I have a strong background in evolutionary and population genomics with nearly 15 years of experience in the analysis of whole-genome sequencing data. After obtaining a PhD in evolutionary anthropology from the University of Zurich in 2012, I worked on large-scale population genomic projects in birds, primates, and fish during postdocs in Sweden, Switzerland, and Germany. In 2022, I joined the Interfaculty Bioinformatics Unit (IBU) in Bern. 

Key Expertise 

  • Bulk RNA-sequencing 

  • Analysis of complete bulk RNA-seq workflows 

  • Long-read Sequencing (PacBio and Oxford Nanopore) 

  • Data processing and analysis for single-nucleotide and structural variant calling 

  • Methylation analysis from 3rd generation sequencing data 

  • Long-read RNA-sequencing for annotation and isoform analysis 

  • Whole-genome and Whole-exome Sequencing 

  • Complete workflows for quality control, preprocessing, variant calling, and variant effect analysis 

  • Genome Assembly and Annotation 

  • Assembly and annotation of large eukaryotic genomes using state-of-the-art data (PacBio HiFi, HiC, ONT UL, etc.) and tools 

  • Genomic Data Simulation 

  • Efficient forward simulations under complex models (fwdpp, SLiM) 

  • Large-scale coalescent simulations of genomic data for Approximate Bayesian Computation (ABC) 

  • Teaching & Training 

  • Instructor for Genome and Transcriptome Assembly 

  • Instructor for RNA-sequencing 

Go-To Tools/Platforms:  

  • Programming Languages: Python, Perl, R, Bash, C++, Rust 

  • Workflow Management Systems: Nextflow, Snakemake