Module 5:
Technical area:
- Implementing Gene ontology for colorectal cancer and plotting
- Implementing KEGG pathways enrichment analysis for up-regulated genes of colorectal cancer and showing that in barplot and dot plot
- Plotting Gene-concept network for KEGG pathways
- Plotting Gene-concept network for TFs
- Implementing GSEA
Soft skills:
- Finding a study design and suitable datasets for the case study of R Shiny app’s article
- Troubleshooting the errors that I was being got from implementing the codes
Tools:
- Enrichplot
- org.Hs.eg.db
- msigdbrmagrittr
- clusterProfiler
- enrichplot
- tidyr
- clusterProfiler
Achievements:
- Obtaining the pathways involved in colorectal cancer
- Obtaining GSEA plot
Hurdles:
I was getting an error while wanted to perform Gene-concept-analysis. So I searched about the problem and find the answer in one of the forums. I updated the clusterProfiler package and the problem was fixed.