BIOL398-03/S13:Class Journal Week 13

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Reflection

Kevin Matthew McKay 01:44, 17 April 2013 (EDT)

Laura Terada

Laura Terada

  1. Look over the excel workbook input file. How might you change the network to add more genes/transcription factors?
    • In the Excel spreadsheet, you can add more columns/rows to add more genes/transcription factors to run.
  2. How might you run a computer experiment to examine the deletion of a gene?
    • Instead of 1, you could input a value of 0 to show that there is a deletion. This change will show how the deletion affects other genes/transcription factors.
  3. Return to the chemostat. In concept, without worrying about creating matlab code, how might you use the least squares technique to get parameters from the ter Schure et al experiments?
  4. Read over the Vu and Vhoradsky paper in this week's reading list. Is the method of the paper different from that in class? If so, in what ways?

Week 13 Ashley Rhoades

  • How might you change the network to add more genes/transcription factors?
    • Add more transcription factors
  • How might you run a computer experiment to examine the deletion of a gene?
    • Delete a gene or alter its transcription to zero to look at the effect on the other genes.
  • Return to the chemostat. In concept, without worrying about creating matlab code, how might you use the least squares technique to get parameters from the ter Schure et al experiments?
    • You could look a best fit line of the ter Schure data to estimate the parameters
  • Read over the Vu and Vhoradsky paper in this week's reading list.Is the method of the paper different from that in class? If so, in what ways?
    • Vu and Vhoradsky set limit of parameters to 500.They looked at cyclin networks.
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