World's Best Scientists 2026 revealed!
Award Badge
Biology and Biochemistry
Germany
2026

D-Index & Metrics

Biology and Biochemistry

D-Index
120
Citations
75549
World Ranking
622
National Ranking
43

Research.com Recognitions

  • 2026 - Research.com Biology and Biochemistry in Germany Leader Award
  • 2025 - Research.com Biology and Biochemistry in Germany Leader Award

Overview

Fabian J. Theis is affiliated with the Technical University of Munich in Germany. Their research spans biochemistry, genetics, molecular biology, and medicine, with a particular focus on molecular biology and biophysics as primary subfields of study. Theis has contributed extensively to single-cell and spatial transcriptomics, cell image analysis techniques, and gene regulatory network analysis among other topics.

Theis's published work includes a number of significant papers from recent years. Notable publications include:

  • Generalizing RNA velocity to transient cell states through dynamical modeling (2020, Nature Biotechnology)
  • SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues (2020, Cell)
  • Eleven grand challenges in single-cell data science (2020, Genome Biology)
  • Benchmarking atlas-level data integration in single-cell genomics (2021, Nature Methods)
  • Squidpy: a scalable framework for spatial omics analysis (2022, Nature Methods)

Theis frequently collaborates with several researchers, with frequent coauthors including Mohammad Lotfollahi, David S. Fischer, Malte D. Luecken, Heiko Lickert, and Maren Büttner. These collaborations have contributed to advancing research in single-cell data and related fields.

Theis's works are often published in venues that focus on cutting-edge life sciences and computational biology research. The most frequent publication outlets include:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Zenodo (CERN European Organization for Nuclear Research)
  • Nature Communications
  • arXiv (Cornell University)
  • Nature Methods

The main topics of Theis's research include:

  • Single-cell and spatial transcriptomics
  • Cell Image Analysis Techniques
  • Gene Regulatory Network Analysis
  • Gene expression and cancer classification
  • Immune cells in cancer
  • Cancer Genomics and Diagnostics
  • Bioinformatics and Genomic Networks

Best Publications

  • SCANPY: large-scale single-cell gene expression data analysis

    F. Alexander Wolf;Philipp Angerer;Fabian J. Theis

  • SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues.

    Carly G.K. Ziegler;Samuel J. Allon;Sarah K. Nyquist;Ian M. Mbano

  • Generalizing RNA velocity to transient cell states through dynamical modeling.

    Volker Bergen;Marius Lange;Stefan Peidli;F Alexander Wolf

  • An atlas of genetic influences on human blood metabolites

    So-Youn Shin;Eric B Fauman;Ann-Kristin Petersen;Jan Krumsiek

  • Current best practices in single-cell RNA-seq analysis: a tutorial.

    Malte D Luecken;Fabian J Theis

  • The Human Cell Atlas

    Aviv Regev;Aviv Regev;Aviv Regev;Sarah A Teichmann;Sarah A Teichmann;Sarah A Teichmann;Eric S Lander;Eric S Lander;Eric S Lander;Ido Amit

  • Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment.

    Jonas Schulte-Schrepping;Nico Reusch;Daniela Paclik;Kevin Baßler

  • Eleven grand challenges in single-cell data science

    David Lähnemann;David Lähnemann;Johannes Köster;Johannes Köster;Ewa Szczurek;Davis J. McCarthy;Davis J. McCarthy

  • PAGA: graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells

    F. Alexander Wolf;Fiona K. Hamey;Mireya Plass;Jordi Solana

  • Diffusion pseudotime robustly reconstructs lineage branching

    Laleh Haghverdi;Maren Büttner;F Alexander Wolf;Florian Buettner

  • Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells

    Florian Buettner;Kedar N Natarajan;Kedar N Natarajan;F Paolo Casale;Valentina Proserpio;Valentina Proserpio

  • Genome-wide association analyses identify 18 new loci associated with serum urate concentrations

    Anna Köttgen;Anna Köttgen;Eva Albrecht;Alexander Teumer;Veronique Vitart

  • Deep learning: new computational modelling techniques for genomics

    Gökcen Eraslan;Žiga Avsec;Julien Gagneur;Fabian J. Theis

  • A cellular census of human lungs identifies novel cell states in health and in asthma.

    Felipe A. Vieira Braga;Gozde Kar;Marijn Berg;Orestes A. Carpaij

  • Single-cell RNA-seq denoising using a deep count autoencoder

    Gökcen Eraslan;Lukas M. Simon;Maria Mircea;Nikola S. Mueller

  • Diffusion maps for high-dimensional single-cell analysis of differentiation data.

    Laleh Haghverdi;Florian Buettner;Fabian J. Theis

  • Hypergraphs and cellular networks.

    Steffen Klamt;Utz-Uwe Haus;Fabian J. Theis

  • destiny: diffusion maps for large-scale single-cell data in R.

    Philipp Angerer;Laleh Haghverdi;Maren Büttner;Fabian J. Theis

  • Alveolar regeneration through a Krt8+ transitional stem cell state that persists in human lung fibrosis

    Maximilian Strunz;Lukas M. Simon;Meshal Ansari;Jaymin J. Kathiriya

  • Benchmarking atlas-level data integration in single-cell genomics

    Luecken M;Büttner M;Chaichoompu K;Danese A

Frequent Co-Authors

Elmar Lang
Elmar Lang University of Regensburg
Carlos G. Puntonet
Carlos G. Puntonet University of Granada
Karsten Suhre
Karsten Suhre Cornell University
Jerzy Adamski
Jerzy Adamski Helmholtz Association of German Research Centres
Christian Gieger
Christian Gieger Helmholtz Zentrum München
Gabi Kastenmüller
Gabi Kastenmüller Helmholtz Zentrum München
Timm Schroeder
Timm Schroeder ETH Zurich
Annette Peters
Annette Peters Ludwig-Maximilians-Universität München
John C. Marioni
John C. Marioni European Bioinformatics Institute
Sarah A. Teichmann
Sarah A. Teichmann University of Cambridge

If you think any of the details on this page are incorrect, let us know.

Report an issue

We appreciate your kind effort to assist us to improve this page, it would be helpful providing us with as much detail as possible in the text box below:

Related Online Degrees & Career Pathways

Students of Biology and Biochemistry in the USA have a dynamic spectrum of online degree and certificate options that expand career possibilities in healthcare and life sciences. In addition to traditional research and teaching roles, many graduates pursue advanced certificates to boost clinical and professional credentials.

For those interested in mental health, the best online post master's pmhnp programs prepare biology graduates for specialized psychiatric nursing roles. Those aiming for primary healthcare may consider enrolling in a 12-month fnp program online, allowing for quick advancement into nurse practitioner positions.

Nutrition is another promising avenue, especially for biochemistry majors. Gaining credentials through an online nutritionist degree combines core science knowledge with practical skills for wellness and dietetics careers.

Lastly, registered nurses looking to expand their scope can finish their bachelor’s studies affordably through the cheapest rn to bsn online programs. These flexible online degrees and certificates make it easier than ever to transition science degrees into high-demand healthcare fields.

Best Scientists Citing Fabian J. Theis

Trending Scientists

Recently Published Articles