Bioinformatics (Dr. Künstner): LIED

Bioinformatics Service Unit

We can advise on project planning to clarify at an early stage whether specific scientific questions can be answered within your experimental planning to avoid future complications. We develop the desired goals for the data evaluation together with you and carry out the bioinformatics analysis and modeling. On request, we also accompany the process of data evaluation.

Besides data analysis by running the software tools, we offer to discuss possible ways of analyzing your data yourself. If possible, we can even assist with the data analysis procedure (limited resources available):

Bioinformatic analysis
Next-generation sequencing analysis (list not comprehensive)
- RNA-seq data
- Whole exome sequencing
- Whole genome sequencing
- Targeted sequencing
- ChiP-seq data
- Microbiome data (e.g. amplicon 16S rRNA/ITS, metagenomics)
- de novo genome/transcriptome assembly
Microarray analysis
SNP chip analysis
Methylation arrays
CNV Arrays
Genome-wide association studies (GWAS)

Team members

Contact Details

Phone: +49 451 3101 8475
Fax: +49 451 3101 8404
Email: Axel.Künstner(at)uni-luebeck.de
Web: www.medsysbio-luebeck.de

Selected Publications

Cancer Research

Praus, F.; Künstner, A.; Sauer, T.; Kohl, M.; Kern, K.; Deichmann, S.; Vegvari, A.; Keck, T.; Busch, H.; Habermann, J. K.; Gemoll, T. Panomics Reveals Patient Individuality as the Major Driver of Colorectal Cancer Progression. J. Transl. Med. 2023, 21, 41.

Künstner, A.; Schwartig, J.; Witte, H. M.; Bernard, V.; Stölting, S.; Kusch, K.; Nagarathinam, K.; von Bubnoff, N.; Murge Penas, E. M.; Merz, H.; Busch, H.; Feller, A. C.; Gebauer, N. Integrative Molecular Profiling Identifies Two Molecularly and Clinically Distinct Subtypes of Blastic Plasmacytoid Dendritic Cell Neoplasm. Blood Cancer J. 2022, 12, 101.

Weber, P.; Künstner, A.; Hess, J.; Unger, K.; Marschner, S.; Idel, C.; Ribbat-idel, J.;Baumeistger, P.; Gires, O.; Walz, W.;Rietzler, S.; Valeanu, L.; Herkommer, T.; Kreutzer, L.; Klymenko, O.; Drexler, G.; Kirchner, T.; Maihöfer, C.; Ganswindt, U.; Walch, A.; Sterr, M.; Lickert, H.; Canis, M.; Rades, D.; Perner, S.; Berriel Diaz, M.; Herzig, S.; Lauber, K.; Wollenberg, B.; Busch, H.; Belka, C.; Zitzenberger, H. Therapy-Related Transcriptional Subtypes in Matched Primary and Recurrent Head and Neck Cancer. Clin. Cancer Res. 2022, 28 (5), 1038–1052

Künstner, A.; Witte, H. M.; Riedl, J.; Bernard, V.; Stölting, S.; Merz, H.; Olschewski, V.; Peter, W.; Ketzer, J.; Busch, Y.; Trojok, P.; von Bubnoff, N.; Busch, H.; Feller, A. C.; Gebauer, N. Mutational Landscape of High-grade B-cell Lymphoma with MYC-, BCL2 and/or BCL6 Rearrangements Characterized by Whole-exome Sequencing. Haematologica 2021, 107 (8), 1850–1863.

Witte, H. M.; Künstner, A.; Hertel, N.; Bernd, H.-W.; Bernard, V.; Stölting, S.; Merz, H.; vonn Bubnoff, N.; Busch, H.; Feller, A. C.; Gebauer, N. Integrative Genomic and Transcriptomic Analysis in Plasmablastic Lymphoma Identifies Disruption of Key Regulatory Pathways. Blood Adv. 2021, 6 (2), 637–651.

Gebauer, N.; Künstner, A.; Ketzer, J.; Witte, H. M.; Rausch, T.; Benes, V.; Zimmermann,m J.; Gebauer, J.; Merz, H.; Bernard, V.; Harder, L.; Ratjen, K.; Gesk, S.; Peter, W.; Busch, Y.; Trojok, P.; von Bubnoff, N.; Biersack, H.; Busch, H.; Feller, A. C. Genomic Insights into the Pathogenesis of Epstein-Barr Virus-associated Diffuse Large B-cell Lymphoma by Whole-genome and Targeted Amplicon Sequencing. Blood Cancer J. 2021, 11 (5), 102.

Microbiome Research

Thomsen, M.; Künstner, A.; Wohlers, I.; Olbrich, M.; Lenfers, T.; Osumi, T.; Shimazaki, Y.; Nishifuji, K.; Ibrahim, S. M.; Watson, A.; Busch, H.; Hirose, M. A Comprehensive Analysis of Gut and Skin Microbiota in Canine Atopic Dermatitis in Shiba Inu Dogs. Microbiome 2023, 11 (1), 232.

Reimer-Taschenbrecker, A.; Künstner, A.; Hirose, M.; Hübner, S.; Gewert, S.; Ibrahim, S.; Busch, H.; Has, C. Predominance of Staphylococcus Correlates with Wound Burden and Disease Activity in Dystrophic Epidermolysis Bullosa: A Prospective Case-Control Study. J Invest Dermatol. 2022, 142 (8), 2117–2127.

Künstner, A.; Schilf, P.; Busch, H.; Ibrahim, S. M.; Hirose, M. Changes of Gut Microbiota by Natural mtDNA Variant Differences Augment Susceptibility to Metabolic Disease and Ageing. Int. J. Mol. Sci. 2022, 23 (3), 1056.

Beckmann, L.; Künstner, A.; Freschi, M. L.; Huber, G.; Stölting, I.; Ibrahim, S. M.; Hirose, M.; Freitag, M.; Langan, E. A:; Matschl, U.; Galuska, C. E.; Fuchs, B.; Knoblock, J. K.; Busch, H.; Raasch, W. Telmisartan Induces a Specific Gut Microbiota Signature Which May Mediate Its Antiobesity Effect. Pharmacol. Res. 2021, 170, 105724.

Künstner, A., Aherrahrou, R.; Hirose, M.; Bruse, P.; Ibrahim, S. M.; Busch, H.; Erdmann, J.; Aherrahrou, Z. Effect of Differences in the Microbiome of Cyp17a1-deficient Mice on Atherosclerotic Background. Cells 2021, 10 (6), 1292.

Montgomery, T. L.; Künstner, A.; Kennedy, J. J.; Fang, Q.; Asarian, L.; Culp-Hill, R.; DÄAllesandro, A.; Teuscher, C.; Busch, H.; Krementsov, D. N. Interactions between Host Genetics and Gut Microbiota Determine Susceptibility to CNS Autoimmunity. Proc. Natl. Acad. U S A. 2020, 117 (44), 27516–27527.

Langan, E. A.; Künstner, A.; Miodovnik, M.; Zillikens, D.; Thaci, D.; Baines, J. F.; Ibrahim, S. M.; Solbach, W.;Knobloch, J. K. Combined Culture and Metagenomic Analyses Reveal Significant Shifts in the Composition of the Cutaneous Microbiome in Psoriasis. Br. J. Dermatol. 2019, 181 (6), 1254–1264.

Hirose, M.; Künstner, A.; Schilf, P.; Sünderhauf, A.; Rupp, J.; Jöhren, O.; Schwaninger, M.; Sina, C.; Baines, J. F.; Ibrahim, S. M. Mitochondrial Gene Polymorphism is Associated with Gut Microbial Communities in Mice. Sci. Rep. 2017, 7 (1), 15293.

Hopfner, F.; Künstner, A.; Müller, S. H.; Künzel, S.; Zeuner, K. E.; Margraf, N. G.; Deuschl, G.; Baines, J. F.; Kuhlenbäumer, G. Gut Microbiota in Parkinson Disease in a Northern German Cohort. Brain Res. 2017, 1667, 41–45.

Miodovnik, M.; Künstner, A. Langan, E. A.; Zillikens, D.; Glöser, R.; Sprecher, E.; Baines, J. F.; Schmidt, E.; Ibrahim, S. M. A Distinct Cutaneous Microbiota Profile in Autoimmune Bullous Disease Patients. Exp. Dermatol. 2017, 26 (12), 1221–1227.

Genomics and Selection

Künstner, A.; Hoffmann, M.; Fraser, B. A.M Kottler, V. A.; Sharma, E.; Weigel, D.; Dreyer, C. The Genome of the Trinidadian Guppy, Poecilia Reticulata, and Variation in the Guanapo Population. PLoS One 2016, 11 (12), e0169087.

Künstner, A.; Nabholz, B.; Ellegren, H. Significant Selective Constraint at 4-fold Degenerate Sites in the Avian Genome and Its Consequence for Detection of Positive Selection. Genome Biol. Evol. 2011, 3, 1218–1319

Smeds, L.; Künstner, A. ConDeTri – A Content Dependent Read Trimmer for Illumina Data. PLoS One. 2011, 6 (10), e26314.

Künstner, A.; Nabholz, B.; Ellegren, H. Evolutionary Constraint in Flanking Regions of Avian Genes. Mol. Biol. Evol. 2011, 28 (9), 2481–2489.

Künstner, A.; CWolf, J. B. W.; Backström, N.; Whitney, O.; Balakrishnan, C. N.; Day, L.; Edwards, S. V.; Janes, D. E.; Schlinger, B. A.; Wison, R. K.; Jarvis, E. D.; Warren, W. C.; Ellegren, H. Comparative Genomics Based on Massive Parallel Transcriptome Sequencing Reveals Patterns of Substitution and Selection Across 10 Bird Species. Mol. Ecol. 2010, Suppl. 1, 266–276.

Wolf, J. B. W.; Künstner, A. Nam, Kiwoong, Jakobsson, M.; Ellegren, H. Nonlinear Dynamics of Nonsynonymous (dN) and Synonymous (dS) Substitution Rates Affects Inference of Selection. Genome Biol. Evol. 2009, 1, 308–319.