Helping research & biotech teams make decisions from omics data.

I support research groups and biotech teams with rigorous omics analysis and biological interpretation, turning complex datasets into clear conclusions that guide experimental next steps.

I work from study design and analysis planning through to decision focused interpretation, helping teams prioritise signals, avoid common pitfalls, and move projects forward with confidence. I also collaborate on bioAI projects, supporting the development and evaluation of AI-based methods for omics analysis and biological interpretation.

Want a quick overview of how I work? Click here to see my services .

Who am I?

My name is Malte Borggrewe. I am a bioinformatics consultant and biomedical scientist with hands on experience in both wet lab research and computational analysis.

This dual background allows me to go beyond producing results. I focus on what is biologically meaningful, where uncertainty remains, and what the best next steps should be.

Let's connect.

Initial consultation LinkedIn Email

Services

Decision focused bioinformatics support, from planning and analysis to interpretation and next step recommendations.

Consultation

Turning omics results into clear biological conclusions & decisions.

  • Study design & planning
  • End to end analysis with biological interpretation
  • Reproducible workflows & pipelines
  • Training, mentoring & workshops

Transcriptomics

Gene expression analysis with biological interpretation & decision support.

  • Single cell & bulk RNA seq
  • Spatial transcriptomics
  • Non coding RNA

Epigenomics

Regulatory & chromatin analyses to link mechanism and phenotype.

  • Chromatin accessibility (ATAC)
  • DNA protein interactions (ChIP)
  • DNA methylation

Proteomics

Protein & cytometry based profiling with integrated interpretation.

  • Mass & flow cytometry
  • Mass spectrometry
  • Spatial proteomics

Immunomics

Immune profiling to support mechanistic conclusions.

  • T & B cell receptor repertoire
  • Cytokine profiling
  • High dimensional flow cytometry

Other

Additional support adapted to the specific scientific question.

  • Multi omics integration
  • Omics-based BioAI collaboration
  • ML & AI assisted interpretation
  • Meta analyses

Projects & Publications

An overview of selected projects and publications.

Microglia development in human central nervous system

Understanding how human microglia develop and mature during fetal brain development.

  • Led bioinformatics analysis and biological interpretation across bulk and single cell datasets
  • Integrated transcriptomic and epigenomic data to identify developmental regulatory programs
  • Interpreted results in the context of human microglia development
  • Contributed to a peer reviewed publication

Published in Science

High-dimensional cytometry analysis toolkit

An R toolkit for the analysis of high-dimensional flow & mass cytometry data.

  • Designed and developed an R based toolkit for high dimensional flow and mass cytometry analysis
  • Implemented advanced data cleaning, preprocessing, and downstream analysis workflows
  • Integrated cytometry data with single cell RNA sequencing frameworks
  • Released the toolkit as open source software

Toolkit on Github

Glia function in neuroinflammation

Characterising astrocyte and microglia phenotypes during inflammatory processes in the central nervous system.

  • Led bulk RNA seq analysis to identify inflammation associated glial states
  • Quantified microglia phenotypes using morphology based analyses
  • Developed automated image analysis workflows for immunohistochemistry data

Publication in Glia and Acta Neuropathologica Communications

Testimonials

What collaborators and clients say about working with me.

"... Malte's expertise in bioinformatics and his background in biomedical science were crucial to our project's success. He efficiently analysed our datasets and provided accurate and meaningful insights. He also consistently sought ways to optimize the analysis and met all deadlines. Malte is also an excellent communicator, explaining complex concepts clearly and his patience and collaborative approach made the process smooth and very efficient ..."

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Prof. Peter Heeringa



Professor of Immunology, University Medical Center Groningen, The Netherlands

"Malte performed analyses of RNA-Seq datasets for us in 2025 and it was a pleasure working with him. The project processed quickly from the first discussion of the project, through the implementation, to the final discussion of the results. Malte answered all our questions, explained all concepts, suggested valuable additional analyses and was quickly available (in virtual meetings as well as in emails) to answer any follow-up questions. We will definitely reach out to him in the future, if we are ever in need of a bioanalysis of complex datasets."

audiocure

Dr. Benedikt Brommer



Senior Scientist, AudioCure Pharma GmbH, Germany

Contact

Get in touch to discuss your project or a potential collaboration.

Initial consultation LinkedIn Email

Frequently asked questions