Rlegaspi Week 15
From LMU BioDB 2015
Revision as of 23:21, 10 December 2015 by Rlegaspi (Talk | contribs) (→Compiling Raw Data and Statistical Analysis: Inserting files for GenMAPP, procedure descriptions to follow.)
Contents
Shewanella oneidensis
Our Gene Database Testing Report
Group Paper - File:Final Report 20151218 2 HMH.docx
Group Members
- Coder: Mary Alverson
- GenMAPP User & Project Manager: Ron Legaspi
- Quality Assurance: Josh Kuroda
- GenMAPP User: Emily Simso
Important Links
Our Files
Our Deliverables
| Gene Database Project Links | |||||||
|---|---|---|---|---|---|---|---|
| Overview | Deliverables | Reference Format | Guilds | Project Manager | GenMAPP User | Quality Assurance | Coder |
| Teams | Heavy Metal HaterZ | The Class Whoopers | GÉNialOMICS | Oregon Trail Survivors | |||
| Individual Journal Entries | ||||
|---|---|---|---|---|
| Mary Alverson | Week 11 | Week 12 | Week 14 | Week 15 |
| Emily Simso | Week 11 | Week 12 | Week 14 | Week 15 |
| Ron Legaspi | Week 11 | Week 12 | Week 14 | Week 15 |
| Josh Kuroda | Week 11 | Week 12 | Week 14 | Week 15 |
Goals for Week 15
Data Preparation and Statistical Analysis for GenMAPP
- Consult with Dr. Dahlquist on how to process the data (normalization, statistics)
- Perform the statistical analysis in Excel.
- Format the gene expression data for import into GenMAPP.
*Similar to goals from Week 14.
Summary of Progress and Procedure
Compiling Raw Data and Statistical Analysis
December 8, 2015
- Calculated averages from the split data
- Discovered that there are a total of 5408 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
- Excel file after all of these procedures were uploaded to XMLPipeDB and link to file is as follows: File:StatisticalAnalysis Shewanella RARL 20151207 HMH.xlsx
December 10, 2015
Preparing compiled raw data for GenMAPP and creation of a .txt file
File:StatisticalAnalysis Shewanella RARL 20151210 HMH.xlsx
.txt file: File:CompiledRawDataforGenMAPP Shewanella RARL 20151210 HMH.txt
External Links
Ron Legaspi
BIOL 367, Fall 2015
Assignment Links
- Week 1 Assignment
- Week 2 Assignment
- Week 3 Assignment
- Week 4 Assignment
- Week 5 Assignment
- Week 6 Assignment
- Week 7 Assignment
- Week 8 Assignment
- Week 9 Assignment
- Week 10 Assignment
- Week 11 Assignment
- Week 12 Assignment
- Week 14 Assignment
- Week 15 Assignment
Individual Weekly Journals
- Individual Journal Week 1 - This is my User Page
- Individual Journal Week 2
- Individual Journal Week 3
- Individual Journal Week 4
- Individual Journal Week 5
- Individual Journal Week 6
- Individual Journal Week 7
- Individual Journal Week 8
- Individual Journal Week 9
- Individual Journal Week 10
- Individual Journal Week 11
- Individual Journal Week 12
- Individual Journal Week 14
- Individual Journal Week 15
