GRNmap Testing Report: Strain Run Comparisons 2015-05-27

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Code Version: "current" version from Dr. Fitzpatrick 2014-09-18

MATLAB Version: 2014a

Computer on which the model was run: SEA120-03

  • Last two test categories (wt+dCIN5+dZAP1 and wt+dCIN5+dZAP1+dGLN3) cannot be run on SEA120-03 because the computer only has MATLAB 2014b. Error displayed when Fitzpatrick's code version is run:
Undefined function 'max' for input arguments of type 'matlab.graphics.GraphicsPlaceholder'.

Error in GRNmodel (line 15)
nfig        = max(figHandles);
  • For the first ten categories, we will upload data obtained from September 2014. To see if we can run the last two categories on 2014b without any glaring differences, we will first test wt alone on both 2014a (with Fitzpatrick's fall version of the code) and 2014b (with the code from the class BIOL398-04/S15). If the differences in estimated parameters are negligible, we could move on to run the last two categories (wt+dCIN5+dZAP1 and wt+dCIN5+dZAP1+dGLN3).
    • New code version: from BIO398 (Note: file zipped with code was used to test wt)
    • MATLAB version: 2014b
    • Computer on which the model was run: SEA201-03


To get the LSE & the penalty term, type the following: 

Code for LSE:
GRNstruct.GRNOutput.lse_out

Code for Penalty
GRNstruct.GRNOutput.reg_out

wt alone

dCIN5 alone

dGLN3 alone

dHMO1 alone

dZAP1 alone

All Strains

wt vs. dCIN5

  • input.xlsx
  • output.xlsx
  • zipped figures
  • analysis.xlsx containing bar graphs
  • LSE:
  • Penalty term:

wt vs. dGLN3

  • input.xlsx
  • output.xlsx
  • zipped figures
  • analysis.xlsx containing bar graphs
  • LSE:
  • Penalty term:

wt vs. dHMO1

  • input.xlsx
  • output.xlsx
  • zipped figures
  • analysis.xlsx containing bar graphs
  • LSE:
  • Penalty term:

wt vs. dZAP1

  • input.xlsx
  • output.xlsx
  • zipped figures
  • analysis.xlsx containing bar graphs
  • LSE:
  • Penalty term:

wt + dCIN5 + dZAP1

  • input.xlsx
  • output.xlsx
  • zipped figures
  • analysis.xlsx containing bar graphs
  • LSE:
  • Penalty term:

wt + dCIN5 + dZAP1 + dGLN3

  • input.xlsx
  • output.xlsx
  • zipped figures
  • analysis.xlsx containing bar graphs
  • LSE:
  • Penalty term:

Results and Discussion

  • What other questions should be answered to help us further analyze the data?
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