User talk:Laura Terada

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Week 12 Journal Feedback

  • Thank you for submitting your assignment on time.
  • Excellent job with the electronic notebook for the assignment!
  • Be careful about the difference between a gene and a GO term. The individual genes change expression; a GO term is associated with a group of genes.
  • Also be careful when discussing the 90 and 120 minute timepoints; the cells are at 30°C, recovering from the cold temperature, they are not acclimating to the cold.
  • There is an issue with your regulation matrix file from YEASTRACT. It should only include the transcription factors in the original network plus the new ones you chose to add. On the Generate Regulation Matrix page, you need to paste your list of transcription factors into both the "Transcripton Factors" and "ORFs/Genes" fields and do not check the box for "Check for all ORFs/Genes". Please remake this file and upload it to LionShare. Send me the link when you have done it.

Kam D. Dahlquist 18:33, 17 April 2013 (EDT)

Week 12 Shared Journal Feedback

  • For question 4 of the shared journal reflection, be careful in the way you state your answer. The profile and GO term p values do not refer to individual genes. The profile p value is a measure of the probability that you would see that many genes that fit that expression profile due to chance. The GO term p value is a measure of the probability that you would see that many genes in that profile associated with that GO term due to chance. The latter two p values are dealing with groups of genes, not individual genes. Also, the GO terms do not necessarily include transcription factors. There are GO terms specific for transcription, but most of the terms relate to other cellular processes. YEASTRACT was telling us about which transcription factors potentially regulate the genes in the cluster, not the GO terms.

Kam D. Dahlquist 13:38, 18 April 2013 (EDT)

Week 1 Journal Feedback

  • Thank you for submitting your assignment on time.






Week 2 Journal Feedback

  • Thank you for submitting your assignment on time.
  • Thank you for fixing the broken return link, too!
  • How might you model waste?

Ben G. Fitzpatrick 13:57, 4 February 2013 (EST)


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