GT
Gasper Tkacik
q-bio.MNq-bio.NCModels, Geneticphysics.bio-phModels, Neurologicalneurosciencecond-mat.stat-mechGene Regulatory NetworksGene Expression RegulationModels, Biological
On Valency
published · living versionsW_6uv2jkb5·v1 · currentpublished
Thermodynamics for a network of neurons: Signatures of criticality
with Thierry Mora, Olivier Marre, Dario Amodei, Michael J. Berry +1
1 version
Preprints & journals
169 papers in the corpus · 2006–2026Stable and robust differentiation programs are predominantly irreversible10.64898/2026.07.30.741799v1 · Mani, S., Tkacik, G.2026 · 0 citationsbioRxiv
Nonlocal Decoding of Positional and Correlational Information during Development.42537083 · Zhang, Alex Chen Yi, Hoyos, Pablo Mateu, Brückner, David et al.2026 · 0 citationsPhysical review letters. 2026;137(3):038401
Long-term evolution of regulatory DNA sequences. Part 1: simulations on global, biophysically-realistic genotype-phenotype maps.42107304 · Mascolo, Elia, Borbély, Réka, Herrera-Álvarez, Santiago et al.2026 · 0 citationsCurrent opinion in genetics & development. 2026;99:102483
Long-term evolution of regulatory DNA sequences. Part 2: theory and future challenges.41985221 · Mascolo, Elia, Borbély, Réka, Borst, Noa O et al.2026 · 1 citationCurrent opinion in genetics & development. 2026;98:102472
Invariant nonequilibrium dynamics in gene regulation optimize information flow.42406962 · Zoller, Benjamin, Bénichou, Alexis, Gregor, Thomas et al.2026 · 0 citationsProceedings of the National Academy of Sciences of the United States of America. 2026;123(28):e2524855123
Intrinsic Population Dynamics are a Neuronal Substrate for Visual Attention10.64898/2026.06.02.729565v1 · Schmidt, F. H., Mlynarski, W., Georges, A. et al.2026 · 0 citationsbioRxiv
The scaling behavior of hippocampal activity in sleep/rest predicts spatial memory performance10.64898/2026.03.11.711043v2 · Zivadinovic, P., Lombardi, F., Dupret, D. et al.2026 · 0 citationsbioRxiv
Long-term evolution of regulatory DNA sequences. Part 2: Theory and future challenges2601.21480v1 · Elia Mascolo, R'eka Borb'ely, Noa Ottilie Borst et al.2026 · 1 citationarXiv
Long-term evolution of regulatory DNA sequences. Part 1: Simulations on global, biophysically-realistic genotype-phenotype maps2601.19681v1 · Elia Mascolo, R'eka Borb'ely, Santiago Herrera-'Alvarez et al.2026 · 0 citationsarXiv
Nonlocal decoding of positional and correlational information during development2512.20536v1 · Alex Chen Yi Zhang, Pablo Mateu Hoyos, David Bruckner et al.2025 · 0 citationsarXiv
Invariant non-equilibrium dynamics of transcriptional regulation optimize information flow.40709307 · Zoller, Benjamin, Bénichou, Alexis, Gregor, Thomas et al.2025 · 0 citationsArXiv. 2025
Invariant non-equilibrium dynamics of transcriptional regulation optimize information flow2507.12395v1 · Benjamin Zoller, Alexis B'enichou, Thomas Gregor et al.2025 · 0 citationsarXiv
Token-driven totally asymmetric simple exclusion processes.40533952 · Kavčič, Bor, Tkačik, Gašper2025 · 2 citationsPhysical review. E. 2025;111(5-1):054122
Evolution and information content of optimal gene regulatory architectures10.1101/2025.06.10.657849v1 · Barton, N. H., Tkacik, G.2025 · 2 citationsbioRxiv
Regulatory architectures optimized for rapid evolution of gene expression10.1101/2025.06.10.658850v1 · Borbely, R., Tkacik, G.2025 · 1 citationbioRxiv
Eukaryotic gene regulation at equilibrium, or non?36590072 · Zoller, Benjamin, Gregor, Thomas, Tkačik, Gašper2025 · 37 citationsCurrent opinion in systems biology. 2022;31
Pulsatile basal gene expression as a fitness determinant in bacteria.40193613 · Jain, K, Hauschild, R, Bochkareva, O O et al.2025 · 4 citationsProceedings of the National Academy of Sciences of the United States of America. 2025;122(15):e2413709122
Learning reshapes the hippocampal representation hierarchy.40063792 · Chiossi, Heloisa S C, Nardin, Michele, Tkačik, Gašper et al.2025 · 7 citationsProceedings of the National Academy of Sciences of the United States of America. 2025;122(11):e2417025122
Information Processing in Biochemical Networks.39929539 · Tkačik, Gašper, Wolde, Pieter Rein Ten2025 · 26 citationsAnnual review of biophysics. 2025;54(1):249-274
Linking molecular mechanisms to their evolutionary consequences: a primer.39601269 · Grah, Rok, Guet, Calin C, Tkačik, Gasper et al.2025 · 5 citationsGenetics. 2025;229(2)
Thermodynamics for a network of neurons: Signatures of criticality1407.5946v1 · Gasper Tkacik, Thierry Mora, Olivier Marre et al.2014 · 23 citationsProceedings of the National Academy of Sciences (USA)112, 11508-11513 (2015)on Valency
Token-driven totally asymmetric simple exclusion process2112.13558v3 · Bor Kavcic, Gasper Tkacik2021 · 1 citationarXiv
Chromatin enables precise and scalable gene regulation with factors of limited specificity.39793086 · Perkins, Mindy Liu, Crocker, Justin, Tkačik, Gašper2025 · 12 citationsProceedings of the National Academy of Sciences of the United States of America. 2025;122(1):e2411887121
Deriving a genetic regulatory network from an optimization principle.39752518 · Sokolowski, Thomas R, Gregor, Thomas, Bialek, William et al.2025 · 26 citationsProceedings of the National Academy of Sciences of the United States of America. 2025;122(1):e2402925121
Quantitative omnigenic model discovers interpretable genome-wide associations.39441639 · Ružičková, Natália, Hledík, Michal, Tkačik, Gašper2024 · 10 citationsProceedings of the National Academy of Sciences of the United States of America. 2024;121(44):e2402340121
Pulsatile basal gene expression as a fitness determinant in bacteria10.1101/2024.09.30.615870v1 · Jain, K., Hauschild, R., Bochkareva, O. O. et al.2024 · 4 citationsbioRxiv
Quantitative omnigenic model discovers interpretable genome-wide associations10.1101/2024.02.01.578486v2 · Ruzickova, N., Hledik, M., Tkacik, G.2024 · 10 citationsbioRxiv
Learning reshapes the hippocampal representation hierarchy10.1101/2024.08.21.608911v1 · Chiossi, H. S. C., Nardin, M., Tkacik, G. et al.2024 · 7 citationsbioRxiv
Linking Molecular Mechanisms to their Evolutionary Consequences: a primer10.1101/2024.07.18.604043v1 · Grah, R., Guet, C. C., Tkacik, G. et al.2024 · 5 citationsbioRxiv
Chromatin enables precise and scalable gene regulation with factors of limited specificity10.1101/2024.06.13.598840v1 · Perkins, M. L., Crocker, J., Tkacik, G.2024 · 12 citationsbioRxiv
Information content and optimization of self-organized developmental systems.38819997 · Brückner, David B, Tkačik, Gašper2024 · 24 citationsProceedings of the National Academy of Sciences of the United States of America. 2024;121(23):e2322326121
Clustering of Neural Activity: A Design Principle for Population Codes.32231528 · Berry, Michael J, Tkačik, Gašper2024 · 15 citationsFrontiers in computational neuroscience. 2020;14:20
Assessing the precision of morphogen gradients in neural tube development.38302459 · Zagorski, Marcin, Brandenberg, Nathalie, Lutolf, Matthias et al.2024 · 6 citationsNature communications. 2024;15(1):929
Optimal decoding of information from a genetic network1612.08084v1 · Mariela D. Petkova, Gasper Tkacik, William Bialek et al.2016 · 215 citationsCell 176, 844 (2019)
Statistical modeling of adaptive neural networks explains co-existence of avalanches and oscillations in resting human brain.38177880 · Lombardi, Fabrizio, Pepić, Selver, Shriki, Oren et al.2024 · 45 citationsNature computational science. 2023;3(3):254-263
Information content and optimization of self-organized developmental systems2312.05895v2 · David B. Bruckner, Gasper Tkacik2023 · 24 citationsarXiv
Deriving a genetic regulatory network from an optimization principle2302.05680v2 · Thomas R Sokolowski, Thomas Gregor, William Bialek et al.2023 · 26 citationsarXiv
The Structure of Hippocampal CA1 Interactions Optimizes Spatial Coding across Experience.37758476 · Nardin, Michele, Csicsvari, Jozsef, Tkačik, Gašper et al.2023 · 11 citationsThe Journal of neuroscience : the official journal of the Society for Neuroscience. 2023;43(48):8140-8156
Path Weight Sampling: Exact Monte Carlo Computation of the Mutual Information between Stochastic Trajectories2203.03461v2 · Manuel Reinhardt, Gasper Tkacik, Pieter Rein ten Wolde2022 · 20 citationsPhys. Rev. X 13 (2023) 041017
Dynamic pathogen detection and social feedback shape collective hygiene in ants.37270641 · Casillas-Pérez, Barbara, Boďová, Katarína, Grasse, Anna V et al.2023 · 14 citationsNature communications. 2023;14(1):3232
Efficient coding theory of dynamic attentional modulation.36542662 · Młynarski, Wiktor, Tkačik, Gašper2023 · 18 citationsPLoS biology. 2022;20(12):e3001889
Accumulation and maintenance of information in evolution.36037343 · Hledík, Michal, Barton, Nick, Tkačik, Gašper2022 · 29 citationsProceedings of the National Academy of Sciences of the United States of America. 2022;119(36):e2123152119
Statistical modeling of adaptive neural networks explains coexistence of avalanches and oscillations in resting human brain2108.06686v2 · Fabrizio Lombardi, Selver Pepi'c, Oren Shriki et al.2021 · 1 citationarXiv
Accumulation and maintenance of information in evolution10.1101/2021.12.23.473971v2 · Hledik, M., Barton, N. H., Tkacik, G.2021 · 29 citationsbioRxiv
Discrete modes of social information processing predict individual behavior of fish in a group1703.03065v1 · Roy Harpaz, Gasper Tkacik, Elad Schneidman2017 · 56 citationsarXivon Valency
Limited specificity of molecular interactions incurs an environment-dependent fitness cost in bacteria10.1101/2021.10.20.465141v1 · Igler, C., Fourcade, C., Waldminghaus, T. et al.2021 · 2 citationsbioRxiv
Eukaryotic gene regulation at equilibrium, or non?2110.06214v1 · Benjamin Zoller, Thomas Gregor, Gasper Tkacik2021 · 37 citationsarXiv
The structure of hippocampal CA1 interactions optimizes spatial coding across experience10.1101/2021.09.28.460602v1 · Nardin, M., Csicsvari, J., Tkacik, G. et al.2021 · 11 citationsbioRxiv
Inferring the function performed by a recurrent neural network.33857170 · Chalk, Matthew, Tkacik, Gasper, Marre, Olivier2021 · 8 citationsPloS one. 2021;16(4):e0248940
Minimal biophysical model of combined antibiotic action.33411759 · Kavčič, Bor, Tkačik, Gašper, Bollenbach, Tobias2021 · 13 citationsPLoS computational biology. 2021;17(1):e1008529
Career total: 172 works. 169 are in this corpus.Showing the 50 most recent.
Profile built from the corpus for this byline.
Author records are still filling in while the Hub is in alpha. If this is your page, you'll be able to claim it soon. Spot a mistake? Tell us.