Disease Systems Biology

Infection Biology

Our group aims to overcome the challenges that currently limit the development and exploitation of novel personalized combinatorial therapies for sepsis by improving the understanding of infections and sepsis pathophysiology, developing novel approaches for the early diagnosis and optimal treatment of sepsis and sepsis-related organ failure. The specific objectives of our group are: to identify host biomarker signatures through multi-omics high-throughput analysis that would enable early diagnosis of infection and sepsis, and that can trigger early pre-symptomatic treatment; to recognize appropriate subsets of sepsis patients through integration of biological and clinical data to target with novel therapies; and to design combinatorial therapies based on in-silico pathway drug networks and validate them in preclinical and clinical studies.

Personalized diet

It is well known that nutrition is the cornerstone of an individual’s environment, as such understanding how diet influences metabolic regulation and how dietary interventions can improve health is a key scientific goal. Furthermore, diet has a major influence on the overall quality of life beyond the prevention of diseases and its role is fundamental for individual performance and enjoyment. Even though the personalized approach to diet is the logical next step – much like the transition from pharmacology to personalized medicine – this task is extraordinarily complicated. Most foods are composed of hundreds of bioactive compounds, often interacting with each other. Furthermore, the targets are of varied concentrations and different targets have different affinities and specificities. Unfortunately, nutritional trials are not designed for mechanism-based preclinical studies, and little is known about their molecular targets. Our group integrates chemoinformatics, in-silico metabolic modelling, microbiome and network biology for performing global analyses of diet that elucidates the synergistic interactions of small molecules that yield specific phenotypes and hopefully contribute towards personalized nutrition.


Albert García López
Mohammadhassan Mirhakkak Esfahani
Tongta Sae-Ong
Sascha Schäuble
Bastian Seelbinder
Lin Lin Xu


Heberle AM, Razquin Navas P, Langelaar-Makkinje M, Kasack K, Sadik A, Faessler E, Hahn U, Marx-Stoelting P, Opitz CA, Sers C, Heiland I, Schäuble S, Thedieck K (2019) The PI3K and MAPK/p38 pathways control stress granule assembly in a hierarchical manner. Life Sci Alliance 2(2), e201800257.
Kaur S, Rawal P, Siddiqui H, Rohilla S, Sharma S, Tripathi DM, Baweja S, Hassan M, Vlaic S, Guthke R, Thomas M, Dayoub R, Bihari C, Sarin SK, Weiss TS (2019) Increased expression of RUNX1 in liver correlates with NASH activity score in patients with non-alcoholic Steatohepatitis (NASH). Cells 8(10), 1277.
Marbach-Breitrück E, Matz-Soja M, Abraham U, Schmidt-Heck W, Sales S, Rennert C, Kern M, Aleithe S, Spormann L, Thiel C, Gerlini R, Arnold K, Klöting N, Guthke R, Rozman D, Teperino R, Shevchenko A, Kramer A, Gebhardt R (2019) Tick-Tock Hedgehog-Mutual crosstalk with liver circadian clock promotes liver steatosis. J Hepatol 70(6), 1192-1202.
Wang Y, Tatham MH, Schmidt-Heck W, Swann C, Singh-Dolt K, Meseguer-Ripolles J, Lucendo-Villarin B, Kunath T, Rudd TR, Smith AJH, Hengstler JG, Godoy P, Hay RT, Hay DC (2019) Multiomics analyses of HNF4α protein domain function during human pluripotent stem cell differentiation. iScience 16, 206-217.
Zoran T, Weber M, Springer J, White PL, Bauer J, Schober A, Löffler C, Seelbinder B, Hünniger K, Kurzai O, Scherag A, Schäuble S, Morton CO, Einsele H, Linde J, Löffler J (2019) Treatment with etanercept and low monocyte concentration contribute to the risk of invasive aspergillosis in patients post allogeneic stem cell transplantation. Sci Rep 9(1), 17231.
Aramillo Irizar P, Schäuble S, Esser D, Groth M, Frahm C, Priebe S, Baumgart M, Hartmann N, Marthandan S, Menzel U, Müller J, Schmidt S, Ast V, Caliebe A, König R, Krawczak M, Ristow M, Schuster S, Cellerino A, Diekmann S, Englert C, Hemmerich P, Sühnel J, Guthke R, Witte OW, Platzer M, Ruppin E, Kaleta C (2018) Transcriptomic alterations during ageing reflect the shift from cancer to degenerative diseases in the elderly. Nat Commun 9(1), 327.
Conrad T*, Kniemeyer O, Henkel SG, Krüger T, Mattern DJ, Valiante V, Guthke R, Jacobsen ID, Brakhage AA, Vlaic S, Linde J (2018) Module-detection approaches for the integration of multilevel omics data highlight the comprehensive response of Aspergillus fumigatus to caspofungin. BMC Syst Biol 12(1), 88.
Fischer J, Müller SY, Netzker T, Jäger N, Gacek-Matthews A, Scherlach K, Stroe MC, García-Altares M, Pezzini F, Schoeler H, Reichelt M, Gershenzon, Krespach MK, Shelest E, Schroeckh V, Valiante V, Heinzel T, Hertweck C, Strauss J, Brakhage AA (2018) Chromatin mapping identifies BasR, a key regulator of bacteria-triggered production of fungal secondary metabolites. eLife 7, e40969.
Godoy P, Schmidt-Heck W, Hellwig B, Nell P, Feuerborn D, Rahnenführer J, Kattler K, Walter J, Blüthgen N, Hengstler JG (2018) Assessment of stem cell differentiation based on genome-wide expression profiles. Philos Trans R Soc Lond B Biol Sci 373(1750), 20170221. (Review)
Lehmann R, Müller MM, Klassert TE, Driesch D, Stock M, Conrad T, Moore C, Schier U, Guthke R, Slevogt H (2018) Differential regulation of the transcriptomic and secretomic landscape of sensor and effector functions of human airway epithelial cells. Mucosal Immunol 11(3), 627-642.