Vpachec3 Week 15

MAPPFinder was launched from the GenMAPP window: "Tools" > "MAPPFinder".
"Calculate New Results" was selected from the MAPPFinder window.
Since the .gex file was already generated last week, "Find File" was selected and in the directory.
Under the "Select Color Set" field, "KWVP_20151205" was selected (the color set's name in this case is the same as the .gex file's name - and there's only one color set in the .gex file).
After the color set has been selected, under the "Select Criteria to filter by" field, either increase or decrease was chosen.
The boxes for "Gene Ontology" and "Click here to calculate p values..." were checked.
The location to save the resulting .txt file was selected with the "Browse" option toward the bottom of the window.
"Run MAPPFinder" was selected to generate the gene ontology tree (and the aforementioned .txt files).
- The files generated can be found here:
  - For downregulated GO terms.
  - For upregulated GO terms.

The GO term files above were opened in Excel, and the following filters were placed on the given columns:
- Z score: greater than 2
- PermuteP: less than 0.05
- Number changed: greater than or equal to 4 AND less than 100
- Percent changed: great than or equal to 15
Values in the following columns were recorded:
- Number Changed
- Number Measured
- Number in GO
- Percent Changed
- Percent Present
- PermuteP
- AdjustedP
Some of the above filter criteria had to be adjusted to attain 16 non-redundant GO terms. A list of these terms is shown below. For those terms which did not exactly fit this initial criteria, the altered criteria is apparent in the values on the table.

MAPP Making

TO DO

Weekly Group Assignments

Shared Group Journals

Project Links

Team Members