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TinclG / PAS_analysis

Placenta Accreta Spectrum (PAS) disorders fall within the group of Placental Implantation Abnormalities. In this project we analysed differences in gene expression in the microenvironments of PAS and normal pregnancies.
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ReactomePA #14

Closed TinclG closed 2 years ago

TinclG commented 2 years ago

1.0_analysis/4.0_pcaExplore chunk 5: ReactomePA

#creating a vector of ENTREZID_ids 
Gene_ID<-ENS_res$ENTREZID_id

R_PA<-enrichPathway(gene=Gene_ID, pvalueCutoff = 0.05, readable = T)
head(R_PA)

## Reactome pathway gene set enrichment analysis
Gene_ID<- sort(Gene_ID, decreasing = T)
R_pathway<- gsePathway(Gene_ID,
                       pvalueCutoff = 0.2,
                       pAdjustMethod = "BH",
                       verbose=F)

Error in check_gene_id(geneList, geneSets) : --> No gene can be mapped....

TinclG commented 2 years ago

Problem solved.