Difference between revisions of "AhmadWeek5"

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(answered the first couple questions, checking template)
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{{Salman Ahmad}}
 
 
 
==<i>Saccharomyces</i> Genome Database==
 
==<i>Saccharomyces</i> 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?
 
#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?
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#How is the expression of each of these genes regulated?
 
#How is the expression of each of these genes regulated?
 
#*GDH1- Expression is "regulated by nitrogen and carbon sources" [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=gdh1 GDH1]
 
#*GDH1- Expression is "regulated by nitrogen and carbon sources" [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=gdh1 GDH1]
#*GDH3-
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#*GDH3- Expression is "regulated by nitrogen and carbon sources" [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=gdh3 GDH3]
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#*GDH2- Expression is "sensitive to nitrogen catabolite repression and intracellular ammonia levels" [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=GDH2 GDH2]
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#*GLN1- Expression is "regulated by nitrogen source and by amino acid limitation" [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=gln1 GLN1]
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#*GLT1- Expression is "regulated by nitrogen source" [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=glt1 GLT1]
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#"L-glutamate". How many pathways does it participate in?
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#*It is in reactions as a reactant 26 times. It is in reactions as a product 29 times. [http://pathway.yeastgenome.org/YEAST/new-image?type=COMPOUND&object=GLT L-glutamate]
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[[Image:LglutamatePathway.gif]]
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[http://pathway.yeastgenome.org/YEAST/NEW-IMAGE?type=PATHWAY&object=PWY3O-13&detail-level=3 Pathway Image Source]
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==Kegg==
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[[Image:KeggPathway.jpg]]
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[http://www.kegg.jp/kegg-bin/show_pathway?sce00250 Pathway Image Source]
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*Kegg shows both the full amino acid sequence and full nucleotide sequence when you click on the enzyme name. SGD did not show this.
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==Reactome==
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[[Image:ReactomePathwayAhmad.jpg]]
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[http://www.reactome.org/entitylevelview/PathwayBrowser.html#DB=gk_current&FOCUS_SPECIES_ID=68322&FOCUS_PATHWAY_ID=2666285&ID=2659868&VID=6541595 Reactome Source]
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{{Salman Ahmad}}

Latest revision as of 23:54, 14 February 2013

Saccharomyces Genome Database

  1. 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; the homologs are GLUD1 and GLUD2. "Deficiencies in the human homologs of glutamate dehydrogenase, GLUD1 and GLUD2, have been linked to hyperinsulinism-hyperammonemia syndrome and various neurological disorders." GDH2
  2. How is the expression of each of these genes regulated?
    • GDH1- Expression is "regulated by nitrogen and carbon sources" GDH1
    • GDH3- Expression is "regulated by nitrogen and carbon sources" GDH3
    • GDH2- Expression is "sensitive to nitrogen catabolite repression and intracellular ammonia levels" GDH2
    • GLN1- Expression is "regulated by nitrogen source and by amino acid limitation" GLN1
    • GLT1- Expression is "regulated by nitrogen source" GLT1
  3. "L-glutamate". How many pathways does it participate in?
    • It is in reactions as a reactant 26 times. It is in reactions as a product 29 times. L-glutamate

LglutamatePathway.gif Pathway Image Source

Kegg

KeggPathway.jpg Pathway Image Source

  • Kegg shows both the full amino acid sequence and full nucleotide sequence when you click on the enzyme name. SGD did not show this.

Reactome

ReactomePathwayAhmad.jpg Reactome Source

Assignments

Useful links