Nomura, K., Rella, S., Merritt, H., Baltussen, M., Bird, D., Tjuka, A., &; Falk, D. (2024). Tipping points of space debris in low earth orbit. International Journal of the Commons. Ubiquity Press.https://doi.org/10.5334/ijc.1275 

Hledik, M. (2024). Genetic information and biological optimization. Institute of Science and Technology Austria.https://doi.org/10.15479/at:ista:15020 

Casillas Perez, B. E., Bodova, K., Grasse, A. V., Tkadik, G., &; Cremer, S. (2023). Dynamic pathogen detection and social feedback shape collective hygiene in ants. Nature Communications. Springer Nature.https://doi.org/10.1038/s41467-023-38947-y 

Lombardi, F., Pepic, S., Shriki, O., Tkadik, G., &; De Martino, D. (2023). Statistical modeling of adaptive neural networks explains co-existence of avalanches and oscillations in resting human brain. Nature Computational Science. Springer Nature.https://doi.org/10.1038/s43588-023-00410-9 

Reinhardt, M., Tkadik, G., &; Ten Wolde, P. R. (2023). Path weight sampling: Exact Monte Carlo computation of the mutual information between stochastic trajectories. Physical Review X. American Physical Society.https://doi.org/10.1103/PhysRevX.13.041017 

Nardin, M., Csicsvari, J. L., Tkadik, G., &; Savin, C. (2023). The structure of hippocampal C interactions optimizes spatial coding across experience. The Journal of Neuroscience. Society of Neuroscience.https://doi.org/10.1523/JNEUROSCI.0194-23.2023 

Scarpetta, S., Morrisi, N., Mutti, C., Azzi, N., Trippi, I., Ciliento, R.,https://doi.org/10.1016/j.isci.2023.107840__Vaudano, A. E. (2023). Criticality of neuronal avalanches in human sleep and their relationship with sleep macro- and micro-architecture. IScience. Elsevier.https://doi.org/10.1016/j.isci.2023.107840 

Rella, S., Kulikova, Y., Minnegalieva, A., &; Kondrashov, F. (2023). Complex vaccination strategies prevent the emergence of vaccine resistance. In European Journal of Public Health (Vol. 33). Oxford University Press.https://doi.org/10.1093/eurpub/ckad160.597 

Lombardi, F., Herrmann, H. J., Parrino, L., Plenz, D., Scarpetta, S., Vaudano, A. E.,https://doi.org/10.1016/j.celrep.2023.113162__Shriki, O. (2023). Beyond pulsed inhibition: Alpha oscillations modulate attenuation and amplification of neural activity in the awake resting state. Cell Reports. Elsevier.https://doi.org/10.1016/j.celrep.2023.113162 

Lombardi, F., Herrmann, H. J., Parrino, L., Plenz, D., Scarpetta, S., Vaudano, A. E.,https://doi.org/10.1101/2022.03.03.482657__Shriki, O. (2022). Alpha rhythm induces attenuation-amplification dynamics in neural activity cascades. bioRxiv. Cold Spring Harbor Laboratory.https://doi.org/10.1101/2022.03.03.482657 

Ngampruetikorn, V., Sachdeva, V., Torrence, J., Humplik, J., Schwab, D. J., &; Palmer, S. E. (2022). Inferring couplings in networks across order-disorder phase transitions. Physical Review Research. American Physical Society.https://doi.org/10.1103/PhysRevResearch.4.023240 

Zoller, B., Gregor, T., &; Tkadik, G. (2022). Eukaryotic gene regulation at equilibrium, or non? Current Opinion in Systems Biology. Elsevier.https://doi.org/10.1016/j.coisb.2022.100435 

Zisis, T., Brückner, D., Brandstätter, T., Siow, W. X., d’Alessandro, J., Vollmar, A. M.,https://doi.org/10.1016/j.bpj.2021.12.006__Zahler, S. (2022). Disentangling cadherin-mediated cell-cell interactions in collective cancer cell migration. Biophysical Journal. Elsevier.https://doi.org/10.1016/j.bpj.2021.12.006 

Lagator, M., Sarikas, S., Steinrueck, M., Toledo-Aparicio, D., Bollback, J. P., Guet, C. C., &; Tkadik, G. (2022). Predicting bacterial promoter function and evolution from random sequences. ELife. eLife Sciences Publications.https://doi.org/10.7554/eLife.64543 

Mlynarski, W. F., &; Tkadik, G. (2022). Efficient coding theory of dynamic attentional modulation. PLoS Biology. Public Library of Science.https://doi.org/10.1371/journal.pbio.3001889 

Hledik, M., Barton, N. H., &; Tkadik, G. (2022). Accumulation and maintenance of information in evolution. Proceedings of the National Academy of Sciences. Proceedings of the National Academy of Sciences.https://doi.org/10.1073/pnas.2123152119 

Bodova, K., Szep, E., &; Barton, N. H. (2021). Dynamic maximum entropy provides accurate approximation of structured population dynamics. PLoS Computational Biology. Public Library of Science.https://doi.org/10.1371/journal.pcbi.1009661 

Lombardi, F., Pepic, S., Shriki, O., Tkadik, G., &; De Martino, D. (n.d.). Quantifying the coexistence of neuronal oscillations and avalanches. arXiv.https://doi.org/10.48550/ARXIV.2108.06686 

Kavcic, B., &; Tkadik, G. (n.d.). Token-driven totally asymmetric simple exclusion process. arXiv.https://doi.org/10.48550/arXiv.2112.13558 

Lombardi, F., Shriki, O., Herrmann, H. J., &; de Arcangelis, L. (2021). Long-range temporal correlations in the broadband resting state activity of the human brain revealed by neuronal avalanches. Neurocomputing. Elsevier.https://doi.org/10.1016/j.neucom.2020.05.126 

Tkadik, G., &; Gregor, T. (2021). The many bits of positional information. Development. The Company of Biologists.https://doi.org/10.1242/dev.176065 

Mlynarski, W. F., &; Hermundstad, A. M. (2021). Efficient and adaptive sensory codes. Nature Neuroscience. Springer Nature.https://doi.org/10.1038/s41593-021-00846-0 

Zisis, T., Schwarz, J., Balles, M., Kretschmer, M., Nemethova, M., Chait, R. P.,https://doi.org/10.1021/acsami.1c09850__Zahler, S. (2021). Sequential and switchable patterning for studying cellular processes under spatiotemporal control. ACS Applied Materials and Interfaces. American Chemical Society.https://doi.org/10.1021/acsami.1c09850 

Gabrielaitis, M. (2021). Fast and accurate amplitude demodulation of wideband signals. IEEE Transactions on Signal Processing. Institute of Electrical and Electronics Engineers.https://doi.org/10.1109/TSP.2021.3087899 

Chalk, M. J., Tkadik, G., &; Marre, O. (2021). Inferring the function performed by a recurrent neural network. PLoS ONE. Public Library of Science.https://doi.org/10.1371/journal.pone.0248940 

Kavcic, B., Tkadik, G., &; Bollenbach, M. T. (2021). Minimal biophysical model of combined antibiotic action. PLOS Computational Biology. Public Library of Science.https://doi.org/10.1371/journal.pcbi.1008529 

Nagy-Staron, A. A., Tomasek, K., Caruso Carter, C., Sonnleitner, E., Kavcic, B., Paixão, T., &; Guet, C. C. (2021). Local genetic context shapes the function of a gene regulatory network. ELife. eLife Sciences Publications.https://doi.org/10.7554/elife.65993 

Mlynarski, W. F., Hledik, M., Sokolowski, T. R., &; Tkadik, G. (2021). Statistical analysis and optimality of neural systems. Neuron. Cell Press.https://doi.org/10.1016/j.neuron.2021.01.020 

Nardin, M., Csicsvari, J. L., Tkadik, G., &; Savin, C. (n.d.). The structure of hippocampal C interactions optimizes spatial coding across experience. bioRxiv. Cold Spring Harbor Laboratory.https://doi.org/10.1101/2021.09.28.460602 

Lombardi, F., Wang, J. W. J. L., Zhang, X., &; Ivanov, P. C. (2020). Power-law correlations and coupling of active and quiet states underlie a class of complex systems with self-organization at criticality. EPJ Web of Conferences. EDP Sciences.https://doi.org/10.1051/epjconf/202023000005 

Narasimhan, M., Johnson, A. J., Prizak, R., Kaufmann, W., Tan, S., Casillas Perez, B. E., &; Friml, J. (2020). Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. ELife. eLife Sciences Publications.https://doi.org/10.7554/eLife.52067 

Grah, R., &; Friedlander, T. (2020). Distribution of crosstalk values. Public Library of Science.https://doi.org/10.1371/journal.pcbi.1007642.s003 

Grah, R., &; Friedlander, T. (2020). Supporting information. Public Library of Science.https://doi.org/10.1371/journal.pcbi.1007642.s001 

Berry, M. J., &; Tkadik, G. (2020). Clustering of neural activity: A design principle for population codes. Frontiers in Computational Neuroscience. Frontiers.https://doi.org/10.3389/fncom.2020.00020 

Maoz, O., Tkadik, G., Esteki, M. S., Kiani, R., &; Schneidman, E. (2020). Learning probabilistic neural representations with randomly connected circuits. Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences.https://doi.org/10.1073/pnas.1912804117 

Rizzo, R., Zhang, X., Wang, J. W. J. L., Lombardi, F., &; Ivanov, P. C. (2020). Network physiology of cortico–muscular interactions. Frontiers in Physiology. Frontiers.https://doi.org/10.3389/fphys.2020.558070 

Grah, R., Zoller, B., &; Tkadik, G. (2020). Nonequilibrium models of optimal enhancer function. PNAS. National Academy of Sciences.https://doi.org/10.1073/pnas.2006731117 

Lombardi, F., Gómez-Extremera, M., Bernaola-Galván, P., Vetrivelan, R., Saper, C. B., Scammell, T. E., &; Ivanov, P. C. (2020). Critical dynamics and coupling in bursts of cortical rhythms indicate non-homeostatic mechanism for sleep-stage transitions and dual role of VLPO neurons in both sleep and wake. Journal of Neuroscience. Society for Neuroscience.https://doi.org/10.1523/jneurosci.1278-19.2019 

Grah, R. (2020). Gene regulation across scales – how biophysical constraints shape evolution. Institute of Science and Technology Austria.https://doi.org/10.15479/AT:ISTA:8155 

Grah, R., Zoller, B., &; Tkadik, G. (2020). Normative models of enhancer function. bioRxiv. Cold Spring Harbor Laboratory.https://doi.org/10.1101/2020.04.08.029405 

Grah, R., &; Friedlander, T. (2020). The relation between crosstalk and gene regulation form revisited. PLOS Computational Biology. Public Library of Science.https://doi.org/10.1371/journal.pcbi.1007642 

Grah, R., &; Friedlander, T. (2020). Maximizing crosstalk. Public Library of Science.https://doi.org/10.1371/journal.pcbi.1007642.s002 

Kavcic, B. (2020). Analysis scripts and research data for the paper “Mechanisms of drug interactions between translation-inhibiting antibiotics.”https://doi.org/10.15479/AT:ISTA:8097__Institute of Science and Technology Austria.https://doi.org/10.15479/AT:ISTA:8097 

Kavcic, B. (2020). Analysis scripts and research data for the paper “Minimal biophysical model of combined antibiotic action.”https://doi.org/10.15479/AT:ISTA:8930__Institute of Science and Technology Austria.https://doi.org/10.15479/AT:ISTA:8930 

Grah, R. (2020). Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation. Institute of Science and Technology Austria.https://doi.org/10.15479/AT:ISTA:7383 

Kavcic, B. (2020). Perturbations of protein synthesis: from antibiotics to genetics and physiology. Institute of Science and Technology Austria.https://doi.org/10.15479/AT:ISTA:8657 

Kavcic, B., Tkadik, G., &; Bollenbach, M. T. (2020). Mechanisms of drug interactions between translation-inhibiting antibiotics. Nature Communications. Springer Nature.https://doi.org/10.1038/s41467-020-17734-z 

Kavcic, B., Tkadik, G., &; Bollenbach, M. T. (2020). A minimal biophysical model of combined antibiotic action. bioRxiv. Cold Spring Harbor Laboratory.https://doi.org/10.1101/2020.04.18.047886 

Tomanek, I., Grah, R., Lagator, M., Andersson, A. M. C., Bollback, J. P., Tkadik, G., &; Guet, C. C. (2020). Gene amplification as a form of population-level gene expression regulation. Nature Ecology &; Evolution. Springer Nature.https://doi.org/10.1038/s41559-020-1132-7 

Bialek, W., Gregor, T., &; Tkadik, G. (n.d.). Action at a distance in transcriptional regulation. arXiv:1912.08579. ArXiv.