Matthew R Allegretti Week 4: Difference between revisions

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====Activity 2====
====Activity 2====
=====Part 1=====
=====Part 1=====
[[Image:Matthew R Allegretti Activity 2 Part 1 Tree.gif]]
*Figure 1: INSERT CAPTION
[[Image:Matthew R Allegretti Sequence_table_9-20.png]]
[[Image:Matthew R Allegretti Sequence_table_9-20.png]]
*Table 1: Caption
*Table 1: Caption
#Sketch your distance tree on paper so that you can make notes on it.
#Do the clones from  each subject cluster together?
#Do some subjects' clones show more diversity than others?
#Do some of the subjects cluster together?
#Write a brief description of your tree and how you interpret the clustering pattern with respect to the similarities and potential evolutionary relationships between subjects' HIV sequences.
#Copy and paste your tree from the Biology Workbench to share.
*[[Image:Matthew R Allegretti Activity 2 Part 1 Tree.gif]]
*Figure 1: INSERT CAPTION


=====Part 2=====
=====Part 2=====

Revision as of 16:06, 20 September 2016

Week 4 Assignment

Purpose

  • To determine if HIV in 15 injection drug subjects derives from a common source.

Methods and Results

  • Activity 2 Part 1 and 2 from Exploring HIV evolution: An opportunity for research.

Activity 2

Part 1

  • Table 1: Caption
  1. Sketch your distance tree on paper so that you can make notes on it.
  2. Do the clones from each subject cluster together?
  3. Do some subjects' clones show more diversity than others?
  4. Do some of the subjects cluster together?
  5. Write a brief description of your tree and how you interpret the clustering pattern with respect to the similarities and potential evolutionary relationships between subjects' HIV sequences.
  6. Copy and paste your tree from the Biology Workbench to share.
  • Figure 1: INSERT CAPTION
Part 2

Data and Files

Conclusion

Acknowledgments

While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.

References

  • Week 3 Instructions
  • Donovan, S., & Weisstein, A. E. (2003). Exploring HIV evolution: An opportunity for research. Stanley (Eds.), Microbes Count, 137-148.
  • Biology Workbench
  • Markham, R. B., Wang, W. C., Weisstein, A. E., Wang, Z., Munoz, A., Templeton, A., ... & Yu, X. F. (1998). Patterns of HIV-1 evolution in individuals with differing rates of CD4 T cell decline. Proceedings of the National Academy of Sciences, 95(21), 12568-12573. Retrieved from http://bioquest.org/bedrock/problem_spaces/hiv/Markham_1998.pdf

Useful links

Course Home Page

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