Publications

Accepted

• Hanke, N., Liu, Z. & Stursberg, O. (2025): Approximation of planar periodic behavior from data with stability guarantees using switching affine systems. 2025 European Control Conference (ECC). IEEE, Denver, CO, USA, (accepted).
• Kräling, L., Liu, Z. & Stursberg, O. (2025): Nonlinear dynamics using leader-follower topologies with optimized diffusive coupling. 2025 European Control Conference (ECC). IEEE, Denver, CO, USA, (accepted).
• Lancmanová, A., Drobny, A., Friedmann, E. & Bodnár, T. (2025): Comparative study of 2D–2D FEM-FSI and 2D–1D reduced FD models for respiratory flow simulation. In: Bodnár T., Galdi G.P. & Nečasová Š. (Eds) Stochastics in Fluids. Birkhäuser Cham, (accepted).
• Miljkovic, A., Hanke, N., Liu, Z. & Stursberg, O. (2025): Reference tracking and state observation for switching affine systems using piecewise quadratic Lyapunov functions. 13th IFAC Symposium on Nonlinear Control Systems (NOLCOS 2025). IFAC, Reykjavík, Iceland, (accepted).
• Neupert, S., Shoaib, S.H., Schendzielorz, J., Zolmon, H., Hering, L. & Stengl, M. (2025): Transcriptomics and neuropeptidomics of the cockroach Rhyparobia maderae to characterize the neuropeptide landscape of the cockroach's circadian clock. Journal of Proteome Research (accepted).
• Trummel, T., Liu, Z. & Stursberg, O. (2025): Analysis of synchronization errors for differently parametrized limit cycle oscillators subject to bounded disturbances. SN Computer Science (accepted).

Preprints

• Barreiro, X.R., Baberuxki, N., Mebratie, M.A., Villaverde, A.F. & Seiler, W.M. (2025): Structural identifiability and discrete symmetries. arXiv (preprint).
• Rojas, P., Kempkes, M., Arbeitman, C., Piro, O. & Garcia, M.E. (2025): Model-free data-efficient inference of network connectivity from time series with sub-reservoir computing. Zenodo (preprint).
• Steiner, W.P., Iverson, N., Liu, G., Venkatakrishnan, V., Wu, J., Stepniewski, T.M., Michaelson, Z., Bröckel, J.W., Zhu, J.F., Bruystens, J., Lee, A., Nelson, I., Bertinetti, D., Arveseth, C.D., Tan, G., Spaltenstein, P., Xu, J., Hüttenhain, R., Kay, M., Herberg, F.W., Cao, E., Selent, J., Anand, G.S., Dunbrack, R.L., Jr., Taylor, S.S. & Myers, B.R. (2025): A structural mechanism for noncanonical GPCR signal transduction in the Hedgehog pathway. bioRxiv (preprint).
• Vijayan, A., Forlino, M., Chang, Y., Rojas, P., Schröder, K., Schneider, A.C., Garcia, M.E. & Stengl, M. (2025): Orco regulates the circadian activity of pheromone-sensitive olfactory receptor neurons in hawkmoths. bioRxiv (preprint).
• Wieners, L. & Garcia, M.E. (2025): Bridging quantum mechanics and biology at the million-atom scale. Research Square (preprint).

2025

• Benjamin-Zukerman, T., Pane, V., Safadi-Safa, R., Solomon, M., Lev-Ram, V., Aboraya, M., Dakwar, A., Bertinetti, D., Hoy, A., Mol, M.O., van Swieten, J., Maillard, R., Herberg, F.W. & Ilouz, R. (2025): Allosteric modulation of protein kinase A in individuals affected by NLPD-PKA, a neurodegenerative disease in which the PRKAR1B L50R variant is expressed. FEBS Journal 292:4808–4832.
• Landrock, M.F., Krutyholowa, R., Böhnert, P., Mazur, J., Honc, M., Hammermeister, A., Bessler, L., Scherf, D., Elms, A., Radczuk, N., Skupien-Rabian, B., Jankowska, U., Herberg, F.W., Helm, M., Klassen, R., Glatt, S. & Schaffrath, R. (2025): Autophosphorylation of conserved yeast and human casein kinase 1 isozymes regulates Elongator-dependent tRNA modifications. Nucleic Acids Research 53:gkaf881.
• Liu, Z., Qin, Y., van Gerven, M. & Stursberg, O. (2025): Synchronization and control in bistable oscillator networks: towards epilepsy regulation. IEEE Control Systems Letters 9:1514–1519.
• Ghasemitabesh, R., Merker, D., Bröckel, J., Bertinetti, D., Herberg, F.W. & Popov, C. (2025): Immobilization of proteins on ultrananocrystalline diamond surfaces as first step for realization of biosensors. In: P. Petkov, M.E. Achour & C. Popov (eds) Nanotechnological Advances in Environmental, Cyber and CBRN Security. ISCME 2024. NATO Science for Peace and Security Series B: Physics and Biophysics. Springer, Dordrecht.
• Mebratie, M.A., Nather, R., von Rudorff, G.F. & Seiler, W.M. (2025): Machine learning conservation laws of dynamical systems. Physical Review E 111:025305.
• Ghasemitabesh, R., Merker, D., Bröckel, J., Bertinetti, D., Zakaria, Y., Welle, A., Herberg, F.W. & Popov, C. (2025): Non-covalent and covalent binding of proteins on ultrananocrystalline diamond films with different surface terminations. Diamond & Related Materials 15:112432.
• Scherf, D., Hammermeister, A., Böhnert, P., Burkhard, A., Helm, M., Glatt, S. & Schaffrath, R. (2025): tRNA binding to Kti12 is crucial for wobble uridine modification by Elongator. Nucleic Acids Research 53:gkaf296.
• Schneider, A.C.*, Schröder, K.*, Chang, Y., Nolte, A., Gawalek, P. & Stengl, M. (2025): Hawkmoth pheromone transduction involves G protein-dependent phospholipase Cβ signaling. eNeuro 12:1–16. * Equal contribution.
• Dutta, S., Hering, L., Grollmann, M.M., Metzendorf, N., Gross, V., Arakawa, K., Neupert, S., Stengl, M., Herberg, F.W. & Mayer, G. (2025): Pigment-dispersing factor neuropeptides act as multifunctional hormones and modulators in tardigrades. Open Biology 15:240242.
• Filimonova, N., Specovius-Neugebauer, M. & Friedmann, E. (2025): Determination of the time-frequency features for impulse components in EEG signals. Neuroinformatics 23:17.

2024

• Oz, S., Keren-Raifman, T., Sharon, T., Subramaniam, S., Pallien, T., Katz, M., Tsemakhovich, V., Sholokh, A., Watad, B., Tripathy, D.R., Sasson, G., Chomsky-Hecht, O., Vysochek, L., Schulz-Christian, M., Fecher-Trost, C., Zühlke, K., Bertinetti, D., Herberg, F.W., Flockerzi, V., Hirsch, J.A., Klussmann, E., Weiss, S. & Dascal, N. (2024): Tripartite interactions of PKA catalytic subunit and C-terminal domains of cardiac Ca²⁺ channel may modulate its β-adrenergic regulation. BMC Biology 22:276.
• Cronin, E.M., Schneider, A.C., Nadim, F. & Bucher, D. (2024): Modulation by neuropeptides with overlapping targets results in functional overlap in oscillatory circuit activation. Journal of Neuroscience 44:e1201232023.
• Schneider, A.C., Cronin, E., Daur, N., Bucher, D. & Nadim, F. (2024): Convergent comodulation reduces interindividual variability of circuit output. eNeuro 11:ENEURO.0167-0124.2024.
• Radulescu, O., Grigoriev, D., Seiß, M., Douaihy, M., Lagha, M. & Bertrand, E. (2024): Identifying Markov chain models from time-to-event data: an algebraic approach. Bulletin of Mathematical Biology 87:11.
• Desoeuvres, A., Iosif, A., Lüders, C., Radulescu, O., Rahkooy, H., Seiß, M. & Sturm, T. (2024): A computational approach to polynomial conservation laws. SIAM Journal on Applied Dynamical Systems 23:813–854.
• Seiler, W.M. & Seiß, M. (2024): On the numerical integration of singular initial and boundary value problems for generalised Lane–Emden and Thomas–Fermi equations. Applied Mathematics and Computation 466:128446.
• Seiler, W.M. & Seiß, M. (2024): Singular initial value problems for some quasi-linear second-order ordinary differential equations. Journal of Dynamics and Differential Equations.
• Desoeuvres, A., Iosif, A., Lüders, C., Radulescu, O., Rahkooy, H., Seiß, M. & Sturm, T. (2024): Reduction of chemical reaction networks with approximate conservation laws. SIAM Journal on Applied Dynamical Systems 23:256–296.
• Stengl, M. & Schneider, A.C. (2024): Contribution of membrane-associated oscillators to biological timing at different timescales. Frontiers in Physiology 14:1243455.
• Rojas, P., Piro, O. & Garcia, M.E.(2024): Biological rhythms generated by a single activator-repressor loop with inhomogeneity and diffusion. Physical Review Letters 132:268401.
• Hanke, N., Liu, Z. & Stursberg, O. (2024): Approximation of limit cycles by using planar switching affine systems with guarantees for uniqueness and stability. 2024 European Control Conference (ECC), Stockholm, Sweden, pp. 1467–1472.
• Abbassi, N., Jaciuk, M., Scherf, D., Böhnert, P., Rau, A., Hammermeister, A., Rawski, M., Indyka, P., Wazny, G., Chramiec-Głąbik, A., Dobosz, D., Skupien-Rabian, B., Jankowska, U., Rappsilber, J., Schaffrath, R., Lin, T. & Glatt, S.(2024): Cryo-EM structures of the human elongator complex at work. Nature Communications 15:4094.
• Görlitz, K., Bessler, L., Helm, M., Schaffrath, R. & Klassen, R. (2024): Fluoropyrimidines trigger decay of hypomodified tRNA in yeast. Nucleic Acids Research 52:5841–5851.
• Trummel, T., Liu, Z. & Stursberg, O. (2024): Computing bounds for the synchronization errors of nonidentical nonlinear oscillators with time-varying diffusive coupling. Proceedings of the 21st International Conference on Informatics in Control, Automation and Robotics 1:612–622.
• Li, L., Zang, N., Beati, H., De las Heras, J., di Pietro. F., Bellaiche, Y., Müller, H.-A. and Großhans, J. (2024): Kinesin-1 patterns Par-1 and Rho signaling at the cortex of syncytial embryos of Drosophila. Journal of Cell Biology 223:e202206013.

2023

• Rojas, P. (2023): Multiscale theories and methods for describing biological clocks and nonequilibrium protein dynamics. PhD Thesis, Kassel, Germany: Universität Kassel.
• Lipskij, A., Arbeitman, C., Rojas, P., Ojeda-May, P. & Garcia, M.E. (2023): Dramatic differences between the structural susceptibility of the S1 Pre- and S2 postfusion states of the SARS-CoV-2 spike protein to external electric fields revealed by molecular dynamics simulations. Viruses 15:2405.
• Jaciuk, M., Scherf, D., Kaszuba, K., Gaik, M., Rau, A., Kościelniak, A., Krutyhołowa, R., Rawski, M., Indyka, P., Graziadei, A., Chramiec-Głąbik, A., Biela, A., Dobosz, D., Lin, T.Y., Abbassi, N.E., Hammermeister, A., Rappsilber, J., Kosinski, J., Schaffrath, R. & Glatt, S. (2023): Cryo-EM structure of the fully assembled Elongator complex. Nucleic Acids Research 51:2011–2032.
• Rumpf, M., Pautz, S., Drebes, B., Herberg, F.W. & Müller, H.-A.J. (2023): Microtubule- associated serine/threonine (MAST) kinases in development and disease. International Journal of Molecular Sciences 24:11913.
• Hanke, N. & Stursberg, O. (2023): On the design of limit cycles of planar switching affine systems. 2023 European Control Conference (ECC), Bucharest, Romania, pp.2251–2256.
• Trummel, T., Liu, Z. & Stursberg, O. (2023): On optimal synchronization of diffusively coupled heterogeneous Van der Pol oscillators. IFAC PapersOnLine 56:9475–9480.
• Ziebarth J., Seiler, W.M. & Fuhrmann-Lieker, T. (2023): Size-resolved modeling of diatom populations: old findings and new insights. In: Pappas, J.L. The mathematical biology of diatoms. Scrivener Publishing, Wiley, Hoboken, USA, pp. 19–61.
• Merker, D., Bertinetti, D., Merz, R., Kopnarski, M., Herberg, F.W. & Popov, C. (2023): Enhanced protein immobilization efficacy by nanostructuring of ultrananocrystalline diamond surface. Diamond and Related Materials 136:109898.

2022

• Happ, J.T., Arveseth, C.D., Bruystens, J., Bertinetti, D., Nelson, I.B., Olivieri, C., Zhang, J., Hedeen, D.S., Zhu, J.F., Capener, J.L., Bröckel, J.W., Vu, L., King, C.C., Ruiz-Perez, V.L., Ge, X., Veglia, G., Herberg, F.W., Taylor, S.S. & Myers, B.R. (2022): A PKA inhibitor motif within SMOOTHENED controls Hedgehog signal transduction. Nature Structural and Molecular Biology 29:990–999.
• Gorur-Shandilya, S., Cronin, E.M., Schneider, A.C., Haddad, S.A., Rosenbaum, P., Bucher, D., Nadim, F. & Marder, E. (2022): Mapping circuit dynamics during function and dysfunction. eLife 11:e76579.
• Schneider, A.C., Itani, O., Bucher, D. & Nadim, F. (2022): Neuromodulation reduces interindividual variability of neuronal output. eNeuro 9:ENEURO.0166-0122.2022.
• Drobny, A. & Friedmann, E. (2022): Numerical simulation of viscoelastic fluid–structure interaction benchmarks and their application to the human eye. SN Applied Sciences 4:299.
• Massah, A., Neupert, S., Brodesser, S., Homberg, U. & Stengl, M. (2022): Distribution and daily oscillation of GABA in the circadian system of the cockroach Rhyparobia maderae. Journal of Comparative Neurology 530:770–791.
• Althaus, V., Jahn, S., Massah, A., Stengl, M. & Homberg, U. (2022): 3D-atlas of the brain of the cockroach Rhyparobia maderae. Journal of Comparative Neurology 530:3126–3156.
• Stengl, M., Plath, J.A., Neupert, S. & Arnold, T. (2022): Newly DFG-funded research training group at the University of Kassel: “Biological clocks on multiple time scales” GRK 2749/1. Neuroforum 28:253–254.