Publikationen

Veröffentlichungen von OptimAgent und dessen Teilprojekten

1. Xu C, Bryzgalov A, Horn J, Jarynowski AK, Belik V, Jaeger VK, Karch A, Phuong HT, Suer J, Zambrano M, Schulz S, Hidalgo AR, Thampi A, Pastor R, Mikolajczyk R; OptimAgent Consortium. Intraindividual variability in non-household contacts: a German longitudinal study, April 2020-December 2021. BMC Infect Dis. 2026 Feb 21;26(1):749. doi: 10.1186/s12879-026-12940-4.
2. Ropeter J, Overhageböck N, Dreier M, Meyerdierks D, Imran A, Heinsohn T, Steinmann M, Kuhlmann A, Jahn B, Lange B, Klett-Tammen CJ, Harries M. Impact of the COVID-19 pandemic on diagnosis, and healthcare utilization, among patients with cancer (lung, breast, and pancreas) and cardiovascular diseases (HF, AF, hypertensive, and chronic ischemic heart disease) in Germany: two systematic reviews. Syst Rev. 2026 May 22;15(1):172. doi: 10.1186/s13643-026-03192-z.
3. Morales I, Nguyen VK, Abd El Aziz M, Sultanli A, Bärnighausen T, Becher H, Ciesek S, Kampmann B, Lange B, Rupp J, Scheithauer S, Ward H, Karch A, Denkinger CM. Responsive population-based cohorts as platforms for characterising pathogen- and population-level infection dynamics for epidemic prevention, preparedness and response. Euro Surveill. 2025 Jun;30(25):2400255. doi: 10.2807/1560-7917.ES.2025.30.28.250717c.
4. Kheifetz Y, Kirsten H, Schuppert A, Scholz M. Modeling the Complete Dynamics of the SARS-CoV-2 Pandemic of Germany and Its Federal States Using Multiple Levels of Data. Viruses. 2025 Jul 14;17(7):981. doi: 10.3390/v17070981.
5. Chaturvedi M, Bartz A, Denkinger CM, Klett-Tammen C, Kretzschmar M, Kuhlmann A, Lange B, Marx FM, Mikolajczyk R, Monsef I, Nguyen HT, Suer J, Skoetz N, Jaeger VK, Karch A. Guidelines on reporting and assessing dynamic mathematical models of infectious diseases: a scoping review. BMC Infect Dis. 2025 Dec 31;26(1):182. doi: 10.1186/s12879-025-12211-8.
6. Phuong HT, Bartz A, Jarynowski AK, Lange B, Jarvis CI, Rübsamen N, Mikolajczyk RT, Scholz S, Berger T, Heinsohn T, Belik V, Karch A, Jaeger VK. Changes in social contact patterns in Germany during the SARS-CoV-2 pandemic – an analysis based on the COVIMOD study. BMC Infect Dis. 2025 Apr 23;25(1):588. doi: 10.1186/s12879-025-10917-3.
7. Marsall P, Fandrich M, Griesbaum J, Harries M, Lange B; RESPINOW Study Consortium; Ascough S, Dayananda P, Chiu C, Remppis J, Ganzenmueller T, Renk H, Strengert M, Schneiderhan-Marra N, Dulovic A. Development and validation of a respiratory syncytial virus multiplex immunoassay. Infection. 2024 Apr;52(2):597-609. doi: 10.1007/s15010-024-02180-6.
8. Harries M, Jaeger VK, Rodiah I, Hassenstein MJ, Ortmann J, Dreier M, von Holt I, Brinkmann M, Dulovic A, Gornyk D, Hovardovska O, Kuczewski C, Kurosinski MA, Schlotz M, Schneiderhan-Marra N, Strengert M, Krause G, Sester M, Klein F, Petersmann A, Karch A, Lange B.: Bridging the gap – estimation of 2022/2023 SARS-CoV-2 healthcare burden in Germany based on multidimensional data from a rapid epidemic panel. Int J Infect Dis. 2024 Feb;139:50-58. doi: 10.1016/j.ijid.2023.11.014.
9. Lange B, Jaeger VK, Harries M, Rücker V, Streeck H, Blaschke S, Petersmann A, Toepfner N, Nauck M, Hassenstein MJ, Dreier M, von Holt I, Budde A, Bartz A, Ortmann J, Kurosinski MA, Berner R, Borsche M, Brandhorst G, Brinkmann M, Budde K, Deckena M, Engels G, Fenzlaff M, Härtel C, Hovardovska O, Katalinic A, Kehl K, Kohls M, Krüger S, Lieb W, Meyer-Schlinkmann KM, Pischon T, Rosenkranz D, Rübsamen N, Rupp J, Schäfer C, Schattschneider M, Schlegtendal A, Schlinkert S, Schmidbauer L, Schulze-Wundling K, Störk S, Tiemann C, Völzke H, Winter T, Klein C, Liese J, Brinkmann F, Ottensmeyer PF, Reese JP, Heuschmann P, Karch A.: Estimates of protection levels against SARS-CoV-2 infection and severe COVID-19 in Germany before the 2022/2023 winter season: the IMMUNEBRIDGE project. Infection. 2024 Feb;52(1):139-153. doi: 10.1007/s15010-023-02071-2.
10. Jarynowski, A., Czekaj, Ł., Semenov, A., Belik, V. (2024). Multiplex Network Approach for Modeling the Spread of African Swine Fever in Poland. In: Hà, M.H., Zhu, X., Thai, M.T. (eds) Computational Data and Social Networks. CSoNet 2023. Lecture Notes in Computer Science, vol 14479. Springer, Singapore. https://doi.org/10.1007/978-981-97-0669-3_32.
11. Dan S, Chen Y, Chen Y, Monod M, Jaeger VK, Bhatt S, Karch A, Ratmann O; Machine Learning & Global Health network. Estimating fine age structure and time trends in human contact patterns from coarse contact data: The Bayesian rate consistency model. PLoS Comput Biol. 2023 Jun 5;19(6):e1011191. doi: 10.1371/journal.pcbi.1011191.
12. Schulze-Wundling K, Ottensmeyer PF, Meyer-Schlinkmann KM, Deckena M, Krüger S, Schlinkert S, Budde A, Münstermann D, Töpfner N, Petersmann A, Nauck M, Karch A, Lange B, Blaschke S, Tiemann C, Streeck H. Immunity Against SARS-CoV-2 in the German Population. Dtsch Arztebl Int. 2023 May 12;120(19):337-344. doi: 10.3238/arztebl.m2023.0072.
13. Schulz S, Pastor R, Koyuncuoglu C, et al. Real-time Dissection and Forecast of Infection Dynamics during a Pandemic. medRxiv; 2023. DOI: 10.1101/2023.03.02.23286502. Link 
14. Jarynowski, A.; Jędrzejczyk, K.; Maksymowicz, S. (2023): Grain and food security as a tool of biopolitics: real-time internet monitoring and crisis management. E-methodology 9(9), S. 96–112. Link 
15. Wójta-Kempa, M., Skawina, A., Płatek, D., Jarynowski, A., Skawina, I., & Belik, V. (2023). Social values are significant factors in control of COVID-19 the first phase pandemic. E-Methodology, 9(9), 33–39. https://doi.org/10.15503/emet.2022.33.39. 
16. Johannes Ponge, Dennis Horstkemper, Bernd Hellingrath, Lukas Bayer, Wolfgang Bock, André Karch: Evaluating Parallelization Strategies for Large-Scale Individual-based Infectious Disease Simulations. WSC 2023: 1088-1099. doi: 10.1109/WSC60868.2023.10407633. Link 
17. Engels G, Oechsle AL, Schlegtendal A, Maier C, Holzwarth S, Streng A, Lange B, Karch A, Petersmann A, Streeck H, Blaschke-Steinbrecher S, Härtel C, Schroten H, von Kries R, Berner R, Liese J, Brinkmann F, Toepfner N; IMMUNEBRIDGE KIDS study group. SARS-CoV-2 sero-immunity and quality of life in children and adolescents in relation to infections and vaccinations: the IMMUNEBRIDGE KIDS cross-sectional study, 2022. Infection. 2023 Oct;51(5):1531-1539. doi: 10.1007/s15010-023-02052-5. 

1. Müller L, Mallick P, Marín-Carballo AB, Dönges P, Kettlitz RJN, Klett-Tammen CJ, Kretzschmar M, Priesemann V, Contreras S. Testing paradox may explain increased observed prevalence of bacterial STIs among MSM on HIV PrEP: A modeling study. Proc Natl Acad Sci U S A. 2025 Nov 4;122(44):e2524944122. doi: 10.1073/pnas.2524944122.
2. Chaturvedi M, Bartz A, Denkinger CM, Klett-Tammen C, Kretzschmar M, Kuhlmann A, Lange B, Marx FM, Mikolajczyk R, Monsef I, Nguyen HT, Suer J, Skoetz N, Jaeger VK, Karch A. Guidelines on reporting and assessing dynamic mathematical models of infectious diseases: a scoping review. BMC Infect Dis. 2025 Dec 31;26(1):182. doi: 10.1186/s12879-025-12211-8.
3. Böff L, Bartz A, Harries M; MuSPAD Consortium Group; COVIMOD Consortium Group; RESPINOW Consortium Group; Karch A, Aigner A, Jaeger VK, Lange B. Dynamics of contact behaviour by self-reported COVID-19 vaccination and infection status during the COVID-19 pandemic in Germany: an analysis of two large population-based studies. BMC Med. 2025 Jul 7;23(1):406. doi: 10.1186/s12916-025-04211-x.
4. Eggeling R, König F, Koeppel L, Böhler LI, Böhm M, Schmeißer N, Pfeifer N, Kaiser R; Clinical Virology Network. Long-term impact of the SARS-CoV-2 pandemic on respiratory viruses in Germany. BMC Public Health. 2025 Aug 5;25(1):2654. doi: 10.1186/s12889-025-23983-8.
5. Morales I, Nguyen VK, Abd El Aziz M, Sultanli A, Bärnighausen T, Becher H, Ciesek S, Kampmann B, Lange B, Rupp J, Scheithauer S, Ward H, Karch A, Denkinger CM. Responsive population-based cohorts as platforms for characterising pathogen- and population-level infection dynamics for epidemic prevention, preparedness and response. Euro Surveill. 2025 Jun;30(25):2400255. doi: 10.2807/1560-7917.ES.2025.30.25.2400255. Erratum in: Euro Surveill. 2025 Jul;30(28). doi: 10.2807/1560-7917.ES.2025.30.28.250717c.
6. Fome AD, Rodiah I, Bock W, Lange B, Klar A. The interplay of influenza and COVID-19 in Germany, January 2020 – December 2022: a study of competitive disease dynamics with quarantine measures and partial cross-immunity. BMC Public Health. 2025 Sep 9;25(1):3044. doi: 10.1186/s12889-025-24362-z.
7. Amaral AVR, Wolffram D, Moraga P, Bracher J. Post-processing and weighted combination of infectious disease nowcasts. PLoS Comput Biol. 2025 Mar 3;21(3):e1012836. doi: 10.1371/journal.pcbi.1012836.
8. Wagner, J., Bauer, S., Contreras, S., Fleddermann, L., Parlitz, U., & Priesemann, V. (2023). Societal feedback induces complex and chaotic dynamics in endemic infectious diseases. Phys. Rev. Research 7, Vol. 7, Iss. 1, 013308. Published 24 March, 2025. https://doi.org/10.1103/PhysRevResearch.7.013308
9. H. Zunker, P. Dönges, P. Lenz, S. Contreras, M. J. Kühn Risk-mediated dynamic regulation of effective contacts de-synchronizes outbreaks in metapopulation epidemic models. Chaos, Solitons & Fractals 199(2), 116782 (2025). doi: 10.1016/j.chaos.2025.116782
10. Kettlitz R, Harries M, Contreras S, Reinecke J, Wieder MS, von Lengerke T, Castell S, Lange B, Klett-Tammen CJ; PCR-4-ALL study group; MuSPAD study group. Self-reported poliomyelitis vaccination and documentation in adults indicates high uptake: a digital German epidemic panel, December 2024. BMC Public Health. 2025 Oct 16;25(1):3514. doi: 10.1186/s12889-025-24865-9.
11. Lange B, Jaeger VK, Harries M, Rücker V, Streeck H, Blaschke S, Petersmann A, Toepfner N, Nauck M, Hassenstein MJ, Dreier M, von Holt I, Budde A, Bartz A, Ortmann J, Kurosinski MA, Berner R, Borsche M, Brandhorst G, Brinkmann M, Budde K, Deckena M, Engels G, Fenzlaff M, Härtel C, Hovardovska O, Katalinic A, Kehl K, Kohls M, Krüger S, Lieb W, Meyer-Schlinkmann KM, Pischon T, Rosenkranz D, Rübsamen N, Rupp J, Schäfer C, Schattschneider M, Schlegtendal A, Schlinkert S, Schmidbauer L, Schulze-Wundling K, Störk S, Tiemann C, Völzke H, Winter T, Klein C, Liese J, Brinkmann F, Ottensmeyer PF, Reese JP, Heuschmann P, Karch A. Estimates of protection levels against SARS-CoV-2 infection and severe COVID-19 in Germany before the 2022/2023 winter season: the IMMUNEBRIDGE project. Infection. 2024 Feb;52(1):139-153. doi: 10.1007/s15010-023-02071-2.
12. Chaturvedi M, Rodiah I, Kretzschmar M, Scholz S, Lange B, Karch A, Jaeger VK. Estimating the relative importance of epidemiological and behavioural parameters for epidemic mpox transmission: a modelling study. BMC Med. 2024 Jul 18;22(1):297. doi: 10.1186/s12916-024-03515-8.
13. Oróstica KY, Mohr SB, Dehning J, Bauer S, Medina-Ortiz D, Iftekhar EN, Mujica K, Covarrubias PC, Ulloa S, Castillo AE, Daza-Sánchez A, Verdugo RA, Fernández J, Olivera-Nappa Á, Priesemann V, Contreras S. Early mutational signatures and transmissibility of SARS-CoV-2 Gamma and Lambda variants in Chile. Sci Rep. 2024 Jul 11;14(1):16000. doi: 10.1038/s41598-024-66885-2.
14. Marsall P, Fandrich M, Griesbaum J, Harries M, Lange B; RESPINOW Study Consortium; Ascough S, Dayananda P, Chiu C, Remppis J, Ganzenmueller T, Renk H, Strengert M, Schneiderhan-Marra N, Dulovic A. Development and validation of a respiratory syncytial virus multiplex immunoassay. Infection. 2024 Apr;52(2):597-609. doi: 10.1007/s15010-024-02180-6.
15. Harries M, Jaeger VK, Rodiah I, Hassenstein MJ, Ortmann J, Dreier M, von Holt I, Brinkmann M, Dulovic A, Gornyk D, Hovardovska O, Kuczewski C, Kurosinski MA, Schlotz M, Schneiderhan-Marra N, Strengert M, Krause G, Sester M, Klein F, Petersmann A, Karch A, Lange B. Bridging the gap – estimation of 2022/2023 SARS-CoV-2 healthcare burden in Germany based on multidimensional data from a rapid epidemic panel. Int J Infect Dis. 2024 Feb;139:50-58. doi: 10.1016/j.ijid.2023.11.014.
16. Engels G, Oechsle AL, Schlegtendal A, Maier C, Holzwarth S, Streng A, Lange B, Karch A, Petersmann A, Streeck H, Blaschke-Steinbrecher S, Härtel C, Schroten H, von Kries R, Berner R, Liese J, Brinkmann F, Toepfner N; IMMUNEBRIDGE KIDS study group. SARS-CoV-2 sero-immunity and quality of life in children and adolescents in relation to infections and vaccinations: the IMMUNEBRIDGE KIDS cross-sectional study, 2022. Infection. 2023 Oct;51(5):1531-1539. doi: 10.1007/s15010-023-02052-5.
17. Zierenberg, J., Paul Spitzner, F., Dehning, J., Priesemann, V., Weigel, M., & Wilczek, M. (2023). How contact patterns destabilize and modulate epidemic outbreaks. New Journal of Physics, 25(5), 053033. DOI 10.1088/1367-2630/acd1a7 
18. Contreras S, Iftekhar EN, Priesemann V. From emergency response to long-term management: the many faces of the endemic state of COVID-19. Lancet Reg Health Eur. 2023 May 26;30:100664. doi: 10.1016/j.lanepe.2023.100664.
19. Kekić A, Dehning J, Gresele L, von Kügelgen J, Priesemann V, Schölkopf B. Evaluating vaccine allocation strategies using simulation-assisted causal modeling. Patterns (N Y). 2023 Jun 9;4(6):100739. doi: 10.1016/j.patter.2023.100739.
20. Wolffram D, Abbott S, An der Heiden M, Funk S, Günther F, Hailer D, Heyder S, Hotz T, van de Kassteele J, Küchenhoff H, Müller-Hansen S, Syliqi D, Ullrich A, Weigert M, Schienle M, Bracher J. Collaborative nowcasting of COVID-19 hospitalization incidences in Germany. PLoS Comput Biol. 2023 Aug 11;19(8):e1011394. doi: 10.1371/journal.pcbi.1011394.
21. Schulze-Wundling K, Ottensmeyer PF, Meyer-Schlinkmann KM, Deckena M, Krüger S, Schlinkert S, Budde A, Münstermann D, Töpfner N, Petersmann A, Nauck M, Karch A, Lange B, Blaschke S, Tiemann C, Streeck H. Immunity Against SARS-CoV-2 in the German Population. Dtsch Arztebl Int. 2023 May 12;120(19):337-344. doi: 10.3238/arztebl.m2023.0072.
22. Dehning J, Mohr SB, Contreras S, Dönges P, Iftekhar EN, Schulz O, Bechtle P, Priesemann V. Impact of the Euro 2020 championship on the spread of COVID-19. Nat Commun. 2023 Jan 18;14(1):122. doi: 10.1038/s41467-022-35512-x.
23. Contreras, S., Oróstica, K.Y., Daza-Sanches, A., Wagner J., Dönges, P., Medina-Ortiz, D., Jara, M., Verdugo, R., Conca, C., Priesemann, V., Olivera-Nappa, A. Model-based assessment of sampling protocols for infectious disease genomic surveillance. Chaos, Solitons & Fractals, Volume 167, 2023, 113093. https://doi.org/10.1016/j.chaos.2022.113093.
24. Dan S, Chen Y, Chen Y, Monod M, Jaeger VK, Bhatt S, Karch A, Ratmann O; Machine Learning & Global Health network. Estimating fine age structure and time trends in human contact patterns from coarse contact data: The Bayesian rate consistency model. PLoS Comput Biol. 2023 Jun 5;19(6):e1011191. doi: 10.1371/journal.pcbi.1011191.
25. Bracher J, Wolffram D, Deuschel J, Görgen K, Ketterer JL, Ullrich A, Abbott S, Barbarossa MV, Bertsimas D, Bhatia S, Bodych M, Bosse NI, Burgard JP, Castro L, Fairchild G, Fiedler J, Fuhrmann J, Funk S, Gambin A, Gogolewski K, Heyder S, Hotz T, Kheifetz Y, Kirsten H, Krueger T, Krymova E, Leithäuser N, Li ML, Meinke JH, Miasojedow B, Michaud IJ, Mohring J, Nouvellet P, Nowosielski JM, Ozanski T, Radwan M, Rakowski F, Scholz M, Soni S, Srivastava A, Gneiting T, Schienle M. National and subnational short-term forecasting of COVID-19 in Germany and Poland during early 2021. Commun Med (Lond). 2022 Oct 31;2(1):136. doi: 10.1038/s43856-022-00191-8.

1. Müller L, Mallick P, Marín-Carballo AB, Dönges P, Kettlitz RJN, Klett-Tammen CJ, Kretzschmar M, Priesemann V, Contreras S. Testing paradox may explain increased observed prevalence of bacterial STIs among MSM on HIV PrEP: A modeling study. Proc Natl Acad Sci U S A. 2025 Nov 4;122(44):e2524944122. doi: 10.1073/pnas.2524944122.
2. Brunekreef J, Teslya A, Buskens V, Nunner H, Kretzschmar M. Impact of adherence and stringency on the effectiveness of lockdown measures: A modelling study. PLoS One. 2025 Dec 19;20(12):e0338818. doi: 10.1371/journal.pone.0338818.
3. H. Zunker, P. Dönges, P. Lenz, S. Contreras, M. J. Kühn Risk-mediated dynamic regulation of effective contacts de-synchronizes outbreaks in metapopulation epidemic models. Chaos, Solitons & Fractals 199(2), 116782 (2025). doi: 10.1016/j.chaos.2025.116782
4. Oróstica KY, Mohr SB, Dehning J, Bauer S, Medina-Ortiz D, Iftekhar EN, Mujica K, Covarrubias PC, Ulloa S, Castillo AE, Daza-Sánchez A, Verdugo RA, Fernández J, Olivera-Nappa Á, Priesemann V, Contreras S. Early mutational signatures and transmissibility of SARS-CoV-2 Gamma and Lambda variants in Chile. Sci Rep. 2024 Jul 11;14(1):16000. doi: 10.1038/s41598-024-66885-2.
5. Dehning J, Mohr SB, Contreras S, Dönges P, Iftekhar EN, Schulz O, Bechtle P, Priesemann V. Impact of the Euro 2020 championship on the spread of COVID-19. Nat Commun. 2023 Jan 18;14(1):122. doi: 10.1038/s41467-022-35512-x. 
6. Wagner, J., Bauer, S., Contreras, S., Fleddermann, L., Parlitz, U., & Priesemann, V. (2023). Societal feedback induces complex and chaotic dynamics in endemic infectious diseases. Phys. Rev. Research 7, Vol. 7, Iss. 1, 013308. Published 24 March, 2025. https://doi.org/10.1103/PhysRevResearch.7.013308.
7. Kekić A, Dehning J, Gresele L, von Kügelgen J, Priesemann V, Schölkopf B. Evaluating vaccine allocation strategies using simulation-assisted causal modeling. Patterns (N Y). 2023 Jun 9;4(6):100739. doi: 10.1016/j.patter.2023.100739.
8. Contreras S, Iftekhar EN, Priesemann V. From emergency response to long-term management: the many faces of the endemic state of COVID-19. Lancet Reg Health Eur. 2023 May 26;30:100664. doi: 10.1016/j.lanepe.2023.100664.
9. Zierenberg, J., Paul Spitzner, F., Dehning, J., Priesemann, V., Weigel, M., & Wilczek, M. (2023). How contact patterns destabilize and modulate epidemic outbreaks. New Journal of Physics, 25(5), 053033. Link 

1. A. Wendler, L. Plötzke, H. Tritzschak, M. J. Kühn A nonstandard numerical scheme for a novel SECIR integro-differential equation-based model allowing nonexponentially distributed stay times. Applied Mathematics and Computation 509, 129636 (2026) https://doi.org/10.1016/j.amc.2025.129636
2. L. Plötzke, A. Wendler, R. Schmieding, M. J. Kühn Revisiting the Linear Chain Trick in epidemiological models: Implications of underlying assumptions for numerical solutions. Mathematics and Computers in Simulation 239, pp. 823-844 (2026) https://doi.org/10.1016/j.matcom.2025.07.045
3. Schmid, N., Fernandes del Pozo, D., Waegeman, W., & Hasenauer, J. (2025). Assessment of Uncertainty Quantification in Universal Differential Equations. Philosophical Transactions of the Royal Society A, 383(2293), 20240444. https://doi.org/10.1098/rsta.2024.0444
4. Philipps M, Schmid N, Hasenauer J. Current state and open problems in universal differential equations for systems biology. NPJ Syst Biol Appl. 2025 Aug 30;11(1):101. https://doi.org/10.1038/s41540-025-00550-w
5. Schmid N, Bicker J, Hofmann AF, Wallrafen-Sam K, Kerkmann D, Wieser A, Kühn MJ, Hasenauer J. Integrative modeling of the spread of serious infectious diseases and corresponding wastewater dynamics. Epidemics. 2025 Jun;51:100836. https://doi.org/10.1016/j.epidem.2025.100836 
6. Merkt, S., Fuhrmann, L., Dudkin, E., Schlitzer, A., Niethammer, B., & Hasenauer, J. (2025). A Dynamic Model for Waddington’s Landscape Accounting for Cell-to-Cell Communication. Mathematical Biosciences, 390, 109537. https://doi.org/10.1016/j.mbs.2025.109537
7. Bicker J, Schmieding R, Meyer-Hermann M, Kühn MJ. Hybrid metapopulation agent-based epidemiological models for efficient insight on the individual scale: A contribution to green computing. Infect Dis Model. 2025 Jan 10;10(2):571-590. https://arxiv.org/abs/2406.04386 
8. Merkt S, Ali S, Gudina EK, Adissu W, Gize A, Muenchhoff M, Graf A, Krebs S, Elsbernd K, Kisch R, Betizazu SS, Fantahun B, Bekele D, Rubio-Acero R, Gashaw M, Girma E, Yilma D, Zeynudin A, Paunovic I, Hoelscher M, Blum H, Hasenauer J, Kroidl A, Wieser A. Long-term monitoring of SARS-CoV-2 seroprevalence and variants in Ethiopia provides prediction for immunity and cross-immunity. Nat Commun. 2024 Apr 24;15(1):3463. https://doi.org/10.1038/s41467-024-47556-2
9. Gudina EK, Elsbernd K, Yilma D, Kisch R, Wallrafen-Sam K, Abebe G, Mekonnen Z, Berhane M, Gerbaba M, Suleman S, Mamo Y, Rubio-Acero R, Ali S, Zeynudin A, Merkt S, Hasenauer J, Chala TK, Wieser A, Kroidl A. Tailoring COVID-19 Vaccination Strategies in High-Seroprevalence Settings: Insights from Ethiopia. Vaccines (Basel). 2024 Jul 5;12(7):745.  https://doi.org/10.3390/vaccines12070745
10. Contento L, Castelletti N, Raimúndez E, Le Gleut R, Schälte Y, Stapor P, Hinske LC, Hoelscher M, Wieser A, Radon K, Fuchs C, Hasenauer J; KoCo19 study group. Integrative modelling of reported case numbers and seroprevalence reveals time-dependent test efficiency and infectious contacts. Epidemics. 2023 Jun;43:100681. https://doi.org/10.1016/j.epidem.2023.100681
11. Tacconelli E, Gorska A, Carrara E, Davis RJ, Bonten M, Friedrich AW, Glasner C, Goossens H, Hasenauer J, Abad JMH, Peñalvo JL, Sanchez-Niubo A, Sialm A, Scipione G, Soriano G, Yazdanpanah Y, Vorstenbosch E, Jaenisch T. Challenges of data sharing in European Covid-19 projects: A learning opportunity for advancing pandemic preparedness and response. Lancet Reg Health Eur. 2022 Oct;21:100467. doi: 10.1016/j.lanepe.2022.100467.

1. Kheifetz Y, Kirsten H, Schuppert A, Scholz M. Modeling the Complete Dynamics of the SARS-CoV-2 Pandemic of Germany and Its Federal States Using Multiple Levels of Data. Viruses. 2025 Jul 14;17(7):981. doi: 10.3390/v17070981.
2. Horn M, Theilacker C, Sprenger R, von Eiff C, Mahar E, Schiffner-Rohe J, Pletz MW, van der Linden M, Scholz M. Mathematical modeling of pneumococcal transmission dynamics in response to PCV13 infant vaccination in Germany predicts increasing IPD burden due to serotypes included in next-generation PCVs. PLoS One. 2023 Feb 15;18(2):e0281261. doi: 10.1371/journal.pone.0281261.
3. Regenhardt E, Kirsten H, Weiss M, Lübbert C, Stehr SN, Remane Y, Pietsch C, Hönemann M, von Braun A. SARS-CoV-2 Vaccine Breakthrough Infections of Omicron and Delta Variants in Healthcare Workers. Vaccines (Basel). 2023 May 7;11(5):958. doi: 10.3390/vaccines11050958.
4. Kheifetz Y, Kirsten H, Scholz M. On the Parametrization of Epidemiologic Models-Lessons from Modelling COVID-19 Epidemic. Viruses. 2022 Jul 2;14(7):1468. doi: 10.3390/v14071468.
5. Bracher J, Wolffram D, Deuschel J, Görgen K, Ketterer JL, Ullrich A, Abbott S, Barbarossa MV, Bertsimas D, Bhatia S, Bodych M, Bosse NI, Burgard JP, Castro L, Fairchild G, Fiedler J, Fuhrmann J, Funk S, Gambin A, Gogolewski K, Heyder S, Hotz T, Kheifetz Y, Kirsten H, Krueger T, Krymova E, Leithäuser N, Li ML, Meinke JH, Miasojedow B, Michaud IJ, Mohring J, Nouvellet P, Nowosielski JM, Ozanski T, Radwan M, Rakowski F, Scholz M, Soni S, Srivastava A, Gneiting T, Schienle M. National and subnational short-term forecasting of COVID-19 in Germany and Poland during early 2021. Commun Med (Lond). 2022 Oct 31;2(1):136. doi: 10.1038/s43856-022-00191-8. 

1. Schulte M, Leithäuser N, Mohring J. Estimating the effect of self-protection on transmission dynamics of SARS-CoV-2 in Germany in 2021: a modelling study. BMC Public Health. 2026 Apr 14;26(1):1244. doi: 10.1186/s12889-026-27264-w.
2. Schulze, K., Löffler, J.L. and Voss, M. (2025), Google Trends and Media Coverage: A Comparison During the COVID-19 Pandemic. Journal of Contingencies and Crisis Management, 33: e70045. https://doi.org/10.1111/1468-5973.70045. 
3. Mohring J, Leithäuser N, Wlazło J, Schulte M, Pilz M, Münch J, Küfer KH. Estimating the COVID-19 prevalence from wastewater. Sci Rep. 2024 Jun 22;14(1):14384. doi: 10.1038/s41598-024-64864-1.

1. Gaskin T, Conrad T, Pavliotis GA, Schütte C. Neural parameter calibration and uncertainty quantification for epidemic forecasting. PLoS One. 2024 Oct 17;19(10):e0306704. doi: 10.1371/journal.pone.0306704.
2. Alchikh M, Conrad TOF, Obermeier PE, Ma X, Schweiger B, Opota O, Rath BA. Disease Burden and Inpatient Management of Children with Acute Respiratory Viral Infections during the Pre-COVID Era in Germany: A Cost-of-Illness Study. Viruses. 2024 Mar 26;16(4):507. doi: 10.3390/v16040507.
3. Müller SA, Balmer M, Charlton W, Ewert R, Neumann A, Rakow C, Schlenther T, Nagel K. Predicting the effects of COVID-19 related interventions in urban settings by combining activity-based modelling, agent-based simulation, and mobile phone data. PLoS One. 2021 Oct 28;16(10):e0259037. doi: 10.1371/journal.pone.0259037.

1. Schmidt A, Zunker H, Heinlein A, Kühn MJ. Graph neural network surrogates to leverage mechanistic expert knowledge towards reliable and immediate pandemic response. Sci Rep. 2026 Feb 13;16(1):6361. doi: 10.1038/s41598-026-39431-5
2. A. Wendler, L. Plötzke, H. Tritzschak, M. J. Kühn A nonstandard numerical scheme for a novel SECIR integro-differential equation-based model allowing nonexponentially distributed stay times. Applied Mathematics and Computation 509, 129636 (2026). https://doi.org/10.1016/j.amc.2025.129636
3. L. Plötzke, A. Wendler, R. Schmieding, M. J. Kühn Revisiting the Linear Chain Trick in epidemiological models: Implications of underlying assumptions for numerical solutions. Mathematics and Computers in Simulation 239, pp. 823-844 (2026) doi: 10.1016/j.matcom.2025.07.045
4. S. Korf, S. J. Wagner, G. Köster, M. J. Kühn On the Effect of Missing Transmission Chain Information in Agent-Based Models: Outcomes of Superspreading Events and Workplace Transmission (2025). doi: 10.1016/j.chaos.2026.118179
5. H. Zunker, P. Dönges, P. Lenz, S. Contreras, M. J. Kühn Risk-mediated dynamic regulation of effective contacts de-synchronizes outbreaks in metapopulation epidemic models. Chaos, Solitons & Fractals 199(2), 116782 (2025).doi: 10.1016/j.chaos.2025.116782
6. Schmid N, Bicker J, Hofmann AF, Wallrafen-Sam K, Kerkmann D, Wieser A, Kühn MJ, Hasenauer J. Integrative modeling of the spread of serious infectious diseases and corresponding wastewater dynamics. Epidemics. 2025 Jun;51:100836. doi: 10.1016/j.epidem.2025.100836
7. D. Kerkmann, S. Korf, K. Nguyen, D. Abele, A. Schengen, C. Gerstein, J. H. Göbbert, A. Basermann, M. J. Kühn, M. Meyer-Hermann Agent-based modeling for realistic reproduction of human mobility and contact behavior to evaluate test and isolation strategies in epidemic infectious disease spread. Computers in Biology and Medicine 193, 110269 (2025). doi: 10.1016/j.compbiomed.2025.110269 
8. JBicker J, Schmieding R, Meyer-Hermann M, Kühn MJ. Hybrid metapopulation agent-based epidemiological models for efficient insight on the individual scale: A contribution to green computing. Infect Dis Model. 2025 Jan 10;10(2):571-590. doi: 10.1016/j.idm.2024.12.015 
9. J. L. Malkus, M. L. Díaz, A. Schengen, T. Mocanu, M. J. Kühn An OpenStreetMap-based approach for generating capacity-restricted POIs for activity-based travel demand modeling. Procedia Computer Science, 238:420-427 (2024). doi: 10.1016/j.procs.2024.06.043 
10. Henrik Zunker, René Schmieding, David Kerkmann, Alain Schengen, Sophie Diexer, Rafael Mikolajczyk, Michael Meyer-Hermann, Martin J. Kühn. Novel travel time aware metapopulation models: A combination with multi-layer waning immunity to assess late-phase epidemic and endemic scenarios. (2024). doi: 10.1371/journal.pcbi.1012630
11. Lange B, Jaeger VK, Harries M, Rücker V, Streeck H, Blaschke S, Petersmann A, Toepfner N, Nauck M, Hassenstein MJ, Dreier M, von Holt I, Budde A, Bartz A, Ortmann J, Kurosinski MA, Berner R, Borsche M, Brandhorst G, Brinkmann M, Budde K, Deckena M, Engels G, Fenzlaff M, Härtel C, Hovardovska O, Katalinic A, Kehl K, Kohls M, Krüger S, Lieb W, Meyer-Schlinkmann KM, Pischon T, Rosenkranz D, Rübsamen N, Rupp J, Schäfer C, Schattschneider M, Schlegtendal A, Schlinkert S, Schmidbauer L, Schulze-Wundling K, Störk S, Tiemann C, Völzke H, Winter T, Klein C, Liese J, Brinkmann F, Ottensmeyer PF, Reese JP, Heuschmann P, Karch A. Estimates of protection levels against SARS-CoV-2 infection and severe COVID-19 in Germany before the 2022/2023 winter season: the IMMUNEBRIDGE project. Infection. 2024 Feb;52(1):139-153. doi: 10.1007/s15010-023-02071-2.
    1.  

1. Glock M, Erdekian A, Rueb M, Uhl F, Husemann R, Stoffers-Winterling J, Lindner S, Tüscher O, Hölzel LP, Lieb K, Adorjan K, Wiegand HF. Utilization of mental health services during the first year of the COVID-19 pandemic – a systematic review and meta-analysis. Eur Psychiatry. 2026 Jan 13;69(1):e10. doi: 10.1192/j.eurpsy.2025.10119.
2. Ziegler A, Kunzler AM, Voigt-Radloff S, Schmitt J, Moerer O, Scheithauer S, Heytens H, Apfelbacher C, Meerpohl JJ. Priorisierung von Forschungsfragen in Gesundheitskrisen – Vorstellung eines Konzeptes, entwickelt in der COVID-19 Pandemie [Prioritization of research questions in health crises-presentation of a concept developed during the COVID-19 pandemic]. Bundesgesundheitsblatt Gesundheitsforschung Gesundheitsschutz. 2025 Jan;68(1):97-104. German. doi: 10.1007/s00103-024-03985-4.
3. Scheithauer S, Hoffmann J, Lang C, Fenz D, Berens MM, Köster AM, Panchyrz I, Harst L, Adorjan K, Apfelbacher C, Ciesek S, Denkinger CM, Drosten C, Geraedts M, Hecker R, Hoffmann W, Karch A, Koch T, Krefting D, Lieb K, Meerpohl JJ, Rehfuess EA, Skoetz N, Sopka S, von Lengerke T, Wiegand H, Schmitt J. Pandemic Preparedness – A Proposal for a Research Infrastructure and its Functionalities for a Resilient Health Research System. Gesundheitswesen. 2025 Dec;87(S 03):S334-S343. English, German. doi: 10.1055/a-2365-9179.
4. Chaturvedi M, Bartz A, Denkinger CM, Klett-Tammen C, Kretzschmar M, Kuhlmann A, Lange B, Marx FM, Mikolajczyk R, Monsef I, Nguyen HT, Suer J, Skoetz N, Jaeger VK, Karch A. Guidelines on reporting and assessing dynamic mathematical models of infectious diseases: a scoping review. BMC Infect Dis. 2025 Dec 31;26(1):182. doi: 10.1186/s12879-025-12211-8.
5. Erdekian A, Glock M, Huetter S, Rueb M, Riedinger D, Stoffers-Winterling J, Lindner S, Baum F, Hölzel LP, Tüscher O, Lieb K, Adorjan K, Wiegand HF. Inanspruchnahme psychiatrisch-psychotherapeutischer Versorgung in Deutschland während des ersten Jahres der COVID-19-Pandemie – systematischer Review und Metaanalyse [Utilization of mental health services in Germany during the first year of the COVID-19 pandemic-Systematic review and meta-analysis]. Nervenarzt. 2025 May;96(3):257-265. German. doi: 10.1007/s00115-025-01812-y.
6. Wiegand HF, Adorjan K, Stoffers-Winterling J, Scheithauer S, Schmitt J, Tüscher O, Falkai P, Lieb K. Psychische Gesundheit und psychiatrisch-psychotherapeutische Versorgung als Elemente von „pandemic and crisis preparedness“ [Mental health and mental healthcare as elements of pandemic and crisis preparedness]. Nervenarzt. 2025 May;96(3):272-277. German. doi: 10.1007/s00115-025-01822-w.
7. Morales I, Nguyen VK, Abd El Aziz M, Sultanli A, Bärnighausen T, Becher H, Ciesek S, Kampmann B, Lange B, Rupp J, Scheithauer S, Ward H, Karch A, Denkinger CM. Responsive population-based cohorts as platforms for characterising pathogen- and population-level infection dynamics for epidemic prevention, preparedness and response. Euro Surveill. 2025 Jun;30(25):2400255. doi: 10.2807/1560-7917.ES.2025.30.25.2400255. Erratum in: Euro Surveill. 2025 Jul;30(28). doi: 10.2807/1560-7917.ES.2025.30.28.250717c.
8. Böff L, Bartz A, Harries M; MuSPAD Consortium Group; COVIMOD Consortium Group; RESPINOW Consortium Group; Karch A, Aigner A, Jaeger VK, Lange B. Dynamics of contact behaviour by self-reported COVID-19 vaccination and infection status during the COVID-19 pandemic in Germany: an analysis of two large population-based studies. BMC Med. 2025 Jul 7;23(1):406. doi: 10.1186/s12916-025-04211-x.
9. Evers J, Altschuck N, Mehl C, Rüthrich L, Harst L, Walther F, Steidle O, Suckow A, Hecker R, Schmitt J, Geraedts M. Development of a pandemic-related core set of quality indicators for quality and patient safety in University Hospitals in Germany. BMC Health Serv Res. 2025 Jan 8;25(1):43. doi: 10.1186/s12913-024-12194-3.
10. Baum F, Schmitt J, Nagel O, Jacob J, Seifert M, Adorjan K, Tüscher O, Lieb K, Hölzel LP, Wiegand HF. Reductions in inpatient and outpatient mental health care in germany during the first year of the COVID-19 pandemic – What can we learn for a better crisis preparedness? Eur Arch Psychiatry Clin Neurosci. 2024 Dec;274(8):2037-2046. doi: 10.1007/s00406-024-01909-6. 
11. Littlecott H, Krishnaratne S, Burns J, Rehfuess E, Sell K, Klinger C, Strahwald B, Movsisyan A, Metzendorf MI, Schoenweger P, Voss S, Coenen M, Müller-Eberstein R, Pfadenhauer LM. Measures implemented in the school setting to contain the COVID-19 pandemic. Cochrane Database Syst Rev. 2024 May 2;5(5):CD015029. doi: 10.1002/14651858.CD015029.pub2.
12. Fehr M, Köhler S, Roth-Sackenheim C, Geschke K, Tüscher O, Adorjan K, Lieb K, Hölzel LP, Wiegand HF. Outpatient mental health care during high incidence phases of the COVID-19 pandemic in Germany – changes in utilization, challenges and post-COVID care. Eur Arch Psychiatry Clin Neurosci. 2024 Dec;274(8):2025-2035. doi: 10.1007/s00406-024-01886-w.
13. Reinoso Schiller N, Baier C, Dresselhaus I, Loderstädt U, Schlüter D, Eckmanns T, Scheithauer S. Proposed new definition for hospital-acquired SARS-CoV-2 infections: results of a confirmatory factor analysis. Antimicrob Steward Healthc Epidemiol. 2024 Sep 9;4(1):e125. doi: 10.1017/ash.2024.371.
14. Harries M, Jaeger VK, Rodiah I, Hassenstein MJ, Ortmann J, Dreier M, von Holt I, Brinkmann M, Dulovic A, Gornyk D, Hovardovska O, Kuczewski C, Kurosinski MA, Schlotz M, Schneiderhan-Marra N, Strengert M, Krause G, Sester M, Klein F, Petersmann A, Karch A, Lange B. Bridging the gap – estimation of 2022/2023 SARS-CoV-2 healthcare burden in Germany based on multidimensional data from a rapid epidemic panel. Int J Infect Dis. 2024 Feb;139:50-58. doi: 10.1016/j.ijid.2023.11.014.
15. Marsall P, Fandrich M, Griesbaum J, Harries M, Lange B; RESPINOW Study Consortium; Ascough S, Dayananda P, Chiu C, Remppis J, Ganzenmueller T, Renk H, Strengert M, Schneiderhan-Marra N, Dulovic A. Development and validation of a respiratory syncytial virus multiplex immunoassay. Infection. 2024 Apr;52(2):597-609. doi: 10.1007/s15010-024-02180-6.
16. Chaturvedi M, Rodiah I, Kretzschmar M, Scholz S, Lange B, Karch A, Jaeger VK. Estimating the relative importance of epidemiological and behavioural parameters for epidemic mpox transmission: a modelling study. BMC Med. 2024 Jul 18;22(1):297. doi: 10.1186/s12916-024-03515-8.
17. Reinoso Schiller N, Usipbekova K, Hille K, Dreesman J, Schwarz K, Reimers K, Feil F, Scheithauer S. Pandemic management: Analysis of availability and relevance of surveillance indicators by COVID-Task-Forces in the German federal state of Lower Saxony. Infect Prev Pract. 2023 Jun 15;5(3):100294. doi: 10.1016/j.infpip.2023.100294.
18. Engels G, Oechsle AL, Schlegtendal A, Maier C, Holzwarth S, Streng A, Lange B, Karch A, Petersmann A, Streeck H, Blaschke-Steinbrecher S, Härtel C, Schroten H, von Kries R, Berner R, Liese J, Brinkmann F, Toepfner N; IMMUNEBRIDGE KIDS study group. SARS-CoV-2 sero-immunity and quality of life in children and adolescents in relation to infections and vaccinations: the IMMUNEBRIDGE KIDS cross-sectional study, 2022. Infection. 2023 Oct;51(5):1531-1539. doi: 10.1007/s15010-023-02052-5.

1. Schmidt A, Zunker H, Heinlein A, Kühn MJ. Graph neural network surrogates to leverage mechanistic expert knowledge towards reliable and immediate pandemic response. Sci Rep. 2026 Feb 13;16(1):6361. doi: 10.1038/s41598-026-39431-5.
2. L. Plötzke, A. Wendler, R. Schmieding, M. J. Kühn Revisiting the Linear Chain Trick in epidemiological models: Implications of underlying assumptions for numerical solutions. Mathematics and Computers in Simulation 239, pp. 823-844 (2026) doi: 10.1016/j.matcom.2025.07.045
3. A. Wendler, L. Plötzke, H. Tritzschak, M. J. Kühn A nonstandard numerical scheme for a novel SECIR integro-differential equation-based model allowing nonexponentially distributed stay times. Applied Mathematics and Computation 509, 129636 (2026) doi: 10.1016/j.amc.2025.129636
4. H. Zunker, P. Dönges, P. Lenz, S. Contreras, M. J. Kühn Risk-mediated dynamic regulation of effective contacts de-synchronizes outbreaks in metapopulation epidemic models (2025). doi: 10.1016/j.chaos.2025.116782
5. D. Kerkmann, S. Korf, K. Nguyen, D. Abele, A. Schengen, C. Gerstein, J. H. Göbbert, A. Basermann, M. J. Kühn, M. Meyer-Hermann Agent-based modeling for realistic reproduction of human mobility and contact behavior to evaluate test and isolation strategies in epidemic infectious disease spread. Computers in Biology and Medicine 193, 110269 (2025). doi: 10.1016/j.compbiomed.2025.110269
6. Diallo D, Schoenfeld J, Schmieding R, Korf S, Kühn MJ, Hecking T. Integrating Human Mobility Models with Epidemic Modeling: A Framework for Generating Synthetic Temporal Contact Networks. Entropy (Basel). 2025 May 8;27(5):507. doi: 10.3390/e27050507 
7. Bicker J, Schmieding R, Meyer-Hermann M, Kühn MJ. Hybrid metapopulation agent-based epidemiological models for efficient insight on the individual scale: A contribution to green computing. Infect Dis Model. 2025 Jan 10;10(2):571-590. doi: 10.1016/j.idm.2024.12.015