Individual Journal Week 5

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(Saccharomyces Genome Database: question 3)
(Saccharomyces Genome Database: question 3 edit)
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* Find the SGD representation of the pathway we are working on in class and attach a screenshot and hyperlink to your journal page.  Choose the one that shows all of the reactions we talked about in class and make sure you can relate it to your notes, matching the genes, enzyme names, and reactants/products.
* Find the SGD representation of the pathway we are working on in class and attach a screenshot and hyperlink to your journal page.  Choose the one that shows all of the reactions we talked about in class and make sure you can relate it to your notes, matching the genes, enzyme names, and reactants/products.
[[Image:Screen Shot 2013-02-14 at 10.04.34 PM.png]]
[[Image:Screen Shot 2013-02-14 at 10.04.34 PM.png]]
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[http://pathway.yeastgenome.org/YEAST/NEW-IMAGE?type=PATHWAY&object=PWY3O-13]
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[http://pathway.yeastgenome.org/YEAST/NEW-IMAGE?type=PATHWAY&object=PWY3O-13| SGD Representation]
* What parameters for these reactions can you find using this database?  ''HINT:  the literature portion of the individual gene pages may be helpful.''
* What parameters for these reactions can you find using this database?  ''HINT:  the literature portion of the individual gene pages may be helpful.''

Revision as of 02:08, 15 February 2013

Saccharomyces Genome Database

  • Which of these genes has a homolog (similar gene related by descent) in humans? What disease does a deficiency of this gene cause in humans?
    • GDH2 has a homologue in humans and can result in hyperinsulinism-hyperammonemia syndrome and various neurological disorders as a result of deficiencies.
  • How is the expression of each of these genes regulated?
    • GDH1: expression regulated by nitrogen and carbon sources
    • GDH3: expression regulated by nitrogen and carbon sources
    • GDH2: expression sensitive to nitrogen catabolite repression and intracellular ammonia levels
    • GLN1: expression regulated by nitrogen source and by amino acid limitation
    • GLT1: expression regulated by nitrogen source
  • Using the compound search tool of SGD, search on "L-glutamate". How many pathways does it participate in?
    • As a product L-glutamate participates in 30 pathways. As a reactant it participates in 26 pathways.
  • Find the SGD representation of the pathway we are working on in class and attach a screenshot and hyperlink to your journal page. Choose the one that shows all of the reactions we talked about in class and make sure you can relate it to your notes, matching the genes, enzyme names, and reactants/products.

Image:Screen Shot 2013-02-14 at 10.04.34 PM.png SGD Representation

  • What parameters for these reactions can you find using this database? HINT: the literature portion of the individual gene pages may be helpful.
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