Difference between revisions of "Vpachec3 Week 12"
From LMU BioDB 2015
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| − | + | ==Thursday, November 19== | |
| + | *Met with Dr. Dahlquist before class to talk about the paper | ||
| + | **Took note of the microarray data versus the qPCR results. Some results were off and will keep that in mind during our analysis | ||
| + | *GenMapp users with Dr.Dahlquist during class to go over progress | ||
| + | **Rough summary of experiment design: | ||
| + | **5 untreated biofilms vs. genomic DNA | ||
| + | **3 tobramycin-treated biofilm vs. genomic DNA | ||
| + | *Noticed that our sdrf file was imputed wrong | ||
| + | *Need to ask authors what they did with the dye swaps | ||
| + | *Started computing master raw data | ||
| + | **For each text file(8), we are copying rows M(gene name) and R (log ratio) into one data sheet | ||
| + | ***Decided to make names side by side for our own organization style | ||
| + | ***Made three sheets in the file:allgenename_logratio, genename_logratio, clean_genename_logratio | ||
==Links== | ==Links== | ||
[https://xmlpipedb.cs.lmu.edu/biodb/fall2015/index.php/User:Vpachec3 Vpachec3 User Page] | [https://xmlpipedb.cs.lmu.edu/biodb/fall2015/index.php/User:Vpachec3 Vpachec3 User Page] | ||
[[Category: Journal Entry]] | [[Category: Journal Entry]] | ||
Revision as of 23:48, 19 November 2015
Thursday, November 19
- Met with Dr. Dahlquist before class to talk about the paper
- Took note of the microarray data versus the qPCR results. Some results were off and will keep that in mind during our analysis
- GenMapp users with Dr.Dahlquist during class to go over progress
- Rough summary of experiment design:
- 5 untreated biofilms vs. genomic DNA
- 3 tobramycin-treated biofilm vs. genomic DNA
- Noticed that our sdrf file was imputed wrong
- Need to ask authors what they did with the dye swaps
- Started computing master raw data
- For each text file(8), we are copying rows M(gene name) and R (log ratio) into one data sheet
- Decided to make names side by side for our own organization style
- Made three sheets in the file:allgenename_logratio, genename_logratio, clean_genename_logratio
- For each text file(8), we are copying rows M(gene name) and R (log ratio) into one data sheet
