Data Science

Prof. Dr. Folker Meyer

Folker Meyer is a Professor at the Department of Medicine and at the Computer Science Department of University of Duisburg-Essen.

The data science lab is part of the Institute for AI in medicine (IKIM), University Hospital Essen, Medical Faculty University of Duisburg-Essen. We are focused on efficient, reproducible and sustainable Data Science and Microbiome Analysis.

Data science brings together a number of disciplines and methods for the purpose of extracting knowledge from structured and unstructured data. It strives to achieve semantic integration of data from a variety of sources and disciplines, suitable technical platforms for integration are required to facilitate the process. Related to other disciplines like big data and machine learning, data science is part of the value-add chain from data to information to clinical and public health decision making.

Important aspects of data integration are suitable data exchange standards and data privacy, it is impossible to practice data science without good privacy and security concepts. The group aims for honor the principles of Data FAIRness as well as reproducible science via the use of workflow technology.

Microbiome and virome analysis presents an opportunity to assist with the rapid molecular characterization of infectious disease via DNA sequencing, It can also advance the early detection of life-threatening diseases e.g. sepsis, NEC, dysbiosis in patients with bone marrow transplants. Combined with a data science approach microbiome and virome analysis can provide vital clues for e.g. the detection of hospital borne infection, emergence of bacterial strains resistant to antibiotics and last but not least allow the establishment DNA base surveillance mechanism for the rapid and early detection of emerging DNA and RNA pathogens.

The group hosts the junior group MicrobiomeSepsisPred funded by the BMBF.

Wastewater based epidemiology (WBE) presents a unique opportunity to characterize the virome and microbiome of an entire community. WBE is a specialized form of environmental genomics and allows characterizing microbial and viral life in urban environments, integrating material from thousands of individuals. Using WBE we create preditive models of pathogens in the population and the environment. We also work towards the establishment of anomaly detection systems. The group routinely analyses samples from waste water treatments plants, the sewer system and the hospital environment.

Contact

Girardethaus
Girardetstr. 8
House 8, 2nd floor
45131 Essen

Prof. Dr. Folker Meyer
Office

Projects

Recent Publications - see all...

  1. Dennis Schmiege, Ivana Kraiselburd, Timo Haselhoff, Alexander Thomas, Adrian Doerr, Jule Gosch, Jens Schoth, Burkhard Teichgräber, Susanne Moebus, and Folker Meyer. Analyzing community wastewater in sub-sewersheds for the small-scale detection of SARS-CoV-2 variants in a German metropolitan area. Science of The Total Environment. 2023. [doi] [url]
    BibTeX
    @article{SCHMIEGE2023165458,
      title = {Analyzing community wastewater in sub-sewersheds for the small-scale detection of SARS-CoV-2 variants in a German metropolitan area},
      journal = {Science of The Total Environment},
      volume = {898},
      pages = {165458},
      year = {2023},
      issn = {0048-9697},
      doi = {https://doi.org/10.1016/j.scitotenv.2023.165458},
      url = {https://www.sciencedirect.com/science/article/pii/S0048969723040810},
      author = {Schmiege, Dennis and Kraiselburd, Ivana and Haselhoff, Timo and Thomas, Alexander and Doerr, Adrian and Gosch, Jule and Schoth, Jens and Teichgräber, Burkhard and Moebus, Susanne and Meyer, Folker},
      keywords = {COVID-19, Public health, Small-scale, Single nucleotide variants (SNVs), Wastewater surveillance, Whole genome sequencing}
    }
    
  2. Maren Bormann, Leonie Brochhagen, Mira Alt, Mona Otte, Laura Thümmler, Lukas van de Sand, Ivana Kraiselburd, Alexander Thomas, Jule Gosch, Peer Braß, Sandra Ciesek, Marek Widera, Sebastian Dolff, Ulf Dittmer, Oliver Witzke, Folker Meyer, Monika Lindemann, Andreas Schönfeld, Hana Rohn, and Adalbert Krawczyk. Immune responses in COVID-19 patients during breakthrough infection with SARS-CoV-2 variants Delta, Omicron-BA.1 and Omicron-BA.5. Frontiers in Immunology. 2023. [doi] [url]
    BibTeX
    @article{10.3389/fimmu.2023.1150667,
      author = {Bormann, Maren and Brochhagen, Leonie and Alt, Mira and Otte, Mona and Thümmler, Laura and van de Sand, Lukas and Kraiselburd, Ivana and Thomas, Alexander and Gosch, Jule and Braß, Peer and Ciesek, Sandra and Widera, Marek and Dolff, Sebastian and Dittmer, Ulf and Witzke, Oliver and Meyer, Folker and Lindemann, Monika and Schönfeld, Andreas and Rohn, Hana and Krawczyk, Adalbert},
      title = {Immune responses in COVID-19 patients during breakthrough infection with SARS-CoV-2 variants Delta, Omicron-BA.1 and Omicron-BA.5},
      journal = {Frontiers in Immunology},
      volume = {14},
      year = {2023},
      url = {https://www.frontiersin.org/articles/10.3389/fimmu.2023.1150667},
      doi = {10.3389/fimmu.2023.1150667},
      issn = {1664-3224}
    }
    
  3. Martin Hartmann, Claude Herzog, Ivano Brunner, Beat Stierli, Folker Meyer, Nina Buchmann, and Beat Frey. Long-term mitigation of drought changes the functional potential and life-strategies of the forest soil microbiome involved in organic matter decomposition. Frontiers in Microbiology. 2023. [doi] [url]
    BibTeX
    @article{10.3389/fmicb.2023.1267270,
      author = {Hartmann, Martin and Herzog, Claude and Brunner, Ivano and Stierli, Beat and Meyer, Folker and Buchmann, Nina and Frey, Beat},
      title = {Long-term mitigation of drought changes the functional potential and life-strategies of the forest soil microbiome involved in organic matter decomposition},
      journal = {Frontiers in Microbiology},
      volume = {14},
      year = {2023},
      url = {https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2023.1267270},
      doi = {10.3389/fmicb.2023.1267270},
      issn = {1664-302X}
    }
    
  4. Tom L. Stach, Guido Sieber, Manan Shah, Sophie A. Simon, André Soares, Till L. V. Bornemann, Julia Plewka, Julian Künkel, Christian Becker, Folker Meyer, Jens Boenigk, and Alexander J. Probst. Temporal disturbance of a model stream ecosystem by high microbial diversity from treated wastewater. MicrobiologyOpen. 2023. [doi] [url]
    BibTeX
    @article{https://doi.org/10.1002/mbo3.1347,
      author = {Stach, Tom L. and Sieber, Guido and Shah, Manan and Simon, Sophie A. and Soares, André and Bornemann, Till L. V. and Plewka, Julia and Künkel, Julian and Becker, Christian and Meyer, Folker and Boenigk, Jens and Probst, Alexander J.},
      title = {Temporal disturbance of a model stream ecosystem by high microbial diversity from treated wastewater},
      journal = {MicrobiologyOpen},
      volume = {12},
      number = {2},
      pages = {e1347},
      keywords = {ARG, freshwater, mesocosm, metagenomics, microbiome, stressor},
      doi = {https://doi.org/10.1002/mbo3.1347},
      url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/mbo3.1347},
      eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1002/mbo3.1347},
      year = {2023}
    }
    
  5. Sultan Imangaliyev, Jörg Schlötterer, Folker Meyer, and Christin Seifert. Diagnosis of Inflammatory Bowel Disease and Colorectal Cancer through Multi-View Stacked Generalization Applied on Gut Microbiome Data. Diagnostics. 2022. [doi]
    BibTeX
    @article{imangaliyevDiagnosisInflammatoryBowel2022,
      title = {Diagnosis of {{Inflammatory Bowel Disease}} and {{Colorectal Cancer}} through {{Multi-View Stacked Generalization Applied}} on {{Gut Microbiome Data}}},
      author = {Imangaliyev, Sultan and Schl{\"o}tterer, J{\"o}rg and Meyer, Folker and Seifert, Christin},
      year = {2022},
      month = oct,
      journal = {Diagnostics},
      volume = {12},
      number = {10},
      pages = {2514},
      issn = {2075-4418},
      doi = {10.3390/diagnostics12102514},
      langid = {english}
    }
    

Team

Photo of Folker Meyer

Prof. Dr. Folker Meyer

folker.meyer@uni-due.de
Phone: +4920172377802

Photo of Ivana Kraiselburd

Dr. Ivana Kraiselburd

ivana.kraiselburd@uni-due.de
Interests: Bacterial Diversity, Sepsis, and Machine learning & Prediction

Administration

Photo of Kerstin Bornemann

Kerstin Bornemann

kerstin.bornemann@uk-essen.de
Phone: +492017237883

Researchers

Photo of Ricarda Schmithausen

PD Dr. Dr. Ricarda Schmithausen

ricarda.schmithausen@uni-due.de

Photo of Simon Magin

Dr. Simon Magin

simon.magin@uk-essen.de

Research Assistants

Photo of Katharina Block

M.Sc. Katharina Block, Ph.D. Candidate

katharina.block@uk-essen.de

Photo of Adrian Doerr

M.Sc. Adrian Doerr, Ph.D. Candidate

adrian.doerr@uk-essen.de

Photo of Alexander Thomas

M.Sc. Alexander Thomas, Ph.D. Candidate

alexander.thomas@uk-essen.de

Photo of Josefa Welling

M.Sc. Josefa Welling, Ph.D. Candidate

josefa.welling@uk-essen.de
Interests: antibiotic resistances and ML

Photo of Ann-Kathrin Brüggemann

M.Sc. Ann-Kathrin Brüggemann, Ph.D. Candidate

Ann-Kathrin.Brueggemann@uk-essen.de
Interests: Time Series Data and 16s rDNA

Tech

Photo of Jule Gosch

Jule Gosch

jule.gosch@uk-essen.de

Photo of Ryan Aydelott

Ryan Aydelott, Experimental/HPC Systems Specialist

ryan.aydelott@uk-essen.de