Markus Herrgard

Markus Herrgard


Kogle Alle 6

Building: Thuja House, 2.L.01a

2970 Hørsholm


iLoop Translational Research Unit


I'm the director of the iLoop Translational research unit at the NNF Center for Biosustainability. The iLoop (Iterative Cell Factory Development Loop) unit works on translational projects related to microbial cell factory engineering. The unit consists of four technology platforms led by team leaders providing specialized services to cell factory development projects in the iLoop Unit: 

  1. Screening and fermentation - Dr. Konstantin Schneider
  2. Analytics - Dr. Hanne Bjerre Christensen
  3. Design - Drs. Niko Sonnenschein and Markus Herrgard
  4. Automated genome engineering  - Dr. Jerome Maury
  5. Automation - Mr. Olivier Bitterlin

In addtion to technology platform staff iLoop employs project leaders, scientists and technicians to execute translational research projects. The project leaders are managed by Dr.  Rebecca Lennen, iLoop projects manager.

In total, the iLoop Unit employs over 30 interdiciplinary researchers, engineers and technicians.


Cell Factory Design Group


I'm also the leader for the Cell Factory Design Group within the iLoop jointly with Dr. Niko Sonnenschein . Our group works on:

  1. Genome-scale modeling of biochemical networks
  2. Data-driven computational approaches to cell factory design
  3. Systems biology of microbial platform cell factories
  4. Next generation sequencing applied to cell factory development
  5. Software development to support cell factory development workflows

We collaborate extensively with other groups at the CFB DTU site as well as CFB international sections at University of California San Diego and Chalmers University.


My publications:     Complete list of publications in Google Scholar


My CV: LinkedIn profile


Design group staff:


Modeling team:

  • Niko Sonnenschein, research scientist, subgroup leader
  • Emre Özdemir, postdoc, metabolic modeling
  • Joao Cardoso, Ph.D. student
  • Marta Matos, Ph.D. student
  • Chistian Lieven, Ph.D. student

Sequencing and informatics team:

  • Lasse Ebdrup Pedersen, CHO bioinformatics scientist
  • Ida Bonde, microbial bioinformatics scientist
  • Anna Koza, next generation sequencing scientist
  • Kristian Jensen, Ph.D. student

Software development team:

  • Lars Schöning, lead software engineer
  • Roland Gryza, frontend software engineer

Other affliated staff at CFB:


  • Sumesh Sukumara, postdoc, multi-scale techno-economic modeling
  • Miguel Campodonico, postdoc, multi-scale techno-economic modeling



1993 - 1998 M.Sc. - Aalto University, Finland
1999 - 2004 Ph.D. - University of California, San Diego

Academic grades


Professional experience

2004 - 2006 Post-doctoral researcher - University of California, San Diego, Bioengineering
2006 - 2008 Project Scientist - University of California, San Diego, Bioengineering
2008 - 2012 Senior Scientist - Synthetic Genomics, Inc.
2012 - Group leader - DTU, Biosustain
2014 - iLoop Core Manager - DTU, Biosustain
View graph of relations
  • Metabolic Engineering

    ISSNs: 1096-7176, 1096-7176

    Additional searchable ISSN (Electronic): 1096-7184

    Academic Press, United States

    BFI (2015): BFI-level 2, ISI indexed (2013): ISI indexed yes

    Central database


  • Frontiers in Microbiology

    ISSNs: 1664-302X

    Frontiers Research Foundation, Switzerland

    BFI (2015): BFI-level 1, ISI indexed (2013): ISI indexed no

    Central database


  • P L o S One

    ISSNs: 1932-6203, 1932-6203

    Public Library of Science, United States

    BFI (2015): BFI-level 1, ISI indexed (2013): ISI indexed yes

    Central database


View all »

Download as:
Download as PDF
Select render style:
Download as HTML
Select render style:
Download as Word
Select render style:
Download as: To download, please limit the number of search results to 1,000 or less.

Place of employment

Latest activities and conferences

ID: 7532