James P. McDonald Week 5: Difference between revisions
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**GLN1: expression regulated by nitrogen source and amino acid limitation | **GLN1: expression regulated by nitrogen source and amino acid limitation | ||
**GLT1: expression regulated by nitrogen source | **GLT1: expression regulated by nitrogen source | ||
*There are 56 pathways listed in the database that L-glutamate participates | *There are 56 pathways listed in the database that L-glutamate participates in | ||
*Pathway | *Pathway: | ||
**[http://pathway.yeastgenome.org/YEAST/NEW-IMAGE?type=PATHWAY&object=PWY3O-13 SGD Pathway] | **[http://pathway.yeastgenome.org/YEAST/NEW-IMAGE?type=PATHWAY&object=PWY3O-13 SGD Pathway] | ||
**[[image:SGD_Pathway.jpg]] | **[[image:SGD_Pathway.jpg]] | ||
*Parameters: The literature contains parameters such as nitrogen feeds, carbon feeds, and conversion rates. | |||
===KEGG=== | ===KEGG=== | ||
*[http://www.kegg.jp/kegg-bin/highlight_pathway?scale=1.0&map=sce00250&keyword=glutamate KEG Pathway] | |||
*[[image:KEGG_Pathway_edit.jpg]] | |||
*This pathway contains a total of 19 enzymes/genes, and there are 12 present in yeast (highlighted). | |||
*The information provided in KEGG is similar to SGD but KEGG includes 3-D structures of the enzymes and AA and NT sequences. | |||
===Reactome=== | ===Reactome=== | ||
*[http://www.reactome.org/entitylevelview/PathwayBrowser.html#DB=gk_current&FOCUS_SPECIES_ID=68322&FOCUS_PATHWAY_ID=2666285&ID=2659808 Reactome Pathway] | |||
*[[image:Reactome_Pathway_edit.jpg]] | |||
{{James P. McDonald}} | {{James P. McDonald}} | ||
[[Category:BIOL398-03/S13]] | [[Category:BIOL398-03/S13]] |
Latest revision as of 19:20, 14 February 2013
Exploring Pathway Databases
Saccharomyces Genome Database
- GDH2 has a homolog in humans. A deficiency of the human homologs, GLUD1 and GLUD2, has been known to cause hyperinsulinism-hyperammonemia syndrome and various neurological disorders.
- Gene Expression Regulation:
- 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 amino acid limitation
- GLT1: expression regulated by nitrogen source
- There are 56 pathways listed in the database that L-glutamate participates in
- Pathway:
- Parameters: The literature contains parameters such as nitrogen feeds, carbon feeds, and conversion rates.
KEGG
- KEG Pathway
- This pathway contains a total of 19 enzymes/genes, and there are 12 present in yeast (highlighted).
- The information provided in KEGG is similar to SGD but KEGG includes 3-D structures of the enzymes and AA and NT sequences.
Reactome
Class Links
- James P. McDonald
- BIOL 398 Home Page
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