User talk:Margaret J. Oneil

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Week 7 Feedback

Your model is an interesting attempt to model respiration and fermentation, but it needs a little work. You've introduced an interesting feedback from the Alc production and Glu consumption components into the conversion of NH4 and Glucose to yeast, but more thinking on this may lead to a better model.

  • Isn't the Glucose consumption just the final term of the c2 equation? That is the rate at which Glucose is converted to yeast...
  • If a is Glucose consumption, should it flow in and out (that is, are the q terms necessary)?
  • If a is Glucose consumption, should it decreasing or increasing over time?
  • Your rate variable m models an "OR" situation, in which a can be replaced by f (or vice versa) to maintain the same rate of consumption.
  • Given the constant "per yeast" flux rate of NH4, should this modified rate variable appear in the nitrogen equation?
  • The Albertin paper suggests yeast biomass level is related to the change-over between respiration and fermentation.
  • Your Week 7 journal has a lot of broken links concerning derivation notes.
  • We'd like you to have another go at your model. Do you need the Glucose consumption variable? How does fermentation output feed back into glucose consumption if we don't model the latter with its own explicit state variable? How do we square Albertin et al's observation with our modeling choices?

Ben G. Fitzpatrick 22:28, 13 March 2017 (EDT)

Week 3 Redux

As you noted in your shared reflection, your individual assignment for this week was late by about an hour and your shared reflection was late by about 10 minutes. You will need to begin your assignments sooner so that you are not bumping up against the deadline. Your assignment was also incomplete with just 9 definitions and discussion of Figures 1C, 2, and 3 missing, as well as the conclusion and future directions.

  • You provided in text citations for your definitions, but it was unclear to which actual citation in the reference list they belonged to. It was easy to figure out, but a best practice is that an in text citation needs to be unambigous.
  • Also, please add the DOI to the citation style for a journal article. Since Google Scholar does not provide them automatically, you will need to get it from the article itself or from PubMed.
  • As for the Northerns, it would have been ideal if they had used the same reference gene throughout. It is likely that the different genes were used out of expediency. Maybe one person did it with one reference and the other used a different one and they didn't want to (have resources) to do the experiment over again. We'll never know.

Kam D. Dahlquist 18:18, 14 February 2017 (EST)

Week 1 Redux

I reviewed the updates you made for the Week 1 assignment. You wrote something in the summary field for 49 out of the last 50 contributions, excellent work! You made all of the requested changes on time except for the following:

  • Your links internal to the wiki are using the syntax for external links, especially on your template.
  • Your Acknowledgments statement and signature and References section are still missing.
  • You did not fix the link from the shared journal page to your user page.

Kam D. Dahlquist 01:45, 14 February 2017 (EST)

Week 1 Feedback

  • Thank you for submitting your Week 1 assignment on time.
  • You can delete the automated text on the bottom of this page (or keep it if you want).
  • You completed the assignment except for the following:
    • You wrote something in the summary field when changing your user page 38 out of 52 times (73%), which is pretty good, but we are aiming for 100%.
    • You created a new wiki page for your week 2 individual journal, but since you did not save any changes on that page, it is appearing as a redlink. To complete this, add some content to that page.
    • It would be appreciated if you would link to my and Dr. Fitzpatrick's own webpages instead of the LMU versions at and At least for me, it is updated more often.
    • You added the category to your user page, but you need to add it to your template page.
    • You created, but did not invoke your template on your user page. As discussed in class today, you should make a list on your template of all the course assignment pages, your individual journal entries, the shared class entries, and a link to your User page, as well as the category, mentioned above.
    • The link from your user page to the shared journal was also missing because you did not invoke your template on your user page.
    • On the shared page, the link to your user page is a redlink because of a typo. After saving your work, be in the habit of reviewing what it looks like to see if there are any formatting mistakes that show up.
    • Your acknowledgments and references sections were missing. These are mandatory for all individual journal assignments.
  • You can make up the points you lost on this assignment by completing these requested changes by the Week 3 deadline, midnight Feb. 2.
  • I was interested to know how you see the world in patterns. See my response to your question on my user talk page.

Kam D. Dahlquist 18:19, 24 January 2017 (EST)