Biography
Born as a true generalist, I choose to learn a lot about DNA/biology. I’m currently leading an R&D team I’m a bio engineer, holding a PhD in metabolic engineering, covering the fields of synthetic and systems biology. This training thought me a lot on biology, project planning and analytical thinking. Along the way I learned quite a bit of data(-engineering): data collection/storing data/extracting and parsing data/data visualisation. I know my way in R and python, (No)SQL databases, shiny, Flask, scheduler, kafka,…
I have an interest in data science, automation, robotics and sports.
Interests
- Biotech
- Data engineering
- Automation
Education
PostDoc in metabolic engineering, 2016
Ghent University
PhD in metabolic engineering, 2016
Ghent University
Master bio-engineering in chemistry and bioprocess technology, 2009
Ghent University
Skills
R
Python
(No)SQL
Biotech
SysBio
SynBio
Experience
Date Engineer
ml6
- Data Engineer at ML6 means a lot of data engineering, a bit of software engineering and a bit of machine learning.
- A lot of work in Google Cloud.
- Tools: Terraform, Dataflow, Kubernetes, Kubeflow, Bigquery. TensorFlow,…
Teamlead R&D
Inbiose
[Goal] Development of production process for HMO using novel production micro-organisms. I’m involved in:
planning and designing novel metabolic production pathways
identification and solving of pathway bottlenecks (theoretical: literature/databases/modeling and practical: UPLC/HPLC, genotyping, phenotyping)
bioinformatics: alternative genes / pathways (Galaxy, blast, ETE)
planning strain building: leading team towards efficient host construction
evaluation: from high throughput microtiter plate up to 5L fermentors
involved in process development: optimization and alignment of fermentation and DSP processes.
data capture: capturing lab data from operators and machines and store in databases (PostgreSQL, influxDB, neo4j)
data analysis: wrote several packages to help with data extraction and analysis (python3 and R)
data visualisation: wrote different R shiny apps helping with data visualisation (R Shiny, Grafana)
data tools: developed different webapps that talk to different databases and allow operators to modify the data using a webbrowser (python3, flask). Setup web tools like Rstudio, Jupyter and Galaxy.
setting up IT infrastructure (linux): LXD/LXC containers/Docker
PostDoc
Ghent University
- continued work of PhD, targetting a future spin-off
- submitted personal VLAIO project with spin-off finality
- contributed to submitting 3 European projects
PhD
Ghent University
Pathways to chito-oligosaccharides production : integrating synthetic biology and metabolic engineering for pathway optimization
- genetical tool development for E. coli: genetic promoter and cloning tools
- development of a platform to produce well defined (acetylation pattern) chito-oligosaccharides
- strong collaboration with academia in Germany and Spain in ChitoBioengineering and the follow-up Nano3Bio European project