Chris Rhodes Week 5: Difference between revisions

Revision as of 14:37, 28 September 2011

To create ClustalW alignments and phylogenetic trees for the chosen subjects(3,7,11,12,13, and 14) each subject's sequence datawas uploaded onto Workbench each as a separate session. For Subjects 7 and 14 only selected clones were used. For Subject 7 all the clones from visits 1,3, and 5 were used and for Subject 14 all the clones from visits 5,6,7, and 9.

For each subject's clones a ClustalW alignment was run using default parameters to generate both the rooted and unrooted phylogenetic trees.
Subject 3

@@ Line 1: / Line 1: @@
 ==Methods==
+*To create ClustalW alignments and phylogenetic trees for the chosen subjects(3,7,11,12,13, and 14) each subject's [http://bioquest.org/bedrock/problem_spaces/hiv/nucleotide_sequences.php sequence data]was uploaded onto [http://workbench.sdsc.edu/ Workbench] each as a separate session. For Subjects 7 and 14 only selected clones were used. For Subject 7 all the clones from visits 1,3, and 5 were used and for Subject 14 all the clones from visits 5,6,7, and 9.
+[[Image:CHR_Image1_20110928.jpg |Workbench Sessions]]
+*For each subject's clones a ClustalW alignment was run using default parameters to generate both the rooted and unrooted phylogenetic trees.
+*Subject 3
+[[Image:CHR_Image2_20110928.jpg | Subject 3 Unrooted Tree]]
 ==Links==
 {{Chris H. Rhodes}}