Phage Hunters: Comparative Genomics

Phage Hunters: Comparative Genomics
Phage genome annotation. Focus on experimental design and data analysis.
 Hours2.0 Credit, 0.0 Lecture, 6.0 Lab
 PrerequisitesMMBIO 194A
 NoteFor freshmen or sophomore students only. Requires two semester commitment.
 ProgramsContaining MMBIO 194B
Course Outcomes

DNA Preparation

Prepare DNA for sequencing

Archiving Samples

Archive phage samples and DNA samples (submit archived phage to HHMI)

Bioinformatic Software

Learn how to use bioinformatics software for the following:

  • DNA sequence alignment (Consed)
  • Primer design (Primer3)
  • Assessing ORFs for gene calls (GBrowse, Glimmer and GeneMark)
  • Homology assessment (BLAST and Phamerator)
  • Annotation (Apollo)
  • Comparative analysis (positional and functional)


Analyze, annotate and prepare to submit genome to GenBank (submit if possible)

Research Abstract

Prepare an abstract for a presentation of research data

Research Presentation

Prepare and deliver a research presentation (oral and poster)

Research Reading and Writing

Gain experience in research writing and reading of scientific papers