Bioinformatics
Bioinformatics
Overview
The Bioinformatics Unit is dedicated to provide expert consulting, and analysis for high-throughput data. We have established modern, standardized workflows for several tasks in the field of next generation sequencing (NGS), including analysis of eukaryotes, prokaryotes and viruses.
For more information, visit our
Research Infrastructure Services
Prediction of Antibiotic Susceptibility Profiles of Vibrio cholerae Isolates From Whole Genome Illumina and Nanopore Sequencing Data: CholerAegon.
Fuesslin V, Krautwurst S, Srivastava A, Winter D, Liedigk B, Thye T, Herrera-León S, Wohl S, May J, Fobil JN, Eibach D, Marz M, Schuldt K.
Front Microbiol. 2022 Jun 22;13:909692. doi: 10.3389/fmicb.2022.909692. PMID: 35814690; PMCID: PMC9257098. 2022-06-22
Epidemiology of Plasmids in Escherichia coli and Klebsiella pneumoniae with Acquired Extended Spectrum Beta-Lactamase Genes Isolated from Chronic Wounds in Ghana.
Pankok F, Taudien S, Dekker D, Thye T, Oppong K, Wiafe Akenten C, Lamshöft M, Jaeger A, Kaase M, Scheithauer S, Tanida K, Frickmann H, May J, Loderstädt U.
Antibiotics (Basel). 2022 May 19;11(5):689. doi: 10.3390/antibiotics11050689. PMID: 35625333; PMCID: PMC9138140. 2022-05-19
Low Sensitivity of Real Time PCRs Targeting Retrotransposon Sequences for the Detection of Schistosoma japonicum Complex DNA in Human Serum.
Frickmann H, Loderstädt U, Nickel B, Poppert S, Odermatt P, Sayasone S, Van Esbroeck M, Micalessi I, Cnops L, Adisakwattana P, Leboulle G, Landt O, Thye T, Tannich E.
Pathogens. 2021 Aug 22;10(8):1067. doi: 10.3390/pathogens10081067. PMID: 34451531; PMCID: PMC8398367. 2021-08-22
Human genetic variant E756del in the ion channel PIEZO1 not associated with protection from severe malaria in a large Ghanaian study.
Thye T, Evans JA, Ruge G, Loag W, Ansong D, Agbenyega T, Horstmann RD, May J, Schuldt K.
J Hum Genet. 2021 Jul 7. doi: 10.1038/s10038-021-00958-2. Epub ahead of print. PMID: 34230590. 2021-07-07
Common virulence gene expression in adult first-time infected malaria patients and severe cases
Wichers JS, Tonkin-Hill G, Thye T, Krumkamp R, Kreuels B, Strauss J, von Thien H, Scholz JAM, Smedegaard Hansson H, Weisel Jensen R, Turner L, Lorenz FR, Schöllhorn A, Bruchhaus I, Tannich E, Fendel R, D Otto T, Lavstsen T, Gilberger TW, Duffy M, Bachmann A.
Elife. 2021 Apr 28;10:e69040. doi: 10.7554/eLife.69040. Online ahead of print. 2021-04-28
A multi-phenotype genome-wide association study of clades causing tuberculosis in a Ghanaian- and South African cohort.
Müller SJ, Schurz H, Tromp G, van der Spuy GD, Hoal EG, van Helden PD, Owusu-Dabo E, Meyer CG, Muntau B, Thye T, Niemann S, Warren RM, Streicher E, Möller M, Kinnear C.
Genomics. 2021 Apr 13:S0888-7543(21)00151-8. doi: 10.1016/j.ygeno.2021.04.024. Online ahead of print. PMID: 33862184. 2021-04-13
Clonal Clusters, Molecular Resistance Mechanisms and Virulence Factors of Gram-Negative Bacteria Isolated from Chronic Wounds in Ghana.
Dekker D, Pankok F, Thye T, Taudien S, Oppong K, Wiafe Akenten C, Lamshöft M, Jaeger A, Kaase M, Scheithauer S, Tanida K, Frickmann H, May J, Loderstädt U. Clonal
Antibiotics 2021, 10, 339. doi.org/10.3390/ antibiotics10030339. 2021-10-01
Comparative genomics revealed adaptive admixture in Cryptosporidium hominis in Africa.
Tichkule S, Jex AR, van Oosterhout C, Sannella AR, Krumkamp R, Aldrich C, Maiga-Ascofare O, Dekker D, Lamshöft M, Mbwana J, Rakotozandrindrainy N, Borrmann S, Thye T, Schuldt K, Winter D, Kremsner PG, Oppong K, Manouana P, Mbong M, Gesase S, Minja DTR, Mueller I, Bahlo M, Nader J, May J, Rakotozandrindrain R, Adegnika AA, Lusingu JPA, Amuasi J, Eibach D, Caccio SM.
Microb Genom. 2021 Jan;7(1):mgen000493. doi: 10.1099/mgen.0.000493. Epub 2020 Dec 23. PMID: 33355530; PMCID: PMC8115899. 2021-01-01
Altered Cytokine Response of Human Brain Endothelial Cells after Stimulation with Malaria Patient Plasma
Raacke M, Kerr A, Dörpinghaus M, Brehmer J, Wu Y, Lorenzen S, Fink C, Jacobs T, Roeder T, Sellau J, Bachmann A, Metwally NG, Bruchhaus I.
Cells. 2021 Jul 1;10(7):1656. doi: 10.3390/cells10071656. 2021-07-01
Analysis of the Interaction Between Plasmodium falciparum-Infected Erythrocytes and Human Endothelial Cells Using a Laminar Flow System, Bioinformatic Tracking and Transcriptome Analysis
Wu Y, Bouws P, Lorenzen S, Bruchhaus I, Metwally NG.
Methods Mol Biol. 2021;2369:187-197. doi: 10.1007/978-1-0716-1681-9_11. 2021-01-01
Life Cycle Stage-Specific Accessibility of Leishmania donovani Chromatin at Transcription Start Regions
Grunebast, J.; Lorenzen, S.; Zummack, J.; Clos, J.
mSystems, 10.1128/mSystems.00628-21. 2021-07-01
Prognostic value of the micronucleus assay for clinical endpoints in neoadjuvant radiochemotherapy for rectal cancer.
Dröge LH, Hennies S, Lorenzen S, Conradi LC, Quack H, Liersch T, Helms C, Frank MA, Schirmer MA, Rave-Fränk M, Beißbarth T, Wolff HA.
BMC Cancer. 2021 Mar 4;21(1):219. doi: 10.1186/s12885-021-07914-5. PMID: 33663399; PMCID: PMC7931609. 2021-03-04
Searching Novel Clock Genes Using RNAi-Based Screening.
Maier B, Lorenzen S, Finger AM, Herzel H, Kramer A.
Methods Mol Biol. 2021;2130:103-114. doi: 10.1007/978-1-0716-0381-9_8. PMID: 33284439. 2020-12-08
