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Persona
Sebastian Uhrig

Bioinformatician.
Freelancer.
Doer.

Commitment
Top-Notch Bioinformatics

Want to step up your bioinformatics game a notch? Push it all the way to the top!

Services
Full-Stack Competence

From A as in assembler code to Z as in z-score: Solving problems at all levels.

Motivation
Research with Purpose

Dedicated to research on age-associated diseases, healthy ageing, and rejuvenation.

Profile

About Me

My career started in IT, fueled by a fascination for computer science. A profound passion to improve the lives of people in need inspired me to gradually shift my focus to biomedicine. Today, I am a freelance bioinformatician devoted to research on age-associated diseases, such as cancer, dementia, and cardiovascular conditions. My professional journey has taken me through various organizations: from small businesses to large corporations, in academia and industry, in basic research and translational settings, regional and across the globe, young startups and long-established companies. With my versatile experience and a can-do attitude, I am well-equipped to contribute effectively to your goals in every setting.

10

YEARS OF EXPERIENCE IN
BIOINFORMATICS

+

9

YEARS OF EXPERIENCE IN
INFORMATION TECHNOLOGY

Services

From A to Z

Thanks to a broad background in bioinformatics, molecular biology and information technology, I can offer support at all levels - from troubleshooting software segmentation faults to generating biological insights, and everything in-between.

ANALYSIS

Gaining novel insights from raw data requires domain know­ledge, creative problem-solving, and a methodical approach. I conduct analyses according to modern practices and your custom requirements.

  • Experimental design: Get answers to common questions that arise in the planning phase: suitable assay, replicate count, statistical power, sequencing depth, etc.
  • Mass data processing: Keep your hands free by out­sourcing the processing of your big data.
  • Analysis of omics data: Over the years, I have come across a wide range of organisms, modalities, and methods. I will gladly support you with my expertise and time.

DEVELOPMENT

Code is the foundation of bioinformatics. With a unique blend of deep technical knowledge and a goal-oriented way of working, I turn complex problems into elegant, robust code.

  • Pipeline development: Wrap your frequent analyses in pipelines, for scalability, reproducibility, and standardization.
  • Tool benchmarking: The bioinformatics community often offers a multitude of tools for any given question. Let me help you find the one that works best on your data.
  • Algorithm development: For questions not yet addressed by the community, I can develop algorithms from scratch.
  • Assay development: Are you implementing a novel assay in your lab, but unsure about the best parameters or how to analyze the output? I am happy to assist!

SUPPORT

At times, working with bioinformatics software can be cumbersome. Given my strong IT background, I can efficiently trouble­shoot software issues, allowing you to focus on your research.

  • Automation: Moving big data from one system to another — fast, securely, in the right format, and without intervention — requires robust procedures.
  • Installation: Good software management ensures reproducible data analysis.
  • Debugging: Cryptic error messages or rare software crashes can be frustrating. I am here to help.
  • Performance tuning: When algo­rithms consume an excessive amount of time or memory, code optimizations can make all the difference.
  • Databases: I have experience with a range of SQL database systems, including design, administration, and application development.

Skills

Tool Belt

Data analysis: variant calling, clinical interpretation of tumor samples, differential gene expression, gene set enrichment, clustering, subtyping of tumor expression profiles, transcription factor binding, chromatin accessibility, motif enrichment, alternative splicing, gene regulation, (neo)epitope prediction, HLA typing

Modalities: DNA-seq (bulk/single cell, whole genome/exome), RNA-seq (bulk/single cell, 10X Genomics/SMART-seq2), 10X Genomics Multiome, ChIP-seq, CUT&Tag, FAIRE-seq, immunoprecipitation mass spectrometry (IP-MS), Oxford nanopore long-read sequencing, Ribo-seq

Coding: C/C++, R/Bioconductor, BASH, awk, NextFlow/nf-core, Java, Python, JavaScript, HTML/CSS, AJAX, jQuery, PHP, Oracle PL/SQL, Delphi/Pascal, PowerShell, VBScript, Git, GitHub, GitLab, Phabricator, Mercurial, Subversion

High-performance computing: AWS, OpenStack Cloud, SevenBridges Cloud, (u)Docker, Singularity, Bioconda, modules, LSF, GridEngine, PBS, OpenMPI, OpenCL, CUDA

IT administration: Linux/UNIX, HPC infrastructure, bioinformatics software stack, performance optimization, debugging, SQL databases, web applications, network file systems, monitoring, user management, public key infrastructure, network infrastructure

Career

My Journey

HPC Cluster Administrator
Institute of Molecular Biology, Mainz
Nov 11 - Oct 15
HPC Cluster Administrator
anterio consult & research, Mannheim
Feb 09 - Mar 11
Database Administrator
Siemens Healthcare, Marburg
Jul 05 - Sep 08
B.Sc. Information Technology
Berufsakademie Mannheim, Mannheim
Oct 05 - Sep 08
Web Application Developer
Trionic Technologies, Worms
Feb 03 - Jun 05
Senior Bioinformatician
Freelancer, Rhein-Main-Neckar area
Jan 25 - present
Senior Bioinformatician
Altos Labs UK, Cambridge
Mar 23 - Oct 24
PostDoc Clinical Bioinformatics
German Cancer Research Centre, Heidelberg
Oct 19 - Feb 23
Ph.D. Applied Bioinformatics
German Cancer Research Centre, Heidelberg
Dec 15 - Sep 19
M.Sc. Bioinformatics
Johannes Gutenberg University, Mainz
Apr 14 - Sep 15
Bioinformatics Internships
Institute of Molecular Biology, Mainz
Jun 13 - Dec 14
B.Sc. Molecular Biology
Johannes Gutenberg University, Mainz
Apr 11 - Mar 14

Achievements

Publications & Awards

Selected testimony of my commitment to deliver excellent results throughout my career.