KFO309 - The clinical research unit Virus Induced Lung injury

Principal Investigators

Torsten Hain

PD Dr. rer. nat. Torsten Hain

Justus Liebig University Giessen
Institute of Medical Microbiology 
Schubertstraße 81; 35392 Giessen

+49-641-99-39860
Alexander Goesmann

Prof. Dr. Alexander Goesmann

Systems Biology
Heinrich-Buff-Ring 58; 35392 Giessen

+49 641 99-35800
Jochen Wilhelm

Dr. rer. nat. Jochen Wilhelm

Justus Liebig University Giessen
Department of Medicine II
Gaffkystr. 11; 35392 Giessen

+49-641-99-42545
Mario Looso

Dr. Mario Looso

Head of Bioinformatics Service Facility

Max Planck Institute for Heart and Lung Research

Ludwigstrasse 43

61231 Bad Nauheim

Loosolab.mpi-bn.mpg.de

+49-6032-705-1763

Core unit “Genome signatures and integrated systems biology of pathogen-host interaction and cellular networks in the infected and injured lung”

Summary

Understanding cell-specific gene regulatory events and their impact on cellular networks in infected lungs requires an integrative CRU platform which delivers high-throughput transcriptomics, genomics and epigenetics analyses from primary lung cells/organoids/tissues including highly purified cell populations even of rare subsets, as well as advanced tools for data exploitation. The core unit (Z1) provides methods and tools for processing of murine and human lung specimens including patient samples to all CRU projects, with a focus on cell specificity and after prior processing/enrichment of rare cell populations by Auto-MACS and FACS. Furthermore, automated sample/library preparation, whole-transcriptome analyses by microarrays and next-generation sequencing (NGS) including single cell RNA sequencing (scRNA-Seq) and droplet-based approaches (Drop-Seq) for transcriptomics and epigenomics, as well as microbiome/metagenome analysis are cutting edge techniques provided by Z1. A comprehensive portfolio of bioinformatics software solutions is offered to all CRU members to process and analyze the above-mentioned data sets in a standardized and highly automated fashion.

Z1 bersicht

 

Hompage MPI Bioinformatic

Homepage Goesmann lab

Single Cell RNAseq analysis software

Publications




Multi-level inhibition of coronavirus replication by chemical ER stress

Nat Commun 2021; 12: 5536, doi: 10.1038/s41467-021-25551-1

Protocol for the generation of murine bronchiolospheres

STAR Protoc 2021 Jun 11;2(2):100594. doi: 10.1016/j.xpro.2021.100594


WASP: a versatile, web-accessible single cell RNA-Seq processing platform

BMC Genomics 2021 Mar 18;22(1):195. doi: 10.1186/s12864-021-07469-6




Acute kidney injury and urinary biomarkers in hospitalized patients with coronavirus disease-2019

Nephrol Dial Transplant 2020 Jul 1;35(7):1271-1274. doi: 10.1093/ndt/gfaa162







Regulation and role of the ER stress transcription factor Chop in alveolar epithelial type-II cells

J Mol Med (Berl) 2019 Jul;97(7):973-990. doi:10.1007/s00109-019-01787-9


ADAR1 Is Required for Dendritic Cell Subset Homeostasis and Alveolar Macrophage Function

J Immunol 2019 Feb 15;202(4):1099-1111. doi: 10.4049/jimmunol.180026








Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment

Cell 2020 Sep 17;182(6):1419-1440.e23. doi: 10.1016/j.cell.2020.08.001


Principal Investigators

Torsten Hain

PD Dr. rer. nat. Torsten Hain

Justus Liebig University Giessen
Institute of Medical Microbiology 
Schubertstraße 81; 35392 Giessen

+49-641-99-39860
Alexander Goesmann

Prof. Dr. Alexander Goesmann

Systems Biology
Heinrich-Buff-Ring 58; 35392 Giessen

+49 641 99-35800
Jochen Wilhelm

Dr. rer. nat. Jochen Wilhelm

Justus Liebig University Giessen
Department of Medicine II
Gaffkystr. 11; 35392 Giessen

+49-641-99-42545
Mario Looso

Dr. Mario Looso

Head of Bioinformatics Service Facility

Max Planck Institute for Heart and Lung Research

Ludwigstrasse 43

61231 Bad Nauheim

Loosolab.mpi-bn.mpg.de

+49-6032-705-1763

Project group

  • Burkhard Linke

    Dr. Burkhard Linke

    Postdoc

  • Andreas Hoek

    Andreas Hoek

    Bioinformatician

  • Monika Heiner

    Dr. Monika Heiner

    Postdoc

  • Jan Philipp Mengel

    Jan Philipp Mengel

    PhD student

  • Sweta Taylan

    Sweta Taylan , Postdoc