@ Christian-Albrechts-University Kiel

About

co dna helix

The associate de.NBI partner at Kiel University is a joint effort by the Institute of Microbial Genomics and the Institute of Clinical Molecular Biology. Our groups combine basic research with a range of state-of-the art bioinformatics applications and in-house developments. Through the de.NBI, we are happy to offer interested users the possibility to make use of our expertise in their projects.

Services

A key focus in Kiel is on providing practical support for complex but routine bioinformatics projects in the wider field of genomics. In particular, users can collaborate with us in three key areas that reflect the different competences in our institutes – the design and analysis of genome-wide association studies (D. Ellinghaus), assembly and annotation of animal genomes (M. Höppner), and microbial phylogenetics and comparative genomics (T. Dagan). Our services include consultation and/or practical support to help you plan your project, define a realistic budget and time frame and execute it. Further we provide access to a range of infrastructures, including one of the largest academic Next-Generation Sequencing (NGS) and genotyping centers in Germany, specialized hardware for the assembly of large genomes but also detailed hands-on experience in a range of bioinformatics applications.

Developments

co bakterien

We are running state-of-the art tools and workflows for our three key areas genome-wide association studies, assembly and annotation of animal genomes, and microbial phylogenetics and comparative genomics.

Project Management

Institute of Clinical Molecular Biology
Christian-Albrechts-University Kiel
University Hospital Schleswig Holstein
Am Botanischen Garten 11
24118 Kiel

Contact: Dr. Marc Höppner
Contact: This email address is being protected from spambots. You need JavaScript enabled to view it.

Institute of Microbiology
Genomic Microbiology Group
Christian-Albrechts-University Kiel
ZMB, Am Botanischen Garten 11
24118 Kiel

Contact: This email address is being protected from spambots. You need JavaScript enabled to view it.

 

@ Friedrich-Schiller-University Jena

About

co molekuele

The working group for cheminformatics and computational metabolomics at the Friedrich-Schiller-University is dedicated to research into the structure elucidation of natural products, compound identification in the context of metabolomics and algorithm development in cheminformatics.

Services

Over the past 10 years, we established the first open-access repository for Metabolomics with a global scope - the MetaboLights database at the European Bioinformatics Institute. We led the FP7-funded Coordination Action for the development of standards in metabolomics (COSMOS) and co-founded the world-wide network for metabolomics data exchange MetabolomeXchange. We co-develop, with the group of Claire O'Donovan, head of metabolomics services at the EBI, the MetaboLights database from Jena as a de.NBI and ELIXIR activity and strengthen the de.NBI expertise in Metabolomics in collaboration with the groups in Halle and Bielefeld interested in Metabolomics. We are further leading the computational e-infrastructure project PhenoMeNal to establish cloud-based computational workflows to analyse data in Metabolomics. Our service provision within de.NBI is based on those projects and comprises assistance and advice on the deposition and cloud-based analysis of metabolomics data.

Developments

We are running state-of-the art tools and workflows in metabolomics and for computer-assisted structure elucidation in natural products analysis. We continue the development of the MetaboLights database under the ELIXIR umbrella in collaboration with the EBI.

Project Management

Institute for Inorganic and Analytical Chemistry
Friedrich-Schiller-University
Lessingstraße 8
07743 Jena

Contact: This email address is being protected from spambots. You need JavaScript enabled to view it.

 

@ German Cancer Research Center (DKFZ) & European Molecular Biology Laboratory (EMBL) Heidelberg

About

The research group of Oliver Stegle in the Division for Computational Genomics and Systems Genetics at the German Cancer Research Center (DKFZ) is dedicated to unravel the genotype–phenotype map on a genome-wide scale. The research focuses on the question of how genetic background and environment jointly shape phenotypic traits or cause diseases. In search for an answer, the group investigates the different molecular layers at which genetic and external factors are integrated and analyzes the variability of molecular states between individual cells.

Services

The services offered to the network include bioinformatics software and workflows for the analysis of single-cell datatypes. These contributions build on the scientific achievements and prior work of the Stegle group, which includes widely-used bioinformatics tools for single-cell RNA-seq analysis (slalom, limix), single-cell epigenetics and multi-omics methods (Multi-Omics Factor Analysis - MOFA), as well as spatial transcriptomics. Furthermore, the group offers a training course for single-cell data analysis on an annual basis.
Due to the geographical proximity as well as the related research focus of the Stegle group to members of HD-HuB, contributions of this associated partner will be aligned with activities of the HD-HuB service center.

Developments

The group will establish relevant bioinformatics services for the analysis of single-cell data types. These methods will also be established, and maintained on the de.NBI Cloud. Furthermore, Oliver Stegle is a member of the Human Cell Atlas project, and hence contributes the required expertise to establish community standards and workflows for single-cell analytics.

Project Management

Division for Computational Genomics and Systems Genetics
German Cancer Research Center (DKFZ)
Im Neuenheimer Feld 280
69120 Heidelberg
Contact: This email address is being protected from spambots. You need JavaScript enabled to view it.

 

de.NBI Services offered by associated Partners

 

de.NBI Training offered by associated Partners