Steffen Heyne
Application Specialist Bioinformatics
Karlsruhe, Baden-Württemberg, Germany
Summary
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Senior🎓
Top SchoolSteffen Heyne is an experienced bioinformatics scientist with 11 years of expertise in NGS data analysis, experimental design, and sequencing assay workflows across RNA-seq, ChIP-seq, WGBS and single-cell protocols. Currently an Application Specialist in Bioinformatics at Roche, he combines hands-on pipeline development (Snakemake, R, Python, Bash) with practical deployment on HPC systems and cloud-like infrastructures. His background spans academia and industry—from a PhD developing RNA structural clustering algorithms to postdoctoral integrative epigenome analyses—giving him strong skills in differential analysis, chromatin state modeling and microRNA target studies. An active contributor to the popular deepTools project, he has implemented and improved tools for GC-bias correction, coverage plotting and matrix computation, reflecting a focus on making complex NGS analyses reproducible and accessible. Based in Karlsruhe, he blends rigorous algorithmic thinking with pragmatic application support, often surfacing subtle QC and bias issues that improve downstream biological interpretation.
11 years of coding experience
7 years of employment as a software developer
Doctor of Philosophy - PhD, Bioinformatics, magna cum laude, Doctor of Philosophy - PhD, Bioinformatics, magna cum laude at The University of FreiburgComputer Science, Computer Science at CPE LyonMaster of Science (M.Sc.), Bioinformatics, Master of Science (M.Sc.), Bioinformatics at Friedrich-Schiller-Universität Jena
French, English, Polish, Russian, German
Github Skills (7)
bioinformatics10
genomics10
python10
ng10
argparse9
rna-seq9
documentation8
Programming languages (7)
Github contributions (5)
deeptools/deepTools
Dec 2015 - Aug 2018
Tools to process and analyze deep sequencing data.
Role in this project:
Back-end Developer
Back-end DeveloperContributions:10 commits, 6 PRs, 10 pushes in 2 years 8 months
Contributions summary:Steffen primarily contributed to the `deeptools` repository by implementing and modifying various tools for processing and analyzing deep sequencing data. Their work included adapting existing tools like `computeGCBias` and `correctGCBias` for documentation and organization, as well as adding new tools like `plotCoverage`. The user also added functionality to the `computeMatrix` tool and enhanced documentation by including example plots and Galaxy wrapper images.
chip-seqpythonpipelinesequencing-datangs
steffenheyne/UCSC_trackHub_generator
Jul 2019 - May 2021
Contributions:1 release, 22 pushes, 1 branch in 1 year 10 months
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