand out.
  • Learn more: Assignments
Week 13
Week 14
  • Lecture: Activity 09 and Activity 10.
  • Lab: Hand out.
  • Learn more: Assignments
Week 15
Week 16