Sample A: Cover Page of Thesis, Project, or Dissertation Proposal

Figure 3.3: Down selection models- Bhattacharjee predict Stearman. Clustering results summarized, for
kNN, RF and LDA classifier models, where training used the Bhattacharjee gene lists and testing was then
done on the Stearman data. Each graph shows the training set number on the y-axis and the cumulative
AUC value on the x-axis. The last column summarizes the performance at each selection level across the
three algorithms. Each row of graphs shows outcomes for a cleansing method (RMA, dCHIP and BAFL)
followed by t-test classification for DE results. The 4 sets of data resulting from additional selection criteria
are denoted by the same colors and are the same as described in the legend to Figure 3.2.
Author’s List (Validation)
The 325 DE ProbeSets were compared against the BaFL-passed genes in the author’s published
lists. The validation models incorporated minor perturbations, through random sampling of both
the training and testing sets, over 100 iterations to achieve a reasonable measurement of the
model’s classification performance [6, 12, 36, 37]. Figure 3.4 presents the results of training the
models using the Stearman dataset and testing on the Bhattacharjee data, and the three data
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