Skip to content

Latest commit

 

History

History
12 lines (12 loc) · 634 Bytes

README.md

File metadata and controls

12 lines (12 loc) · 634 Bytes
Raw

Glioma associated epilepsy research

Data download and preparation

Data source was TCGA (LGG and GBM projects) and GEO (GSE55918) - this process can be found in RNAseq_data.rmd

RNAseq data analysis

Can be divided into steps:

  • RNAseq analysis (Fig1, RNAseq.rmd)
  • Gene set enrichment analysis (Fig2, GSEA.rmd) with pharmacogenomic aspects
  • Transcription factor analysis (Fig4, TFs.rmd)

scRNAseq analysis

Data preprocessing pipeline can be found in scRNA repository.
Datasets come from GEO database (GSE70630, GSE89567, and GSE138794)
Integration, clustering and signature determination ensues (Fig3, scRNA.rmd)