Biomolecular Data Science in Pneumology
Main Emphasis
We perform cutting-edge research on data generated by novel biomolecular technologies to address questions in pneumology. Towards this, we use biological high-throughput data, i.e., OMICs data, to gain insights into molecular and phenotypic traits and diseases using computational methods. We combine data, methodology and their applications in pneumology through interdisciplinary collaboration with mathematicians, computer scientists, biologists and physicians.
The group’s research is based on sequencing data and Bioinformatics methodology and covers the Genomics, Transcriptomics and increasingly also Epigenomics and Epitranscriptomics fields. Respective OMICs data are integrated and linked primarily to genetic variation aiming toward a systems understanding of lung diseases.
Selected ongoing projects
- Genetic risk estimation and disease prediction using machine learning
- Tool development, e.g. for variant or haplotype visualization
- Nanopore direct DNA and RNA sequencing data analyses, e.g. RNA modification detection
- Genomic reference data
Please get in contact if you consider working with us, for example for Bachelor or Master theses, Ph.D and postdoc opportunities or collaborations!
High-performance computing (HPC) infrastructure
The group harmonizes, administrates and extends a high-performance computing (HPC) infrastructure to offer it to all research groups at FZB. It allows to analyze and store data from all short and long-read sequencing-based investigations performed in-house. The group is currently setting up an accompanying center-wide FAIR raw sequencing data management.
Consulting
We provide consulting on HPC, OMICs experimental setup, computational methods, and data management for all researchers at FZB (Time slots available on Tuesdays).
Workflows
We provide workflows for OMICS analyses of high demand at FZB and respective training. Current efforts focus on bulk short-read RNA sequencing data analysis.
- University Cancer Center Schleswig-Holstein:
“A clinical trial toward precise and ultra-rapid methylation- and copy number variant-based diagnosis of brain tumors” with C. Kubelt, 2022 - Cluster of Excellence “Precision Medicine in Chronic Inflammation“:
“Transcriptome analysis and identification of RNA modifications in vascular smooth muscle cells under oxidative stress using Oxford Nanopore (ONT) direct RNA sequencing” with T. Reinberger, 2021 – 2022
- Illumina, PacBio, Oxford Nanopore Technologies (ONT) sequencing data
- Small and structural variant identification
- Long-read sequencing-based assembly
- Population genetics
- Mitochondrial genetics
- RNA sequencing data analyses
- Gene and transcript expression
- Differential expression
- Gene set enrichment analyses
- Expression quantitative trait loci (eQTL)
- Small RNA sequencing data (miRNAs)
- Methylation (ONT)
- m6A base modification (ONT)
- Differential base modification (ONT)
2024
Olbrich, M, Bartels, L & Wohlers, I 2024, 'Sequencing technologies and hardware-accelerated parallel computing transform computational genomics research', Frontiers in bioinformatics, Jg. 4, S. 1384497. https://doi.org/10.3389/fbinf.2024.1384497
2023
Bassyouni, M. Mysara, I. Wohlers, H. Busch, M. Saber-Ayad, M. El-Hadidi.
A comprehensive analysis of genetic risk for metabolic syndrome in the Egyptian population via allele frequency investigation and missense3D predictions
Accepted at Sci Rep. 2023
Thomsen, A. Künstner, I. Wohlers, M. Olbrich, T. Lenfers, T. Osumi, Y. Shimazaki, K. Nishifuji, S.M. Ibrahim, A. Watson, H. Busch, M. Hirose.
A comprehensive analysis of gut and skin microbiota in canine atopic dermatitis in Shiba Inu dogs.
Microbiome. 2023;11(1):232. doi: https://doi.org/10.1186/s40168-023-01671-2.
Fähnrich*, I. Stephan*, M. Hirose, F. Haarich, M.A. Awadelkareem, S. Ibrahim, H. Busch*, Wohlers I*.
North and East African mitochondrial genetic variation needs further characterization towards precision medicine.
J Adv Res. 2023:S2090-1232(23)00034-6. doi: https://doi.org/10.1016/j.jare.2023.01.021
Wohlers, S. Garg, J.Y. Hehir-Kwa.
Editorial: Long-read sequencing-Pitfalls, benefits and success stories.
Front Genet. 2023;13:1114542. doi: https://doi.org/10.3389/fgene.2022.1114542
2022
R. Saurabh, C. Fouodo, I. König, H. Busch and I. Wohlers.
A survey of genome-wide association studies (GWAS), polygenic scores (PGS) and UK Biobank (UKB) highlights resources for autoimmune disease genetics.
Front. Immunol. 2022;5;13:972107. doi: https://doi.org/10.3389/fimmu.2022.972107
H. R. Gouda, I. M. Talaat, A. Bouzid, H. El Assi, A. Nabil, T. Venkatachalam, P. Bhamidimarri, I. Wohlers, A. Mahdami, S. El-Gendi, A. Elkoraie, H. Busch, M. M. Saber-Ayad, R. Hamoudi, N. Baddour.
Genetic Analysis of CFH and MCP in Egyptian Patients with Immune-Complex Proliferative Glomerulonephritis.
Front Immunol. 2022;13:960068. doi: https://doi.org/10.3389/fimmu.2022.960068
T. Lüth, J. Laβ, S. Schaake, I. Wohlers, J. Pozojevic, R. D. Jamora, R. L. Rosales, N. Brüggemann, G. Saranza, C. C. E. Diesta, K. Schlüter, R. Tse, C. J. Reyes, M. Brand, H. Busch, C. Klein, A. Westenberger, J. Trinh.
Elucidating hexanucleotide repeat number and methylation within the X-linked dystonia-parkinsonism (XDP)-related SVA retrotransposon in TAF1 with Nanopore sequencing.
Genes (Basel). 2022;13(1):126. doi: https://doi.org/10.3390/genes13010126
Head
Scientific staff
Technical staff
Assistant scientists
Alumni
- André Fienemann
finished an internship for study programme Molecular Life Science - Kim Paulke
finished an internship for study programme Medical Engineering - Ricardo Stolze (01/2023 – 09/2023)
finished his Master’s thesis in the group