BIOL368/F14:Nicole Anguiano Week 9: Difference between revisions
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! Visit !! Type !! Number of Differences !! Percentage Different | ! Visit !! Type !! Number of Differences !! Percentage Different | ||
|- | |- | ||
| 1 || Amino Acids || 37 | | 1 || Amino Acids || 37 || 37/95 = 38.9% | ||
|- | |||
| 1 || DNA || 69 || 69/287 = 24% | |||
|- | |||
| Final || Amino Acids || 45 || 45/95 = 47.3% | |||
|- | |||
| Final || DNA || 79 || 79/287 = 27.5% | |||
|- | |||
| Both || Amino Acids || 49 || 49/95 = 51.6% | |||
|- | |||
| Both || DNA || - || - | |||
|} | |||
*<b>Table 1</b> | |||
===Conclusions=== | ===Conclusions=== |
Revision as of 14:54, 22 October 2014
HIV Structure Project
- The project will be done using the following sequences (the txt file containing all of the relevant amino acid sequences is linked to the name of the progressor group):
Group | Subject | Visit | Sequences |
---|---|---|---|
AIDS Diagnosed | 3 10 15 |
1 6 1 6 1 4 |
1, 2, 4 3, 4, 5 3, 6, 7 2, 4, 8 2, 3, 4 5, 8, 10 |
AIDS Progressing | 7 8 14 |
1 5 1 7 1 9 |
2, 3, 9 2, 8, 9 1, 4, 5 1, 6, 7 2, 3, 4 9, 10, 11 |
No Trend | 5 6 13 |
1 5 1 9 1 5 |
1, 3, 8 4, 5, 2 1, 2, 3 6, 7, 9 1, 3, 4 3, 5, 4 |
- For more detail on the subjects, see week 8.
- The amino acid sequences were obtained from the Bedrock HIV Problem Space.
Results and Methods
- On this page, I will be specifically examining the protein sequences from the AIDS diagnosed patients, subject 3, subject 10, and subject 15.
- I began by obtaining the amino acid sequences from the Bedrock HIV Problem space. Then, I navigated to the Biology Workbench. I selected "Session Tools" and created a new session called "AIDS Diagnosed". Then I went to "Protein Tools" and hit "Add". I uploaded the file containing all of the amino acid sequences, then selected "Upload File".
- I selected all of the visit 1 clones and selected "ClustalW" and submitted it with the default settings. Then, I ran a ClustalW on all the final visit clones, and lastly I ran a ClustalW on all the clones over all the visits.
- Next, I switched to the "Nucleic Acid Tools". I uploaded the DNA sequences of the clones that correspond to the amino acid sequences. I then ran a clustalW on the first visit clones, the final visit clones, and then lastly all the clones to get a comparison of the number of differences between the amino acid sequences and the DNA sequences.
Visit | Type | Number of Differences | Percentage Different |
---|---|---|---|
1 | Amino Acids | 37 | 37/95 = 38.9% |
1 | DNA | 69 | 69/287 = 24% |
Final | Amino Acids | 45 | 45/95 = 47.3% |
Final | DNA | 79 | 79/287 = 27.5% |
Both | Amino Acids | 49 | 49/95 = 51.6% |
Both | DNA | - | - |
- Table 1
Conclusions
Presentation Link
Links
Nicole Anguiano
BIOL 368, Fall 2014
Assignment Links
- Week 1 Assignment
- Week 2 Assignment
- Week 3 Assignment
- Week 4 Assignment
- Week 5 Assignment
- Week 6 Assignment
- Week 7 Assignment
- Week 8 Assignment
- Week 9 Assignment
- Week 10 Assignment
- Week 11 Assignment
- Week 12 Assignment
- Week 13 Assignment
- Week 15 Assignment
Individual Journals
- Individual Journal Week 2
- Individual Journal Week 3
- Individual Journal Week 4
- Individual Journal Week 5
- Individual Journal Week 6
- Individual Journal Week 7
- Individual Journal Week 8
- Individual Journal Week 9
- Individual Journal Week 10
- Individual Journal Week 11
- Individual Journal Week 12
- Individual Journal Week 13
- Individual Journal Week 15