Bioinformatics and Computational Biophysics
University Duisburg-Essen

Dr. Farnoush Farahpour

Summary

The aim of this project is to develop mechanistic mathematical models for simulating radiation-induced immune responses (RIIR). These models will be used to quantitatively test biological hypotheses under fully controlled conditions with negligible costs in time, material resources, and animal lives. They will be generic multi-scale hybrid models, that integrate heterogeneous components and interactions in molecular and cellular levels to explain RIIR processes and dynamics. Specifically we will collaborate with project P3 to develop a hybrid IBM-QSP computational mouse model by incorporating the relevant mechanisms of spatiotemporal dynamics of RIT-mediated immunomodulation in PDAC, at the tumor and systemic level.  Our long-term goal is to understand the main factors that influence RIIR, and to find molecular and cellular biomarkers of RIIR-related RT outcomes with the potential of clinical translation.

Selected Publications

Reinold J, Farahpour F, Fehring C, Dolff S, Konik M, Korth J, Van Baal L, Hoffmann D, Buer J, Witzke O, Westendorf AM. A Pro-Inflammatory Gut Microbiome Characterizes SARS-CoV-2 Infected Patients and a Reduction in the Connectivity of an Anti-Inflammatory Bacterial Network Associates With Severe COVID-19. Frontiers in cellular and infection microbiology. 2021:1154.

Peiffer L, Farahpour F, Sriram A, Spassova I, Hoffmann D, Kubat L, Stoitzner P, Gambichler T, Sucker A, Ugurel S, Schadendorf D. BRAF and MEK inhibition in melanoma patients enables reprogramming of tumor infiltrating lymphocytes. Cancer Immunology, Immunotherapy. 2021 Jun;70(6):1635-47.

Spassova I, Ugurel S, Terheyden P, Sucker A, Hassel JC, Ritter C, Kubat L, Habermann D, Farahpour F, Saeedghalati M, Peiffer L. Predominance of central memory T cells with high T-cell receptor repertoire diversity is associated with response to PD-1/PD-L1 inhibition in Merkel cell carcinoma. Clinical Cancer Research. 2020 May 1;26(9):2257-67.

Kehrmann J, Menzel J, Saeedghalati M, Obeid R, Schulze C, Holzendorf V, Farahpour F, Reinsch N, Klein-Hitpass L, Streeck H, Hoffmann D. Gut Microbiota in Human Immunodeficiency Virus–Infected Individuals Linked to Coronary Heart Disease. The Journal of infectious diseases. 2019 Jan 9;219(3):497-508.

Farahpour F, Saeedghalati M, Brauer VS, Hoffmann D. Trade-off shapes diversity in eco-evolutionary dynamics. elife. 2018 Aug 17;7:e36273.

Saeedghalati M, Farahpour F, Budeus B, Lange A, Westendorf AM, Seifert M, Küppers R, Hoffmann D. Quantitative comparison of abundance structures of generalized communities: from B-cell receptor repertoires to microbiomes. PLoS computational biology. 2017 Jan 23;13(1):e1005362.

Farahpour F, Maleknejad A, Varnik F, Ejtehadi MR. Chain deformation in translocation phenomena. Soft Matter. 2013;9(9):2750-9.