Msaeedi23 Week 12

• Link to team page: https://xmlpipedb.cs.lmu.edu/biodb/fall2015/index.php/The_Class_Whoopers

Week 12

• This week there were no specific tasks that were required to be completed; we kept working on the team projects and what each specific role should be doing.
• After analyzing the microarray paper last week, Lena and I were then started analyzing the data.

GenMAPP User

Locating the Sample Data

• The first step in the data retrieval was to locate the sample files that needed to be downloaded from the microarray paper site, found at: [1].
  • Dr. Dahlquist assisted us in choosing which files to download as well as how to prepare them for Excel.
  • All of the six sample files were downloaded and saved to the computer.
• Each of the files were unzipped once, and then unzipped again in order to access them in a suitable manner for the assignment, to be opened in Exel.
  • Once all six of the files were unzipped, I opened each of them in Excel in order to get the data in the column spreadsheet form.

Working in Excel

• I created a new workbook that would contain the final compressed data that is to be eventually exported as one file.
  • After opening each of the sample files in Excel, I copied the list of Gene IDs from one of the samples and pasted it into the new workbook I started.
  • Now that the Gene ID column was formed, I was then started pasting the desired data columns in from each of the different samples.
  • From each of the six samples, I copied and pasted the "Log Ratio" column into my new workbook and titled each of the columns so that they represented the appropriate samples in an orderly fashion.
• Our next task is to perform the correct data manipulations and corrections in order to make the data file ready to be exported for testing and analysis.
  • Lena and I completed these construction steps side-by-side and we plan on continuing the Excel work together in order to check our work.
• The current Excel data worksheet we have constructed: File:Bpertussis CompiledRawData MS2015.xlsx

Change of Duties

As of now I am no longer a GenMAPP user and will take over the roll of Quality Assurance and work directly with Brandon. I will still be assisting Lena with data configuration as she needs help.

Mahrad Saeedi

Class Whoopers Team Page

• <https://xmlpipedb.cs.lmu.edu/biodb/fall2015/index.php/The_Class_Whoopers>

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 Journals

• 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

Shared Journals

• 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
• The_Class_Whoopers Week 10
• The_Class_Whoopers Week 11
• The_Class_Whoopers Week 12
• The_Class_Whoopers Week 14
• The_Class_Whoopers 15