Henning Hermjakob

Henning Hermjakob
Team Leader Molecular Networks - Hermjakob team
Henning Hermjakob leads the Molecular Systems services at EMBL-EBI, which provide worldwide reference data resources in interactomics (IntAct), pathways (Reactome), and systems biology models (BioModels). He received his MSc in Bioinformatics from the University of Bielefeld and has been at EMBL-EBI since 1997.

ORCID iD: 0000-0001-8479-0262

Tel:+44 (0)1223 494 671 / Fax:

http://www.ebi.ac.uk/~hhe (personal homepage)

Hermjakob team

The Molecular Networks Team, led by Henning Hermjakob, develops tools and resources for the representation, deposition, distribution and analysis of pathway and systems biology data. The team follows an open-source, open-data approach and is a major contributor to community standards, in particular the Proteomics Standards Initiative (PSI) of the international Human Proteome Organization (HUPO), and COMBINE systems biology standards.

The Reactome biomolecular pathways database provides a comprehensive resource for the pathway-oriented analysis of high throughput omics data, allowing rapid analysis of genome-wide datasets in a highly interactive visual interface. At the next level of abstraction, the BioModels database systematically curates formal, predictive models of biological processes from an increasingly broad range of formal representations and makes them efficiently accessible to the scientific community.

As a result of long-term engagement with the community, journal editors and funding organisations, data deposition in standards-compliant data resources such as IntAct, PRIDE, and BioModels is becoming a strongly recommended part of the publishing process. This has resulted in a rapid increase in the data content of EMBL-EBI's resources. In addition, the curation teams ensure consistency and appropriate annotation of all data, whether from direct depositions or literature curation, to provide the community with high-quality reference datasets. 

The team also contributes to the development of data integration technologies using approaches like BioJS and semantic web technologies, and providing stable identifiers for biomolecular entities through identifiers.org.

The Molecular Networks Team offers a range of projects for interested Master's students, postdocs, and other internships. Topics range from service monitoring (identifiers.org) to pathway analysis for proteomics datasets (Reactome). Please send a cover letter and CV to hhe [at] ebi.ac.uk.

Molecular Interactions

The Molecular Interactions team produces the IntAct database of evidence for molecular interactions, and maintains the Complex Portal reference resource for macromolecular complexes. The team's primary goal is to help researchers make the most of public interaction data, and to facilitate the adoption of standards in this important area of molecular biology. We provide regular training on our resources and interact regularly with our users to ensure our services respond to their needs.

Publications

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Team members

  • Chinmay Arankalle
  • Vijayalakshmi Chelliah
  • Gaurhari Dass
  • Noemi Del Toro Ayllon
  • Margaret Duesbury
  • Antonio Fabregat Mundo
  • Mihai Glont
  • Kathryn Holmes
  • Bijay Jassal
  • Steven Jupe
  • Sarah Keating
  • Maximilian Koch
  • Varun Kothamachu
  • Birgit Meldal
  • Tung Nguyen
  • Pablo Porras Millan
  • Corina Duenas Roca
  • Nicolas Rodriguez
  • Cristoffer Sevilla
  • Rahuman Sheriff
  • Anjali Shrivastava
  • Konstantinos Sidiropoulos
  • Thawfeek Mohamed Varusai
  • Guilherme Viteri
  • Sarala Wimalaratne
  • Andrey Zorin