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Case Summary This case is based on a true story HIV+ dentist in Florida was accused of infecting several patients HIV sequences were obtained for the dentist and the patients The dentist was sued based on the sequence evidence
Citation preview
Molecular Forensics
Adapting a Case for Two
Different Course Levels
Molecular Forensics
Case Summary
This case is based on a true story HIV+ dentist in Florida was accused of
infecting several patients HIV sequences were obtained for the dentist
and the patients The dentist was sued based on the sequence
evidence
Goals Introduce Bioinformatics to students using case-
based learning
Suggest methods for upper level undergraduate course, e.g. molecular genetics (300), and lower level course such as microbiology (200)
Demonstrate to students that science is evolving and tools are evolving…science is not static
Steps for learning Introduce the case: Molecular Forensics Look at the “printed” data: HIV sequence data
Explore the difficulties of manually comparing sequences Explore options
Introduce Workbench Align sequences Pairwise sequence similarities Rooted and unrooted trees
Steps for learning – cont.
(In preparation: Module to show students how to interpret trees)
Use module with students to explore how to interpret trees
Analyze the case using new skills and come to a conclusion
Tree Module - Overview
Explanation of phylogenetic trees What do they show? What don’t they tell you? Are there different types of trees? Why?
Sample trees Correlating taxonomy with trees Practice in interpreting
Tree ModuleWritten Introduction to Trees
Possible ResourcesPhylogenetic TreesSusan CatesThis work is produced by The Connexions Project and licensed under the Creative Commons Attribution Licensehttp://cnx.org/content/m11052/2.8/
Comparing Phylogenetic TreesModule by: sam donovan This work is produced by The Connexions Project and licensed under the Creative Commons Attribution Licensehttp://cnx.org/content/m15807/latest/
Sample Trees Provide students with rRNA sequence data
from a variety of organisms, e.g. – Rabbit, frog, fungus and bacteria
Provide rooted and unrooted trees based on this data
Show students corresponding alignment
Sample Trees
Clustal WUnrooted Tree
http://Workbench.sdsc.edu
Clustal WRooted Tree
http://Workbench.sdsc.edu
Clustal WSequence Alignment
http://Workbench.sdsc.edu
Taking the Case Farther
Higher level courses..300 level and higher
Compare the HIV from the “dentist forensics” case with HIV sequences from other studies
Look at trees and interpret
Taking the Case Further
Lower level courses: 200 level and below
Take the rooted and/or unrooted trees produced from the case data and create a mobile which shows the relationships between samples