Sex-specific differences in immunity and infection: an integrative approach
A growing amount of evidence suggests that immune reaction to challenge is strongly influenced by the sex of the individual. We hypothesize that the observable sex bias in neurodegenerative disease onset, prevalence, and progression might be caused or exacerbated by sex-specific differences of brain immune cells. In this project, we will investigate sex-specific immunosenescence in the healthy brain and derive potential implications for the observed sex biases in neurodegeneration. Another fundamental assumption of this project is that the integration of sex differences in immunology across data types and diseases should yield novel insights into sex-specific pathophysiology. It is our second aim we will build a semantic integration platform for the interactive querying, visualization, and analysis of sex-specific immune differences across organs, disease, model organism, and treatment. This platform will enable researchers of the RU 5068 and the global research community to easily access and analyse data according to FAIR principles. The subsequent integrative analysis of this data will yield fundamental insights into common and distinct central sex-specific regulatory mechanisms of the immune system, providing insights into actionable molecules, pathways, and cell types.
PROJECT-RELATED PUBLICATIONS
Khatri R, Machart P, Bonn S. (2024)
Semi-supervised consistency regularization for accurate cell type fraction and gene expression estimation.
Genome Biol I 25:112
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Kuehl, M., Wong M.N., Wanner N, Bonn S., Puelles W.G. (2024)
Gene count estimation with pytximport enables reproducible analysis of bulk RNA sequencing data in Python.
Bioinformatics I 40(12)
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Borggrewe M., Flosbach M., Bonn S., Bunders M.J. (2024)
Seumetry: a versatile and comprehensive R toolkit to accelerate high-dimensional flow and mass cytometry data analysis.
bioRxiv.
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Abdollahi, S, Schaub, DP, Barroso, M, Laubach NC, Hutwelker W, Panzer U, Gersting SW & Bonn S. (2024)
A comprehensive comparison of deep learning-based compound-target interaction prediction models to unveil guiding design principles.
J Cheminform I 16:118.
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Hausmann F, Ergen C, Khatri R, Marouf M, Hänzelmann S, Gagliani N, Huber S, Machart P, Bonn S. (2023)
DiSCERN: deep single cell expression reconstruction for improved cell clustering and cell subtype and state detection.
Genome Biology I 24:212.
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Marouf M, Machart P, Bansal V, Kilian C, Magruder DS, Krebs CF, Bonn S. (2020)
Realistic in silico generation and augmentation of single-cell RNA-seq data using generative adversarial networks.
Nat Commun I 11:166
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Menden K, Marouf M, Oller S, Magruder DS, Dalmia A. Heutink P, Bonn S. (2020)
Deep-learning-based cell composition analysis from tissue expression profiles.
Sci Adv I 6:30
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Deng L, Ly C, Abdollahi S, Zhao Y, Prinz I, Bonn S. (2023)
Performance comparison of TCR-pMHC prediction tools reveals a strong data dependency.
Frontiers in Immunology I 14:1128326.
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Gomes LC, Hänzelmann S, Oller S, Parvaz M, Hausmann F, Khatri R, Ebbing M, Holzapfel C, Pasetto Laura, Columbro SF, Scozzari S, Gebelin M, Knöferle J, Cordts I, Demleitner AF, Tzeplaeff L, Deschauer M, Dufke C, Sturm M, Zhou Q, Zelina P, Sudria-Lopez Emma, Haack TB, Streb S, Kuzma-Kozakiewicz M, Edbauer D, Pasterkamp RJ, Laczko E, Rehrauer H, Schlapbach R, Carapito C, Bonetto V, Bonn S#, Lingor P#. (2024)
Multiomic ALS signatures highlight sex differences and molecular subclusters and identify the MAPK pathway as therapeutic target.
Nat Commun I 15:4893
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Er-Lukowiak M, Hänzelmann S, Rothe M, Moamenpour DT, Hausmann F, Khatri R, Hansen C, Boldt J, Bärreiter VA, Honecker B, Bea A, Groneberg M, Fehling H, Marggraff C, Cadar D, Bonn S, Sellau J, Lotter H. (2023)
Testosterone affects type I/type II interferon response of neutrophils during hepatic amebiasis.
Front. Immunol., Sec. Parasite Immunology I 14:1279245.
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Grünhagel B, Borggrewe M, Hagen SH, Ziegler SM, Henseling F, Glau L, Thiele RJ, Pujantell M, Sivayoganathan V, Padoan B, Claussen JM, Düsedau A, Hennesen J, Bunders MJ, Bonn S, Tolosa E, Krebs CF, Dorn C, Altfeld M. 2023.
Reduction of IFN-I responses by plasmacytoid dendritic cells in a longitudinal trans men cohort.
iScience I 26:108209
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