GRNmap Testing Report: Non-1 Initial Weight Guesses 2015-05-28
From OpenWetWare
This is a template page for various GRNmap model tests.
Code Version: from BIO398 Spring 2015
MATLAB Version: 2014b
Computer on which the model was run:
wt and dHMO, Initial Weight Guess: 0
- input.xlsx
- output.xlsx
- zipped figures
- analysis.xlsx containing bar graphs
Condition of Test
- input.xlsx
- output.xlsx
- zipped figures
- analysis.xlsx containing bar graphs
Condition of Test
- input.xlsx
- output.xlsx
- zipped figures
- analysis.xlsx containing bar graphs
Results and Discussion
- Examine the graphs that were output by each of the runs. Which genes in the model have the closest fit between the model data and actual data? Which genes have the worst fit between the model and actual data? Why do you think that is? (Hint: how many inputs do these genes have?) How does this help you to interpret the microarray data?
- Which genes showed the largest dynamics over the timecourse? In other words, which genes had a log fold change that is different than zero at one or more timepoints. The p values from the Week 11 ANOVA analysis are informative here. Does this seem to have an effect on the goodness of fit (see question above)?
- Which genes showed differences in dynamics between the wild type and the other strain your group is using? Does the model adequately capture these differences? Given the connections in your network (see the visualization in GRNsight), does this make sense? Why or why not?
- Examine the bar charts comparing the weights and production rates between the two runs. Were there any major differences between the two runs? Why do you think that was? Given the connections in your network (see the visualization in GRNsight), does this make sense? Why or why not?
- What other questions should be answered to help us further analyze the data?
