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122 Publications

2019 | Journal Article | IST-REx-ID: 7103   OA
Wang JWJL, Lombardi F, Zhang X, Anaclet C, Ivanov PC. Non-equilibrium critical dynamics of bursts in θ and δ rhythms as fundamental characteristic of sleep and wake micro-architecture. PLOS Computational Biology. 2019;15(11). doi:10.1371/journal.pcbi.1007268
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2019 | Preprint | IST-REx-ID: 7083   OA
Kavcic B, Tkačik G, Bollenbach T. Mechanistic origin of drug interactions between translation-inhibiting antibiotics. bioRxiv.
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2019 | Preprint | IST-REx-ID: 7552   OA
Bialek W, Gregor T, Tkačik G. Action at a distance in transcriptional regulation. arXiv:191208579.
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2019 | Journal Article | IST-REx-ID: 5817
Kavcic B, Sakashita A, Noguchi H, Ziherl P. Limiting shapes of confined lipid vesicles. Soft Matter. 2019;15(4):602-614. doi:10.1039/c8sm01956h
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2019 | Thesis | IST-REx-ID: 6473
Cepeda Humerez SA. Estimating Information Flow in Single Cells. IST Austria; 2019. doi:10.15479/AT:ISTA:6473
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2019 | Journal Article | IST-REx-ID: 6049   OA
De Martino D. Feedback-induced self-oscillations in large interacting systems subjected to phase transitions. Journal of Physics A: Mathematical and Theoretical. 2019;52(4). doi:10.1088/1751-8121/aaf2dd
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2019 | Journal Article | IST-REx-ID: 6784   OA
Ruess J, Pleska M, Guet CC, Tkačik G. Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology. 2019;15(7). doi:10.1371/journal.pcbi.1007168
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2019 | Journal Article | IST-REx-ID: 5945
Petkova MD, Tkacik G, Bialek W, Wieschaus EF, Gregor T. Optimal decoding of cellular identities in a genetic network. Cell. 2019;176(4):844-855.e15. doi:10.1016/j.cell.2019.01.007
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2019 | Journal Article | IST-REx-ID: 7422   OA
Sokolowski TR, Paijmans J, Bossen L, et al. eGFRD in all dimensions. The Journal of Chemical Physics. 2019;150(5):054108. doi:10.1063/1.5064867
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2019 | Journal Article | IST-REx-ID: 6900   OA
Cepeda Humerez SA, Ruess J, Tkačik G. Estimating information in time-varying signals. PLoS computational biology. 2019;15(9):e1007290. doi:10.1371/journal.pcbi.1007290
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2019 | Journal Article | IST-REx-ID: 6090   OA
Carballo-Pacheco M, Desponds J, Gavrilchenko T, et al. Receptor crosstalk improves concentration sensing of multiple ligands. Physical Review E. 2019;99(2). doi:10.1103/PhysRevE.99.022423
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2019 | Thesis | IST-REx-ID: 6071
Prizak R. Coevolution of Transcription Factors and Their Binding Sites in Sequence Space. IST Austria; 2019. doi:10.15479/at:ista:th6071
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2019 | Conference Paper | IST-REx-ID: 7606   OA
Hledik M, Sokolowski TR, Tkačik G. A tight upper bound on mutual information. In: IEEE Information Theory Workshop, ITW 2019. IEEE; 2019:8989292. doi:10.1109/ITW44776.2019.8989292
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2018 | Journal Article | IST-REx-ID: 543   OA
Chalk MJ, Marre O, Tkacik G. Toward a unified theory of efficient, predictive, and sparse coding. PNAS. 2018;115(1):186-191. doi:10.1073/pnas.1711114115
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2018 | Journal Article | IST-REx-ID: 31   OA
Ferrari U, Deny S, Chalk MJ, Tkacik G, Marre O, Mora T. Separating intrinsic interactions from extrinsic correlations in a network of sensory neurons. Physical Review E. 2018;98(4):042410. doi:10.1103/PhysRevE.98.042410
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2018 | Journal Article | IST-REx-ID: 67   OA
Igler C, Lagator M, Tkacik G, Bollback JP, Guet CC. Evolutionary potential of transcription factors for gene regulatory rewiring. Nature Ecology and Evolution. 2018;2(10):1633-1643. doi:10.1038/s41559-018-0651-y
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2018 | Journal Article | IST-REx-ID: 607   OA
Bodova K, Haskovec J, Markowich P. Well posedness and maximum entropy approximation for the dynamics of quantitative traits. Physica D: Nonlinear Phenomena. 2018;376-377:108-120. doi:10.1016/j.physd.2017.10.015
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2018 | Journal Article | IST-REx-ID: 316   OA
Bodova K, Priklopil T, Field D, Barton NH, Pickup M. Evolutionary pathways for the generation of new self-incompatibility haplotypes in a non-self recognition system. Genetics. 2018;209(3):861-883. doi:10.1534/genetics.118.300748
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2018 | Journal Article | IST-REx-ID: 19   OA
Palmer A, Chait RP, Kishony R. Nonoptimal gene expression creates latent potential for antibiotic resistance. Molecular Biology and Evolution. 2018;35(11):2669-2684. doi:10.1093/molbev/msy163
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2018 | Preprint | IST-REx-ID: 196   OA
Lang M, Shkolnikov M. Harmonic dynamics of the Abelian sandpile. ArXiv. 2018.
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2018 | Journal Article | IST-REx-ID: 305
Misun P, Birchler A, Lang M, Hierlemann A, Frey O. Fabrication and operation of microfluidic hanging drop networks. Methods in Molecular Biology. 2018;1771:183-202. doi:10.1007/978-1-4939-7792-5_15
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2018 | Journal Article | IST-REx-ID: 406   OA
Bod’Ová K, Mitchell G, Harpaz R, Schneidman E, Tkacik G. Probabilistic models of individual and collective animal behavior. PLoS One. 2018;13(3). doi:10.1371/journal.pone.0193049
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2018 | Journal Article | IST-REx-ID: 292   OA
Botella Soler V, Deny S, Martius GS, Marre O, Tkacik G. Nonlinear decoding of a complex movie from the mammalian retina. PLoS Computational Biology. 2018;14(5):e1006057. doi:10.1371/journal.pcbi.1006057
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2018 | Journal Article | IST-REx-ID: 306   OA
De Martino A, De Martino D. An introduction to the maximum entropy approach and its application to inference problems in biology. Heliyon. 2018;4(4). doi:10.1016/j.heliyon.2018.e00596
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2018 | Journal Article | IST-REx-ID: 457
Pleska M, Lang M, Refardt D, Levin B, Guet CC. Phage-host population dynamics promotes prophage acquisition in bacteria with innate immunity. Nature Ecology and Evolution. 2018;2(2):359-366. doi:10.1038/s41559-017-0424-z
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2018 | Journal Article | IST-REx-ID: 281   OA
Granados A, Pietsch J, Cepeda Humerez SA, Farquhar I, Tkacik G, Swain P. Distributed and dynamic intracellular organization of extracellular information. PNAS. 2018;115(23):6088-6093. doi:10.1073/pnas.1716659115
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2018 | Journal Article | IST-REx-ID: 161
De Martino D, Mc AA, Bergmiller T, Guet CC, Tkacik G. Statistical mechanics for metabolic networks during steady state growth. Nature Communications. 2018;9(1). doi:10.1038/s41467-018-05417-9
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2017 | Journal Article | IST-REx-ID: 725   OA
Harpaz R, Tkacik G, Schneidman E. Discrete modes of social information processing predict individual behavior of fish in a group. PNAS. 2017;114(38):10149-10154. doi:10.1073/pnas.1703817114
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2017 | Journal Article | IST-REx-ID: 1104   OA
Deny S, Ferrari U, Mace E, et al. Multiplexed computations in retinal ganglion cells of a single type. Nature Communications. 2017;8(1). doi:10.1038/s41467-017-02159-y
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2017 | Journal Article | IST-REx-ID: 720   OA
Humplik J, Tkacik G. Probabilistic models for neural populations that naturally capture global coupling and criticality. PLoS Computational Biology. 2017;13(9). doi:10.1371/journal.pcbi.1005763
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2017 | Journal Article | IST-REx-ID: 548   OA
De Martino D. Maximum entropy modeling of metabolic networks by constraining growth-rate moments predicts coexistence of phenotypes. Physical Review E. 2017;96(6). doi:10.1103/PhysRevE.96.060401
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2017 | Journal Article | IST-REx-ID: 947   OA
De Martino D, Capuani F, De Martino A. Quantifying the entropic cost of cellular growth control. Physical Review E Statistical Nonlinear and Soft Matter Physics . 2017;96(1). doi:10.1103/PhysRevE.96.010401
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2017 | Journal Article | IST-REx-ID: 959   OA
De Martino D. Scales and multimodal flux distributions in stationary metabolic network models via thermodynamics. Physical Review E Statistical Nonlinear and Soft Matter Physics . 2017;95(6):062419. doi:10.1103/PhysRevE.95.062419
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2017 | Journal Article | IST-REx-ID: 613   OA
Chait RP, Ruess J, Bergmiller T, Tkacik G, Guet CC. Shaping bacterial population behavior through computer interfaced control of individual cells. Nature Communications. 2017;8(1). doi:10.1038/s41467-017-01683-1
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2017 | Conference Paper | IST-REx-ID: 652
Der R, Martius GS. Dynamical self consistency leads to behavioral development and emergent social interactions in robots. In: IEEE; 2017. doi:10.1109/DEVLRN.2016.7846789
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2017 | Journal Article | IST-REx-ID: 823   OA
Colabrese S, De Martino D, Leuzzi L, Marinari E. Phase transitions in integer linear problems. Journal of Statistical Mechanics: Theory and Experiment. 2017;2017(9). doi:10.1088/1742-5468/aa85c3
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2017 | Journal Article | IST-REx-ID: 993   OA
Levina (Martius) A, Priesemann V. Subsampling scaling. Nature Communications. 2017;8. doi:10.1038/ncomms15140
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2017 | Journal Article | IST-REx-ID: 943   OA
Zagórski MP, Tabata Y, Brandenberg N, et al. Decoding of position in the developing neural tube from antiparallel morphogen gradients. Science. 2017;356(6345):1379-1383. doi:10.1126/science.aam5887
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2017 | Journal Article | IST-REx-ID: 955   OA
Friedlander T, Prizak R, Barton NH, Tkacik G. Evolution of new regulatory functions on biophysically realistic fitness landscapes. Nature Communications. 2017;8(1). doi:10.1038/s41467-017-00238-8
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2017 | Journal Article | IST-REx-ID: 658   OA
Der R, Martius GS. Self organized behavior generation for musculoskeletal robots. Frontiers in Neurorobotics. 2017;11(MAR). doi:10.3389/fnbot.2017.00008
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2017 | Journal Article | IST-REx-ID: 2016
Martin Del Campo Sanchez A, Cepeda Humerez SA, Uhler C. Exact goodness-of-fit testing for the Ising model. Scandinavian Journal of Statistics. 2017;44(2):285-306. doi:10.1111/sjos.12251
View | Files available | DOI | Download (ext.) | arXiv
 
2017 | Journal Article | IST-REx-ID: 730
Savin C, Tkacik G. Maximum entropy models as a tool for building precise neural controls. Current Opinion in Neurobiology. 2017;46:120-126. doi:10.1016/j.conb.2017.08.001
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2017 | Journal Article | IST-REx-ID: 735
Barone V, Lang M, Krens G, et al. An effective feedback loop between cell-cell contact duration and morphogen signaling determines cell fate. Developmental Cell. 2017;43(2):198-211. doi:10.1016/j.devcel.2017.09.014
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2017 | Journal Article | IST-REx-ID: 665
Bergmiller T, Andersson AM, Tomasek K, et al. Biased partitioning of the multidrug efflux pump AcrAB TolC underlies long lived phenotypic heterogeneity. Science. 2017;356(6335):311-315. doi:10.1126/science.aaf4762
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2017 | Journal Article | IST-REx-ID: 1007   OA
Lang M, Sontag E. Zeros of nonlinear systems with input invariances. Automatica. 2017;81C:46-55. doi:10.1016/j.automatica.2017.03.030
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2017 | Journal Article | IST-REx-ID: 680   OA
Chalk MJ, Masset P, Gutkin B, Denève S. Sensory noise predicts divisive reshaping of receptive fields. PLoS Computational Biology. 2017;13(6). doi:10.1371/journal.pcbi.1005582
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2017 | Journal Article | IST-REx-ID: 666   OA
Mitosch K, Rieckh G, Bollenbach T. Noisy response to antibiotic stress predicts subsequent single cell survival in an acidic environment. Cell Systems. 2017;4(4):393-403. doi:10.1016/j.cels.2017.03.001
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2016 | Thesis | IST-REx-ID: 1128
Rieckh G. Studying the Complexities of Transcriptional Regulation. IST Austria; 2016.
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2016 | Conference Paper | IST-REx-ID: 1320
Lang M, Sontag E. Scale-invariant systems realize nonlinear differential operators. In: Vol 2016-July. IEEE; 2016. doi:10.1109/ACC.2016.7526722
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2016 | Journal Article | IST-REx-ID: 1332   OA
Chait RP, Palmer A, Yelin I, Kishony R. Pervasive selection for and against antibiotic resistance in inhomogeneous multistress environments. Nature Communications. 2016;7. doi:10.1038/ncomms10333
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