Prof. Dr. Jan Baumbach

Academic Career and Research Areas

Professor Baumbach (b. 1979) researches in the field of bioinformatics and systems biomedicine. His laboratory develops algorithms and machine learning processes which can be used to extract information from massive molecular biological data sets in order to provide insight into how living cells develop and how molecular mechanisms trigger diseases. A core aim of Professor Baumbach's research is to develop personalized, computer-assisted therapeutic approaches. He uses a number of various approaches from modern computer science, ranging from database technologies to big data analytics.

Professor Baumbach studied Computer Science in the Natural Sciences at Bielefeld University, Germany, where he also received his PhD degree while working at the Center for Biotechnology. After two years as a postdoctoral researcher at the University of California, Berkeley, USA, and three years as an associate junior professor at the Max Planck Institute for Informatics in Saarbrücken, Germany, he was appointed Professor of Computational BioMedicine at the University of Southern Denmark, where he worked until 2017. Professor Baumbach has held the chair of Experimental Bioinformatics at TUM since 2018.


  • Villum Young Investigator Grant (2016)
  • Siemens Award with Richard Röttger (2010)
  • Perspektive Bielefeld Award (2007)

Key Publications (alle Publikationen)

Alcaraz N, List M, Batra R, Vandin F, Ditzel HJ, Baumbach J: "De novo pathway-based biomarker identification". Nucleic Acids Research. 2017; 45(16): e151.


Demirci MDS, Baumbach J, Allmer J: "On the performance of pre-microRNA detection algorithms". Nature Communications. 2017; 8(1): 330.


Wiwie C, Baumbach J, Röttger R: "Comparing the performance of biomedical clustering methods". Nature Methods. 2015; 12(11): 1033-1038.


Wittkop T, Emig D, Lange SJ, Rahmann S, Albrecht M, Morris JH, Boecker S, Stoye J, Baumbach J: "Partitioning biological data with Transitivity Clustering". Nature Methods. 2010; 7(6): 419-420.


Baumbach J, Wittkop T, Kleindt CK, Tauch A: "Integrated analysis and reconstruction of microbial transcriptional gene regulatory networks using CoryneRegNet". Nature Protocols. 2009; 4(6): 992- 1005.