This project was prepared as part of a BioQUEST faculty development workshop entitled BioQUEST Summer Workshop 2006: Exploring Complex Data Sets at Beloit College in June 2006. The BioQUEST Curriculum Consortium is committed to the reform of undergraduate biology instruction through an emphasis on engaging students in realistic scientific practices. This approach is sometimes characterized as an inquiry driven approach and is captured in BioQUEST's three P's (problem-posing, problem-solving, and peer-persuasion). As part of this workshop groups of faculty were encouraged to initiate innovative curricular projects. We are sharing these works in progress in the hope that they will stimulate further exploration, collaboration and development. Please see the following links for additional information:

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Malaria II - Microarray analysis tools
 
 
Authors          Audiences          Overview           Materials          Resources           Future Directions
 

 


Authors

 
   
 


Possible Audiences:

undergraduate biology instructors and students  

 
 


Brief Overview:

Building on the case scenario in Malaria I, we are modifying the Case It! software to simulate microarray analysis of Plasmodium genes. Probes and DNA samples related to the case are made available to the students, and students choose which genes they want to analyze. This will supplement the DNA alignment tools used in Malaria I.  

 
   
 


Project Materials:

Case scenario from Malaria I
Case It! software
Probe sequences from Affymetrix
Perl script for extracting probe sequences
Plasmodium chromosomal DNA sequences
Data table with gene descriptions
Research articles related to case scenario
 

 
 


Resources and References:

NCBI Gene Expression Omnibus data repository

Affymetrix Gene Expression microarray Learning Center

Affymetrix support - source of sequence data files

PlasmoDB sequence database  

 
   
 


Future Directions:

  • work with expression array data to make these large data sets accessible to students
  • continue modifying Case It software to include microarrays and other bioinformatics tools