Support #92
Differential expression analysis
Description
Conduct differential expression analysis on the samples.
The experiments are outlined in the RNAseq_analysis_8_May_2019 file.
History
Updated by Jon Ambler almost 6 years ago
- % Done changed from 0 to 10
Writing a script for this in python for repeatability.
Updated by Jon Ambler almost 6 years ago
- % Done changed from 10 to 20
Including this into the first python script so merging and splitting by experiment into the required files takes place together.
This is proving difficult as the sample naming is not consistent, and mapping the correct files is not clear.
Updated by Jon Ambler almost 6 years ago
- Status changed from New to In Progress
- % Done changed from 20 to 50
A list of the top differentially expressed genes have been created for the tissue data set.
This set includes genes known to be related with scarring and when presented to Relebohile and Ardeshir, they were happy that we were on the right track.
Preliminary GSEA was also conducted.
I am holding back going forward for now and focusing on finding out why some of the samples are showing high levels of sequence duplication.
Updated by Jon Ambler over 5 years ago
- % Done changed from 50 to 100
Initial differential analysis completed, comparing all groups in the tissue data set.
Results handed over.