Bioinformatician - Biological Data Science

1/2022 – offen

• Contributing to the development of the R&D department, by performing Omics data analysis in AWS (nextflow) and dealing with daily analysis requests related to condensates, stressed and cancer samples
• Gene Target Identification & Pathway Analysis using R packages

Amazon Web Services (AWS), R (Programmiersprache)

12/2012 – 12/2020

• Designing and deploying production pipelines consisting of innovative methods developed mainly in Perl or Python, with the aim to analyse big biological data coming from various resources, executing pipelines in HPC, storing data in filesystems or SQL databases, and making data available to researchers’ community worldwide via the Ensembl service
• Supervising starters (5) and mentoring google summer of code students (2)
• Coordinating, managing and co-leading innovative life science projects (Human Pangenome annotation, lncRNA annotations, clade annotations, RNAseq analysis, IG/TR gene annotation etc.)
• Presenting outcomes of project work in various meetings, conferences, and workshops
• Collaborating in customised analysis with international research groups and companies

Bash (Shell), Software engineering / -technik

12/2009 – 12/2012

• Developed production pipelines in Perl for Omics data (transcriptomics and proteomics) analysis, executed them in HPC (NERSC) and stored data in relational DBs (MySQL, Oracle, SQL) or filesystems
• Developed analysis and visualization tools in R for JGI Integrated Microbial Genomes (IMG) system
• Got involved with the management and analysis of several prokaryotic projects and liaised with researchers to coordinate customized analyses projects based on their research goals

Biologie, HACMP (High Availability Cluster Multi-Processing), Perl