Overview
Project title
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN)
People involved
Principal investigator: Relebohile Matobole (PhD candidate)
Supervisors: Prof Khumalo and Prof Bayat
Bioinformatics support team: Gerrit Botha, Jon Ambler (RNA-seq), Katie Lennard (RNA-seq Nextflow pipeline), Matthys Potgieter (Proteomics).
Short description of project
the aim of the study is identify biomarkers (genes/proteins/pathways) that are specific to skin scarring disorders [keloids and folliculitis keloidalis nuchae (FKN)] and characterizing these biomarkers during the healing process.
Objectives
- RNA seq
- Move the data onto the Ilifu cluster
- Configure the NextFlow RNA seq pipeline
- Report on the QC of the data & pipeline outputs
- Export feature counts for analysis in R
- Conduct gene set enrichment analysis and pathway analysis using Bioconductor GAGE package or similar
- Proteomics
- TBD
- Integration and interpretation
- Identify pathways / gene sets that are enriched in both the protein and RNA data sets.