Amanda N. Wavrin Week 13
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GenMAPP and MAPPfinder
- Changed the gene database to the V. cholerae database
- Expression Dataset Manager converted our data
- There were 772 errors
- Customized the new Expression Dataset by creating new Color Sets
- Saved the .gex file to lionshare
- Saved the MAPPFinder results to the desktop and ran MAPPFinder
- Top 10 Gene Ontology terms for criteria 1-Deacreased:
- Protein folding
- Unfolded protein binding
- Cytoplasm
- Cis-trans isomerase activity
- Peptidyl-prolyl-cid-trans isomerase activity
- Chorismate metabolic process
- Aromatic amino acid family biosynthetic process
- Protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
- Phosph0enolpyruvate-dependent sugar phosphotransferase system
- Intracellular part
- Searched the MAPPFinder browser for specific genes to find GO terms associated with each:
- VC0028: Not found
- VC0941: Not found
- VC0869: Not found
- VC0051: Not found
- VC0647: Biological process- mRNA catabloic process, biological process- RNA processing, cellular component- cytoplasm, molecular function- RNA binding, catalytic activity- 3'-5' exoribonuclease activity,catalytic activity- transferase activity, catalytic activity-nucleotidyltransferase activity, catalytic activity- polyribonucleotide nucleotidyltransferase activity
- VC0468: Not found
- VC2350: Not found
- VCA0583: Biological process- transport, cellular component- envelope (cell envelope) outer membrane-bound periplasmic space, molecular function- transporter activity
- Clicked on mRNA catabolic process from Gene VC0647 to get all fo the genes associated with this term. Gene CSRA_VIBCH showed no significant change. Gene PNP_VIBCH showed decreased expression.
- Uploaded this MAPP to my lionshare
- The function of this gene is mRNA breakdown or catabolism. This is the chemical reactions and pathways resulting in the breakdwon of mRNA.
- Autofiltered the spreadsheets for increasing and decreasing expression and uploaded them
MAPPFinder criterion
Presentation
Useful Links
- My User Page
- Open wetware Help Page
- Yahoo Home Page
- Class Journal Week 2
- Class Journal Week 3
- Class Journal Week 4
- Class Journal Week 5
- Class Journal Week 6
- Class Journal Week 7
- Class Journal Week 8
- Class Journal Week 9
- Class Journal Week 11
- Class Journal Week 12
- Class Journal Week 13
Weekly Journals
- Amanda N. Wavrin Week 2
- Amanda N. Wavrin Week 3
- Amanda N. Wavrin Week 4
- Amanda N. Wavrin Week 5
- Amanda N. Wavrin Week 6
- Amanda N. Wavrin Week 7
- Amanda N. Wavrin Week 8
- Amanda N. Wavrin Week 9
- Amanda N. Wavrin Week 11
- Amanda N. Wavrin Week 12
- Amanda N. Wavrin Week 13
