AVM BIOL368 Week 5: Difference between revisions

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==Data and Files==
==Data and Files==
 
[[Media:Bioinformatics_Week_5_AVM_Biol368.docx | Week 5 Journal]]


==Conclusion==
==Conclusion==
Refer to attached word document in the '''data and files''' section
Refer to attached word document in the '''data and files''' section
==Brief Research Outline==
*Determine final subjects to use from the study
*Rerank subjects based on viral load values
*Possibly calculate a P value
*Use Biology Workbench to determine theta and the S value
**Use these values to determine diversity among the subjects used
*Generate phylogenetic trees to back up any evidence on how subjects should be classified
*Create new tables and graphs from this data
*Create a powerpoint


==Acknowledgments==
==Acknowledgments==
*Special thanks to Glenn Johnson-Grau, the LMU Acquisitions & Collection Development Librarian for his help with the annotated bibliographies.
*Special thanks to Glenn Johnson-Grau, the LMU Acquisitions & Collection Development Librarian for his help with the annotated bibliographies.
*
*Worked in collaboration with [[User:Courtney L. Merriam| Courtney L. Merriam]] in class.
*Template followed from hard-copy protocol as well as our week 5 assignment [http://openwetware.org/wiki/BIOL368/F16:Week_5 BIOL368/F16]
*Help from our professor, [[User:Kam D. Dahlquist|Dr. Dahlquist]] in class.
*Note: While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.


==References==
==References==
Line 27: Line 40:
#* [http://archives.drugabuse.gov/pdf/monographs/download109.html Table of contents and link to download].
#* [http://archives.drugabuse.gov/pdf/monographs/download109.html Table of contents and link to download].
<!--# Cohen MS, Hellmann N, Levy JA, DeCock K, Lange J. The spread, treatment, and prevention of HIV-1: evolution of a global pandemic. J Clin Invest. 2008 Apr;118(4):1244-54. [http://www.jci.org/articles/view/34706 Publisher Full text] [http://www.jci.org/articles/view/34706/pdf PDF].-->
<!--# Cohen MS, Hellmann N, Levy JA, DeCock K, Lange J. The spread, treatment, and prevention of HIV-1: evolution of a global pandemic. J Clin Invest. 2008 Apr;118(4):1244-54. [http://www.jci.org/articles/view/34706 Publisher Full text] [http://www.jci.org/articles/view/34706/pdf PDF].-->
#[http://libguides.lmu.edu/BIOL368 LibGuides]
#[http://sq4ya5rf2q.search.serialssolutions.com/ LMU Library Journal Catalog]
#[https://www.ncbi.nlm.nih.gov/pubmed PubMed]
#[http://apps.webofknowledge.com/WOS_GeneralSearch_input.do?product=WOS&search_mode=GeneralSearch&SID=3BZqbuOLl3gvlR5B9fV&preferencesSaved= Web of Science]
#[https://scholar.google.com/ Google Scholar]


<!--Taken from Week 5 page--!>
<!--Taken from Week 5 page--!>
{{Template: Avery_Vernon-Moore}}
{{Template: Avery_Vernon-Moore}}

Latest revision as of 00:00, 4 October 2016

Purpose

  • To find research/papers for research assignment and generate an annotated bibliography (3 primary and 1 review article) based off of them. After completion we will also work on our group projects and start to research/ create our powerpoint.
    • We also presented our research topic ideas to the class to help finalize and refine them.


Methods and Results

Refer to attached word document in the data and files section


Data and Files

Week 5 Journal

Conclusion

Refer to attached word document in the data and files section

Brief Research Outline

  • Determine final subjects to use from the study
  • Rerank subjects based on viral load values
  • Possibly calculate a P value
  • Use Biology Workbench to determine theta and the S value
    • Use these values to determine diversity among the subjects used
  • Generate phylogenetic trees to back up any evidence on how subjects should be classified
  • Create new tables and graphs from this data
  • Create a powerpoint

Acknowledgments

  • Special thanks to Glenn Johnson-Grau, the LMU Acquisitions & Collection Development Librarian for his help with the annotated bibliographies.
  • Worked in collaboration with Courtney L. Merriam in class.
  • Template followed from hard-copy protocol as well as our week 5 assignment BIOL368/F16
  • Help from our professor, Dr. Dahlquist in class.
  • Note: While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.

References

  1. Markham, R.B., Wang, W.C., Weisstein, A.E., 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 U S A. 95, 12568-12573. doi: 10.1073/pnas.95.21.12568
  2. Vlahov, D., Anthony, J.C., Munoz, A., Margolick, J., Nelson, K.E., Celentano, D.D., Solomon, L., Polk, B.F. (1991). The ALIVE study, a longitudinal study of HIV-1 infection in intravenous drug users: description of methods and characteristics of participants. NIDA Res Monogr 109, 75-100.
  3. LibGuides
  4. LMU Library Journal Catalog
  5. PubMed
  6. Web of Science
  7. Google Scholar




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