Nomura K, Rella S, Merritt H, et al. Tipping points of space debris in low earth orbit. International Journal of the Commons. 2024;18(1). doi:10.5334/ijc.1275
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Hledik M. Genetic information and biological optimization. 2024. doi:10.15479/at:ista:15020
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Casillas Perez BE, Bodova K, Grasse AV, Tkadik G, Cremer S. Dynamic pathogen detection and social feedback shape collective hygiene in ants. Nature Communications. 2023;14. doi:10.1038/s41467-023-38947-y
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PMID: 37270641

Lombardi F, Pepic S, Shriki O, Tkadik G, De Martino D. Statistical modeling of adaptive neural networks explains co-existence of avalanches and oscillations in resting human brain. Nature Computational Science. 2023;3:254-263. doi:10.1038/s43588-023-00410-9
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arXiv: 2108.06686

Reinhardt M, Tkadik G, Ten Wolde PR. Path weight sampling: Exact Monte Carlo computation of the mutual information between stochastic trajectories. Physical Review X. 2023;13(4). doi:10.1103/PhysRevX.13.041017
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arXiv: 2203.03461

Nardin M, Csicsvari JL, Tkadik G, Savin C. The structure of hippocampal C interactions optimizes spatial coding across experience. The Journal of Neuroscience. 2023;43(48):8140-8156. doi:10.1523/JNEUROSCI.0194-23.2023
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PMID: 37758476

Scarpetta S, Morrisi N, Mutti C, et al. Criticality of neuronal avalanches in human sleep and their relationship with sleep macro- and micro-architecture. iScience. 2023;26(10):107840. doi:10.1016/j.isci.2023.107840
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PMID: 37766992

Rella S, Kulikova Y, Minnegalieva A, Kondrashov F. Complex vaccination strategies prevent the emergence of vaccine resistance. In: European Journal of Public Health. Vol 33. Oxford University Press; 2023. doi:10.1093/eurpub/ckad160.597
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Lombardi F, Herrmann HJ, Parrino L, et al. Beyond pulsed inhibition: Alpha oscillations modulate attenuation and amplification of neural activity in the awake resting state. Cell Reports. 2023;42(10). doi:10.1016/j.celrep.2023.113162
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PMID: 37777965

Lombardi F, Herrmann HJ, Parrino L, et al. Alpha rhythm induces attenuation-amplification dynamics in neural activity cascades. bioRxiv. 2022. doi:10.1101/2022.03.03.482657
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Ngampruetikorn V, Sachdeva V, Torrence J, Humplik J, Schwab DJ, Palmer SE. Inferring couplings in networks across order-disorder phase transitions. Physical Review Research. 2022;4(2). doi:10.1103/PhysRevResearch.4.023240
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arXiv: 2106.02349

Zoller B, Gregor T, Tkadik G. Eukaryotic gene regulation at equilibrium, or non? Current Opinion in Systems Biology. 2022;31(9). doi:10.1016/j.coisb.2022.100435
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Zisis T, Brückner D, Brandstätter T, et al. Disentangling cadherin-mediated cell-cell interactions in collective cancer cell migration. Biophysical Journal. 2022;121(1):-60. doi:10.1016/j.bpj.2021.12.006
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Lagator M, Sarikas S, Steinrueck M, et al. Predicting bacterial promoter function and evolution from random sequences. eLife. 2022;11. doi:10.7554/eLife.64543
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PMID: 35080492

Mlynarski WF, Tkadik G. Efficient coding theory of dynamic attentional modulation. PLoS Biology. 2022;20(12):e3001889. doi:10.1371/journal.pbio.3001889
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Hledik M, Barton NH, Tkadik G. Accumulation and maintenance of information in evolution. Proceedings of the National Academy of Sciences. 2022;119(36). doi:10.1073/pnas.2123152119
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Bodova K, Szep E, Barton NH. Dynamic maximum entropy provides accurate approximation of structured population dynamics. PLoS Computational Biology. 2021;17(12). doi:10.1371/journal.pcbi.1009661
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PMID: 34851948
arXiv: 2102.03669

Lombardi F, Pepic S, Shriki O, Tkadik G, De Martino D. Quantifying the coexistence of neuronal oscillations and avalanches. doi:10.48550/ARXIV.2108.06686
LibreCat: https://research-explorer.ista.ac.at/record/10912
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arXiv: 2108.06686

Kavcic B, Tkadik G. Token-driven totally asymmetric simple exclusion process. arXiv. doi:10.48550/arXiv.2112.13558
LibreCat: https://research-explorer.ista.ac.at/record/10579
DOI: 10.48550/arXiv.2112.13558
arXiv: 2112.13558

Lombardi F, Shriki O, Herrmann HJ, de Arcangelis L. Long-range temporal correlations in the broadband resting state activity of the human brain revealed by neuronal avalanches. Neurocomputing. 2021;461:657-666. doi:10.1016/j.neucom.2020.05.126
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WoS: 000704086300015

Tkadik G, Gregor T. The many bits of positional information. Development. 2021;148(2). doi:10.1242/dev.176065
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PMID: 33526425

Mlynarski WF, Hermundstad AM. Efficient and adaptive sensory codes. Nature Neuroscience. 2021;24:998-1009. doi:10.1038/s41593-021-00846-0
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Zisis T, Schwarz J, Balles M, et al. Sequential and switchable patterning for studying cellular processes under spatiotemporal control. ACS Applied Materials and Interfaces. 2021;13(30):35545–35560. doi:10.1021/acsami.1c09850
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PMID: 34283577

Gabrielaitis M. Fast and accurate amplitude demodulation of wideband signals. IEEE Transactions on Signal Processing. 2021;69:4039-4054. doi:10.1109/TSP.2021.3087899
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DOI: 10.1109/TSP.2021.3087899
WoS: 000682123900002
arXiv: 2102.04832

Chalk MJ, Tkadik G, Marre O. Inferring the function performed by a recurrent neural network. PLoS ONE. 2021;16(4). doi:10.1371/journal.pone.0248940
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PMID: 33857170

Kavcic B, Tkadik G, Bollenbach MT. Minimal biophysical model of combined antibiotic action. PLOS Computational Biology. 2021;17. doi:10.1371/journal.pcbi.1008529
LibreCat: https://research-explorer.ista.ac.at/record/8997
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Nagy-Staron AA, Tomasek K, Caruso Carter C, et al. Local genetic context shapes the function of a gene regulatory network. eLife. 2021;10. doi:10.7554/elife.65993
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Mlynarski WF, Hledik M, Sokolowski TR, Tkadik G. Statistical analysis and optimality of neural systems. Neuron. 2021;109(7):1227-1241.e5. doi:10.1016/j.neuron.2021.01.020
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DOI: 10.1016/j.neuron.2021.01.020
WoS: 000637809600006

Nardin M, Csicsvari JL, Tkadik G, Savin C. The structure of hippocampal C interactions optimizes spatial coding across experience. bioRxiv. doi:10.1101/2021.09.28.460602
LibreCat: https://research-explorer.ista.ac.at/record/10077
DOI: 10.1101/2021.09.28.460602

Lombardi F, Wang JWJL, Zhang X, Ivanov PC. 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. 2020;230. doi:10.1051/epjconf/202023000005
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Narasimhan M, Johnson AJ, Prizak R, et al. Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. eLife. 2020;9. doi:10.7554/eLife.52067
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PMID: 31971511

Grah R, Friedlander T. Distribution of crosstalk values. 2020. doi:10.1371/journal.pcbi.1007642.s003
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DOI: 10.1371/journal.pcbi.1007642.s003

Grah R, Friedlander T. Supporting information. 2020. doi:10.1371/journal.pcbi.1007642.s001
LibreCat: https://research-explorer.ista.ac.at/record/9776
DOI: 10.1371/journal.pcbi.1007642.s001

Berry MJ, Tkadik G. Clustering of neural activity: A design principle for population codes. Frontiers in Computational Neuroscience. 2020;14. doi:10.3389/fncom.2020.00020
LibreCat: https://research-explorer.ista.ac.at/record/7656
DOI: 10.3389/fncom.2020.00020
WoS: 000525543200001
PMID: 32231528

Maoz O, Tkadik G, Esteki MS, Kiani R, Schneidman E. Learning probabilistic neural representations with randomly connected circuits. Proceedings of the National Academy of Sciences of the United States of America. 2020;117(40):25066-25073. doi:10.1073/pnas.1912804117
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DOI: 10.1073/pnas.1912804117
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PMID: 32948691

Rizzo R, Zhang X, Wang JWJL, Lombardi F, Ivanov PC. Network physiology of cortico–muscular interactions. Frontiers in Physiology. 2020;11. doi:10.3389/fphys.2020.558070
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PMID: 33324233

Grah R, Zoller B, Tkadik G. Nonequilibrium models of optimal enhancer function. PNAS. 2020;117(50):31614-31622. doi:10.1073/pnas.2006731117
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PMID: 33268497

Lombardi F, Gómez-Extremera M, Bernaola-Galván P, et al. 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. 2020;40(1):171-190. doi:10.1523/jneurosci.1278-19.2019
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PMID: 31694962

Grah R. Gene regulation across scales – how biophysical constraints shape evolution. 2020. doi:10.15479/AT:ISTA:8155
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DOI: 10.15479/AT:ISTA:8155

Grah R, Zoller B, Tkadik G. Normative models of enhancer function. bioRxiv. 2020. doi:10.1101/2020.04.08.029405
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DOI: 10.1101/2020.04.08.029405

Grah R, Friedlander T. The relation between crosstalk and gene regulation form revisited. PLOS Computational Biology. 2020;16(2). doi:10.1371/journal.pcbi.1007642
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Grah R, Friedlander T. Maximizing crosstalk. 2020. doi:10.1371/journal.pcbi.1007642.s002
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DOI: 10.1371/journal.pcbi.1007642.s002

Kavcic B. Analysis scripts and research data for the paper “Mechanisms of drug interactions between translation-inhibiting antibiotics.”10.15479/AT:ISTA:8097__2020. doi:10.15479/AT:ISTA:8097
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DOI: 10.15479/AT:ISTA:8097

Kavcic B. Analysis scripts and research data for the paper “Minimal biophysical model of combined antibiotic action.”10.15479/AT:ISTA:8930__2020. doi:10.15479/AT:ISTA:8930
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DOI: 10.15479/AT:ISTA:8930

Grah R. Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation. 2020. doi:10.15479/AT:ISTA:7383
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DOI: 10.15479/AT:ISTA:7383

Kavcic B. Perturbations of protein synthesis: from antibiotics to genetics and physiology. 2020. doi:10.15479/AT:ISTA:8657
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DOI: 10.15479/AT:ISTA:8657

Kavcic B, Tkadik G, Bollenbach MT. Mechanisms of drug interactions between translation-inhibiting antibiotics. Nature Communications. 2020;11. doi:10.1038/s41467-020-17734-z
LibreCat: https://research-explorer.ista.ac.at/record/8250
DOI: 10.1038/s41467-020-17734-z
WoS: 000562769300008

Kavcic B, Tkadik G, Bollenbach MT. A minimal biophysical model of combined antibiotic action. bioRxiv. 2020. doi:10.1101/2020.04.18.047886
LibreCat: https://research-explorer.ista.ac.at/record/7673
DOI: 10.1101/2020.04.18.047886

Tomanek I, Grah R, Lagator M, et al. Gene amplification as a form of population-level gene expression regulation. Nature Ecology &; Evolution. 2020;4(4):612-625. doi:10.1038/s41559-020-1132-7
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DOI: 10.1038/s41559-020-1132-7
WoS: 000519008300005

Bialek W, Gregor T, Tkadik G. Action at a distance in transcriptional regulation. arXiv:191208579.
LibreCat: https://research-explorer.ista.ac.at/record/7552
arXiv: 1912.08579