Difference between revisions of "Emilysimso Week 15"
From LMU BioDB 2015
Emilysimso (Talk | contribs) (→GenMAPP: added details) |
Emilysimso (Talk | contribs) |
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*Red is increased, green is decreased | *Red is increased, green is decreased | ||
*Uploaded C5-C0, C20-C0, C60-C0, F5-C60, F20-C60, and F60-C60 into GenMAPP | *Uploaded C5-C0, C20-C0, C60-C0, F5-C60, F20-C60, and F60-C60 into GenMAPP | ||
| + | |||
| + | ===MAPPFinder=== | ||
| + | *Criteria: Zscore >2, Permute P<0.05, Number Changed > or equal to 4 < or equal to 100, Percent Changed > or equal to 50% | ||
==Files== | ==Files== | ||
Revision as of 23:35, 12 December 2015
Contents
Procedure
- Calculated averages from split data for each time point and replicate
- Total of 5409 genes
- Calculated biological averages of each time point
- Calculated AverageLogRatio comparing C5, C20, and C60 to C0 and F5, F20, and F60 to C60
- Subtracted not divided due to log space
- Performed TTest on the above relationships to get the Pvalue
- Performed Bonferroni
- Performed Benjamini & Hochberg
- Created new sheet forGenMAPP
- Did adjustments to prepare file for GenMAPP
- Saved as .txt and uploaded to wiki
GenMAPP
- Increase criterea = >0.25 AND B-H <0.05
- Decrease criterea <-0.25 AND B-H <0.05
- 1441 errors in the raw data
- Red is increased, green is decreased
- Uploaded C5-C0, C20-C0, C60-C0, F5-C60, F20-C60, and F60-C60 into GenMAPP
MAPPFinder
- Criteria: Zscore >2, Permute P<0.05, Number Changed > or equal to 4 < or equal to 100, Percent Changed > or equal to 50%
Files
- New spreadsheet
- File:UpdatedCompiledRawData Shewanella RARL 20151201 ES HMH forsplitting.xlsx
- Spreadsheet for GenMAPP
- .txt file for GenMAPP
Weekly Assignment Information
Assignments
- Week 1
- Week 2
- Week 3
- Week 4
- Week 5
- Week 6
- Week 7
- Week 8
- Week 9
- Week 10
- Week 11
- Week 12
- Week 13
- Week 14
- Week 15
Individual Journal Entries
- Emilysimso Week 2
- Emilysimso Week 3
- Emilysimso Week 4
- Emilysimso Week 5
- Emilysimso Week 6
- Emilysimso Week 7
- Emilysimso Week 8
- Emilysimso Week 9
- Emilysimso Week 10
- Emilysimso Week 11
- Emilysimso Week 12
- Emilysimso Week 13
- Emilysimso Week 14
- Emilysimso Week 15
Class Journal Entries
- Class Journal Week 1
- 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 10
- Class Journal Week 11
- Class Journal Week 12
- Class Journal Week 13
- Class Journal Week 14
- Class Journal Week 15
