Hillenbrand P, Gerland U, Tkadik G. 2016. Beyond the French flag model: Exploiting spatial and gene regulatory interactions for positional information. PLoS One. 11(9), e0163628.
LibreCat: https://research-explorer.ista.ac.at/record/1270
DOI: 10.1371/journal.pone.0163628

Hillenbrand P, Gerland U, Tkadik G. 2016. Computation of positional information in an Ising model, Public Library of Science,10.1371/journal.pone.0163628.s002 .
LibreCat: https://research-explorer.ista.ac.at/record/9870
DOI: 10.1371/journal.pone.0163628.s002

Hillenbrand P, Gerland U, Tkadik G. 2016. Error bound on an estimator of position, Public Library of Science,10.1371/journal.pone.0163628.s001 .
LibreCat: https://research-explorer.ista.ac.at/record/9869
DOI: 10.1371/journal.pone.0163628.s001

Hillenbrand P, Gerland U, Tkadik G. 2016. Computation of positional information in a discrete morphogen field, Public Library of Science,10.1371/journal.pone.0163628.s003 .
LibreCat: https://research-explorer.ista.ac.at/record/9871
DOI: 10.1371/journal.pone.0163628.s003

Rieckh G. 2016. Studying the complexities of transcriptional regulation. Institute of Science and Technology Austria.
LibreCat: https://research-explorer.ista.ac.at/record/1128

Friedlander T, Prizak R, Guet CC, Barton NH, Tkadik G. 2016. Intrinsic limits to gene regulation by global crosstalk. Nature Communications. 7, 12307.
LibreCat: https://research-explorer.ista.ac.at/record/1358
DOI: 10.1038/ncomms12307

Parise F, Lygeros J, Ruess J. 2015. Bayesian inference for stochastic individual-based models of ecological systems: a pest control simulation study. Frontiers in Environmental Science. 3, 42.
LibreCat: https://research-explorer.ista.ac.at/record/10794
DOI: 10.3389/fenvs.2015.00042

Ruess J. 2015. Minimal moment equations for stochastic models of biochemical reaction networks with partially finite state space. Journal of Chemical Physics. 143(24), 244103.
LibreCat: https://research-explorer.ista.ac.at/record/1539
DOI: 10.1063/1.4937937

Ruess J, Parise F, Milias Argeitis A, Khammash M, Lygeros J. 2015. Iterative experiment design guides the characterization of a light-inducible gene expression circuit. PNAS. 112(26), 8148–8153.
LibreCat: https://research-explorer.ista.ac.at/record/1538
DOI: 10.1073/pnas.1423947112
PMID: 26085136

Gilson M, Savin C, Zenke F. 2015. Editorial: Emergent neural computation from the interaction of different forms of plasticity. Frontiers in Computational Neuroscience. 9(11), 145.
LibreCat: https://research-explorer.ista.ac.at/record/1564
DOI: 10.3389/fncom.2015.00145

Der R, Martius GS. 2015. Novel plasticity rule can explain the development of sensorimotor intelligence. PNAS. 112(45), 24–32.
LibreCat: https://research-explorer.ista.ac.at/record/1570
DOI: 10.1073/pnas.1508400112
PMID: 26504200

Bogomolov S, Henzinger TA, Podelski A, Ruess J, Schilling C. 2015. Adaptive moment closure for parameter inference of biochemical reaction networks. 9308, 77–89.
LibreCat: https://research-explorer.ista.ac.at/record/1658
DOI: 10.1007/978-3-319-23401-4_8

Marre O, Botella Soler V, Simmons K, Mora T, Tkadik G, Berry M. 2015. High accuracy decoding of dynamical motion from a large retinal population. PLoS Computational Biology. 11(7), e1004304.
LibreCat: https://research-explorer.ista.ac.at/record/1697
DOI: 10.1371/journal.pcbi.1004304

Tkadik G, Mora T, Marre O, Amodei D, Palmer S, Berry Ii M, Bialek W. 2015. Thermodynamics and signatures of criticality in a network of neurons. PNAS. 112(37), 11508–11513.
LibreCat: https://research-explorer.ista.ac.at/record/1701
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PMID: 26330611

Ruess J, Lygeros J. 2015. Moment-based methods for parameter inference and experiment design for stochastic biochemical reaction networks. ACM Transactions on Modeling and Computer Simulation. 25(2), 8.
LibreCat: https://research-explorer.ista.ac.at/record/1861
DOI: 10.1145/2688906

Tkadik G, Dubuis J, Petkova M, Gregor T. 2015. Positional information, positional error, and readout precision in morphogenesis: A mathematical framework. Genetics. 199(1), 39–59.
LibreCat: https://research-explorer.ista.ac.at/record/1885
DOI: 10.1534/genetics.114.171850

Sokolowski TR, Tkadik G. 2015. Optimizing information flow in small genetic networks. IV. Spatial coupling. Physical Review E Statistical Nonlinear and Soft Matter Physics. 91(6), 062710.
LibreCat: https://research-explorer.ista.ac.at/record/1940
DOI: 10.1103/PhysRevE.91.062710

Friedlander T, Mayo AE, Tlusty T, Alon U. 2015. Supporting information text, Public Library of Science,10.1371/journal.pcbi.1004055.s001 .
LibreCat: https://research-explorer.ista.ac.at/record/9718
DOI: 10.1371/journal.pcbi.1004055.s001

Friedlander T, Mayo A, Tlusty T, Alon U. 2015. Evolution of bow-tie architectures in biology. PLoS Computational Biology. 11(3).
LibreCat: https://research-explorer.ista.ac.at/record/1827
DOI: 10.1371/journal.pcbi.1004055

Friedlander T, Mayo AE, Tlusty T, Alon U. 2015. Evolutionary simulation code, Public Library of Science,10.1371/journal.pcbi.1004055.s002 .
LibreCat: https://research-explorer.ista.ac.at/record/9773
DOI: 10.1371/journal.pcbi.1004055.s002

Tugrul M, Paixao T, Barton NH, Tkadik G. 2015. Other fitness models for comparison &; for interacting TFBSs, Public Library of Science,10.1371/journal.pgen.1005639.s001 .
LibreCat: https://research-explorer.ista.ac.at/record/9712
DOI: 10.1371/journal.pgen.1005639.s001

Tugrul M, Paixao T, Barton NH, Tkadik G. 2015. Dynamics of transcription factor binding site evolution. PLoS Genetics. 11(11).
LibreCat: https://research-explorer.ista.ac.at/record/1666
DOI: 10.1371/journal.pgen.1005639

Cepeda Humerez SA, Rieckh G, Tkadik G. 2015. Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation. Physical Review Letters. 115(24), 248101.
LibreCat: https://research-explorer.ista.ac.at/record/1576
DOI: 10.1103/PhysRevLett.115.248101

Martius GS, Olbrich E. 2015. Quantifying emergent behavior of autonomous robots. Entropy. 17(10), 7266–7297.
LibreCat: https://research-explorer.ista.ac.at/record/1655
DOI: 10.3390/e17107266

Savin C, Denève S. 2014. Spatio-temporal representations of uncertainty in spiking neural networks. NIPS: Neural Information Processing Systems vol. 3, 2024–2032.
LibreCat: https://research-explorer.ista.ac.at/record/1708

Hermundstad A, Briguglio J, Conte M, Victor J, Balasubramanian V, Tkadik G. 2014. Variance predicts salience in central sensory processing. eLife. (November), e03722.
LibreCat: https://research-explorer.ista.ac.at/record/1886
DOI: 10.7554/eLife.03722

Kollár R, Bodova K, Nosek J, Tomáska d. 2014. Mathematical model of alternative mechanism of telomere length maintenance. Physical Review E Statistical Nonlinear and Soft Matter Physics. 89(3), 032701.
LibreCat: https://research-explorer.ista.ac.at/record/1896
DOI: 10.1103/PhysRevE.89.032701

Ezard T, Prizak R, Hoyle R. 2014. The fitness costs of adaptation via phenotypic plasticity and maternal effects. Functional Ecology. 28(3), 693–701.
LibreCat: https://research-explorer.ista.ac.at/record/1909
DOI: 10.1111/1365-2435.12207

Humplik J, Hill A, Nowak M. 2014. Evolutionary dynamics of infectious diseases in finite populations. Journal of Theoretical Biology. 360, 149–162.
LibreCat: https://research-explorer.ista.ac.at/record/1928
DOI: 10.1016/j.jtbi.2014.06.039

Savin C, Triesch J. 2014. Emergence of task-dependent representations in working memory circuits. Frontiers in Computational Neuroscience. 8(MAY), 57.
LibreCat: https://research-explorer.ista.ac.at/record/1931
DOI: 10.3389/fncom.2014.00057

Bodova K, Paydarfar D, Forger D. 2014. Characterizing spiking in noisy type II neurons.  Journal of Theoretical Biology. 365, 40–54.
LibreCat: https://research-explorer.ista.ac.at/record/2028
DOI: 10.1016/j.jtbi.2014.09.041

Botella Soler V, Glendinning P. 2014. Hierarchy and polysynchrony in an adaptive network . Physical Review E Statistical Nonlinear and Soft Matter Physics. 89(6), 062809.
LibreCat: https://research-explorer.ista.ac.at/record/2183
DOI: 10.1103/PhysRevE.89.062809

Rieckh G, Tkadik G. 2014. Noise and information transmission in promoters with multiple internal states. Biophysical Journal. 106(5), 1194–1204.
LibreCat: https://research-explorer.ista.ac.at/record/2231
DOI: 10.1016/j.bpj.2014.01.014
PMID: 24606943

Tkadik G, Ghosh A, Schneidman E, Segev R. 2014. Adaptation to changes in higher-order stimulus statistics in the salamander retina. PLoS One. 9(1), e85841.
LibreCat: https://research-explorer.ista.ac.at/record/3263
DOI: 10.1371/journal.pone.0085841

Prizak R, Ezard T, Hoyle R. 2014. Fitness consequences of maternal and grandmaternal effects. Ecology and Evolution. 4(15), 3139–3145.
LibreCat: https://research-explorer.ista.ac.at/record/537
DOI: 10.1002/ece3.1150

Simmons K, Prentice J, Tkadik G, Homann J, Yee H, Palmer S, Nelson P, Balasubramanian V. 2014. Data from: Transformation of stimulus correlations by the retina, Dryad,10.5061/dryad.246qg .
LibreCat: https://research-explorer.ista.ac.at/record/9752
DOI: 10.5061/dryad.246qg

Tkadik G, Marre O, Amodei D, Schneidman E, Bialek W, Berry M. 2014. Searching for collective behavior in a large network of sensory neurons. PLoS Computational Biology. 10(1), e1003408.
LibreCat: https://research-explorer.ista.ac.at/record/2257
DOI: 10.1371/journal.pcbi.1003408

Valderrama M, Botella Soler V, Le Van Quyen M. 2013.Neuronal oscillations scale up and scale down the brain dynamics . In: Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain. Reviews of Nonlinear Dynamics and Complexity, .
LibreCat: https://research-explorer.ista.ac.at/record/2413
DOI: 10.1002/9783527671632.ch08

Rajan K, Marre O, Tkadik G. 2013. Learning quadratic receptive fields from neural responses to natural stimuli. Neural Computation. 25(7), 1661–1692.
LibreCat: https://research-explorer.ista.ac.at/record/2818
DOI: 10.1162/NECO_a_00463
arXiv: 1209.0121

Tkadik G, Marre O, Mora T, Amodei D, Berry M, Bialek W. 2013. The simplest maximum entropy model for collective behavior in a neural network. Journal of Statistical Mechanics Theory and Experiment. 2013(3), 011.
LibreCat: https://research-explorer.ista.ac.at/record/2850
DOI: 10.1088/1742-5468/2013/03/P03011
arXiv: 1207.6319

Berry M, Tkadik G, Dubuis J, Marre O, Da Silveira R. 2013. A simple method for estimating the entropy of neural activity. Journal of Statistical Mechanics Theory and Experiment. 2013(3), 015.
LibreCat: https://research-explorer.ista.ac.at/record/2851
DOI: 10.1088/1742-5468/2013/03/P03015

Granot Atedgi E, Tkadik G, Segev R, Schneidman E. 2013. Stimulus-dependent maximum entropy models of neural population codes. PLoS Computational Biology. 9(3), e1002922.
LibreCat: https://research-explorer.ista.ac.at/record/2863
DOI: 10.1371/journal.pcbi.1002922

Botella Soler V, Oteo J, Ros J, Glendinning P. 2013. Lyapunov exponent and topological entropy plateaus in piecewise linear maps. Journal of Physics A: Mathematical and Theoretical. 46(12), 125101.
LibreCat: https://research-explorer.ista.ac.at/record/2861
DOI: 10.1088/1751-8113/46/12/125101

Tkadik G, Granot Atedgi E, Segev R, Schneidman E. 2013. Retinal metric: a stimulus distance measure derived from population neural responses. Physical Review Letters. 110(5), 058104.
LibreCat: https://research-explorer.ista.ac.at/record/2913
DOI: 10.1103/PhysRevLett.110.058104

Dubuis J, Tkadik G, Wieschaus E, Gregor T, Bialek W. 2013. Positional information, in bits. PNAS. 110(41), 16301–16308.
LibreCat: https://research-explorer.ista.ac.at/record/3261
DOI: 10.1073/pnas.1315642110
PMID: 24089448

Wakamoto Y, Dhar N, Chait RP, Schneider K, Signorino Gelo F, Leibler S, Mckinney J. 2013. Dynamic persistence of antibiotic-stressed mycobacteria. Science. 339(6115), 91–95.
LibreCat: https://research-explorer.ista.ac.at/record/499
DOI: 10.1126/science.1229858

Simmons K, Prentice J, Tkadik G, Homann J, Yee H, Palmer S, Nelson P, Balasubramanian V. 2013. Transformation of stimulus correlations by the retina. PLoS Computational Biology. 9(12), e1003344.
LibreCat: https://research-explorer.ista.ac.at/record/2277
DOI: 10.1371/journal.pcbi.1003344

Stephens G, Mora T, Tkadik G, Bialek W. 2013. Statistical thermodynamics of natural images. Physical Review Letters. 110(1), 018701.
LibreCat: https://research-explorer.ista.ac.at/record/2914
DOI: 10.1103/PhysRevLett.110.018701
arXiv: 0806.2694

Tkadik G, Walczak A, Bialek W. 2012. Optimizing information flow in small genetic networks. III. A self-interacting gene.  Physical Review E statistical nonlinear and soft matter physics . 85(4), 041903.
LibreCat: https://research-explorer.ista.ac.at/record/3262
DOI: 10.1103/PhysRevE.85.041903

Rieckh G, Kreuzer W, Waubke H, Balazs P. 2012. A 2.5D-Fourier-BEM model for vibrations in a tunnel running through layered anisotropic soil.  Engineering Analysis with Boundary Elements. 36(6), 960–967.
LibreCat: https://research-explorer.ista.ac.at/record/3274
DOI: 10.1016/j.enganabound.2011.12.014

Tkadik G, Walczak A. 2011. Information transmission in genetic regulatory networks a review. Journal of Physics: Condensed Matter. 23(15), 153102.
LibreCat: https://research-explorer.ista.ac.at/record/3374
DOI: 10.1088/0953-8984/23/15/153102

Tkadik G, Garrigan P, Ratliff C, Milcinski G, Klein J, Seyfarth L, Sterling P, Brainard D, Balasubramanian V. 2011. Natural images from the birthplace of the human eye. PLoS One. 6(6), e20409.
LibreCat: https://research-explorer.ista.ac.at/record/3384
DOI: 10.1371/journal.pone.0020409