Analysis of genes changed between immortalized and metastasizing fibroblasts.
- Downloaded the read counts for SRP019968 from recount2 website. link
- Performed DEA with DESeq2 (FDR = 0.01, lfc = 1)
- Checked which DEGs also show a difference in protein abundance between normal tissue and cancer in the HPA.
- Performed network enrichment with NEArender using KEGG, Reactome and WikiPathways as FGS and PathwayCommons as network.
- Summarized the enrichment results with SUMER, performing 1 step using the AGS member genes and 2 step with all of each pathway's genes.