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Analysis of time-course microarray data using the ANCOVA framework

Analysis of time-course microarray data using the ANCOVA framework. Tzu L. Phang and Katherina Kechris University of Colorado Health Sciences Center. ANCOVA Significant Genes Stepwise Regression. Microarray Time Course Experimental Design and Analysis. Downsides of the previous approach.

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Analysis of time-course microarray data using the ANCOVA framework

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  1. Analysis of time-course microarray data using the ANCOVA framework Tzu L. Phang and Katherina Kechris University of Colorado Health Sciences Center

  2. ANCOVA Significant Genes Stepwise Regression Microarray Time Course Experimental Design and Analysis

  3. Downsides of the previous approach 1. ANCOVA violates the homogeneity of regression slope assumption 2. Contrast comparisons compared to a baseline factor, making non-baseline comparisons non-trivial 3. Only one categorical factor is allowed 4. No convenient tool for biologists to select comparison of interest

  4. Proposed Analysis Flow Model(Treatment + Strains + Time + Time2 + Interaction)

  5. Example Plot 1 Categorical Effect Time Effect Interaction Effect Example Plot 2 Categorical Effect Time Effect Interaction Effect Example Plot 3 Categorical Effect Time Effect Interaction Effect Results

  6. Conclusion • We have established a comprehensive statistical framework to study the effect of different variables for multiple-factors microarray time course data. • Each of these effects; categorical, continuous, and interaction, should be handled with appropriate methods (Tukey HSD, Johnson-Neyman, etc) • Future challenges: • Build a user friendly tool to select genes of interest amid the sea of interacting effects. • Establish the relationship between these effects across genes and experiments using network graphing technology.

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