Pasini’s lab, Istituto Europeo di Oncologia

*July 2019 - July 2021
Bioinformatician

During my stage in Dr. Diego Pasini’s lab, I investigated several molecular signaling pathways and epigenetic mechanisms underlying cellular differentiation and oncogenesis.

Tasks:

• Comparison of different ATAC-seq peak callers.
  
• Comparison of different sequencing depths in RNA-seq for differential expression analysis.
  
• Development of a Snakemake pipepline for ATAC-seq. The code can be visualized here (unmaintained).
  
• Development of a ShinyApp to allow wetlab members to visualize the omics produced in the lab in an easy way. The code can be visualized here (unmaintained).
  
• Analysis of bulk RNA-seq, ChIP-seq and ATAC-seq data.