Integrating Bioinformatics and Molecular Visualization into the Undergraduate Curriculum

Understanding HIV / AIDS from a Bio-Math Perspective

Authors Audiences Overview Materials Resources Future Directions

Authors

Arlin Toro Universidad Interamericana de Puerto Rico	Alexandrine Randriamahefa Oakwood University	Errol Archibold Morehouse College
Rafael Tosado Universidad Interamericana de Puerto Rico	Sanjukta Hota Fisk University,Nashville

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Possible Audiences:

College Mathematics and Biological Sciences Faculty and students.

Brief Overview:

This module uses an inquiry-based approach using video, mathematical modeling, world mapping, and bioinformatics to follow the progression and understanding of HIV-AIDS. The problem is designed for undergraduate students in the life sciences and mathematics. Using global health cases, visualization data, and mathematical models, students working collaboratively will share what they know about HIV-AIDS. A mathematical model will enable them to compute the intensity of the HIV-AIDS epidemic, calculate the half-life of disease progression, and measure the effects of interventions. Based on Markham data (as referenced by Sam Donovan), students will be able to design questions to correlate, classify, and compare CD4 counts and various HIV clones as well as build phylogenetic trees.

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Project Materials:

1. Markham HIV data set, revised by S. Donovan
2. Warkham data summary and references

Resources and References:

1. Gap minder
2. Information related to HIV statistics around the world
3. World mapper
4. NCBI
5. Clustal W shape/motif/
6. ConSurf
CD4/gp120 3D-model prediction
7. Work Bench
8. NCBI BLAST
9. Mathematica
10. Markham RB, Wang WC, Weisstein AE, Wang Z, Munoz A, Templeton A, Margolick J, Vlahov D, Quinn T, Farzadegan H, Yu X-F. 1998. Patterns of HIV-1 evolution in individuals with differing rates of CD4 T cell decline. Proc. Natl. Acad. Sci. USA 95: 12568-12573. The original paper presenting and analyzing the data on which this problem space is based.
11. Burks J, Ward L, Hota S, Gunasekaran G. Mathematical Modeling of HIV/AIDS Epidemic; In Press for publication in NCUR Proceedings
12. AVERT: AVERTing HIV and AIDS
13. Kuby Immunology, 6th Ed. 2007 W.H. Freeman and Co.
14. National Institute of Allergy and Infectious Diseases: 15. http://www.niaid.nih.gov/DAIDs/dtpdb/graphics/cellbin.gif

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Future Directions:

In the future we are going to pu the data for the Mathematical model on an excell Sheet in order to publish it on the BioQuest ESTEEM project. We would also like to build matrices

Attachments

- Markham_dataset_summary_and_refs.pdf
- HIV AIDS MATH BIO.pptx

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