75 Publications

Mark all

[75]
2019 | Preprint | IST-REx-ID: 7083   OA
Mechanistic origin of drug interactions between translation-inhibiting antibiotics
B. Kavcic, G. Tkačik, T. Bollenbach, BioRxiv (2019).
View | Download (ext.)
 
[74]
2019 | Journal Article | IST-REx-ID: 5945
Optimal decoding of cellular identities in a genetic network
M.D. Petkova, G. Tkacik, W. Bialek, E.F. Wieschaus, T. Gregor, Cell 176 (2019) 844–855.e15.
View | Files available | DOI
 
[73]
2019 | Journal Article | IST-REx-ID: 6784   OA
Molecular noise of innate immunity shapes bacteria-phage ecologies
J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, PLoS Computational Biology 15 (2019).
View | Files available | DOI
 
[72]
2019 | Journal Article | IST-REx-ID: 6900   OA
Estimating information in time-varying signals
S.A. Cepeda Humerez, J. Ruess, G. Tkačik, PLoS Computational Biology 15 (2019) e1007290.
View | Files available | DOI | PubMed | Europe PMC
 
[71]
2018 | Journal Article | IST-REx-ID: 31   OA
Separating intrinsic interactions from extrinsic correlations in a network of sensory neurons
U. Ferrari, S. Deny, M.J. Chalk, G. Tkacik, O. Marre, T. Mora, Physical Review E 98 (2018).
View | DOI | Download (ext.)
 
[70]
2018 | Journal Article | IST-REx-ID: 543   OA
Toward a unified theory of efficient, predictive, and sparse coding
M.J. Chalk, O. Marre, G. Tkacik, PNAS 115 (2018) 186–191.
View | DOI | Download (ext.)
 
[69]
2018 | Research Data | IST-REx-ID: 5587   OA
Supporting materials "STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH"
D. De Martino, G. Tkacik, Supporting Materials “STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH,” IST Austria, 2018.
View | Files available | DOI
 
[68]
2018 | Journal Article | IST-REx-ID: 67
Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkacik, J.P. Bollback, C.C. Guet, Nature Ecology and Evolution 2 (2018) 1633–1643.
View | Files available | DOI
 
[67]
2018 | Journal Article | IST-REx-ID: 292
Nonlinear decoding of a complex movie from the mammalian retina
V. Botella Soler, S. Deny, G.S. Martius, O. Marre, G. Tkacik, PLoS Computational Biology 14 (2018).
View | Files available | DOI
 
[66]
2018 | Research Data | IST-REx-ID: 5584   OA
Nonlinear decoding of a complex movie from the mammalian retina
S. Deny, O. Marre, V. Botella-Soler, G.S. Martius, G. Tkacik, Nonlinear Decoding of a Complex Movie from the Mammalian Retina, IST Austria, 2018.
View | Files available | DOI
 
[65]
2018 | Journal Article | IST-REx-ID: 406   OA
Probabilistic models of individual and collective animal behavior
K. Bod’Ová, G. Mitchell, R. Harpaz, E. Schneidman, G. Tkacik, PLoS One 13 (2018).
View | Files available | DOI
 
[64]
2018 | Journal Article | IST-REx-ID: 161
Statistical mechanics for metabolic networks during steady state growth
D. De Martino, A.A. Mc, T. Bergmiller, C.C. Guet, G. Tkacik, Nature Communications 9 (2018).
View | Files available | DOI
 
[63]
2018 | Journal Article | IST-REx-ID: 281
Distributed and dynamic intracellular organization of extracellular information
A. Granados, J. Pietsch, S.A. Cepeda Humerez, I. Farquhar, G. Tkacik, P. Swain, PNAS 115 (2018) 6088–6093.
View | Files available | DOI | Download (ext.) | PubMed | Europe PMC
 
[62]
2018 | Research Data | IST-REx-ID: 5585
Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkacik, J.P. Bollback, C.C. Guet, Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring, IST Austria, 2018.
View | Files available | DOI
 
[61]
2017 | Journal Article | IST-REx-ID: 1104   OA
Multiplexed computations in retinal ganglion cells of a single type
S. Deny, U. Ferrari, E. Mace, P. Yger, R. Caplette, S. Picaud, G. Tkacik, O. Marre, Nature Communications 8 (2017).
View | Files available | DOI
 
[60]
2017 | Research Data | IST-REx-ID: 5562   OA
Multi-electrode array recording from salamander retinal ganglion cells
O. Marre, G. Tkacik, D. Amodei, E. Schneidman, W. Bialek, M. Berry, Multi-Electrode Array Recording from Salamander Retinal Ganglion Cells, IST Austria, 2017.
View | Files available | DOI
 
[59]
2017 | Journal Article | IST-REx-ID: 725   OA
Discrete modes of social information processing predict individual behavior of fish in a group
R. Harpaz, G. Tkacik, E. Schneidman, PNAS 114 (2017) 10149–10154.
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[58]
2017 | Journal Article | IST-REx-ID: 720   OA View | Files available | DOI
 
[57]
2017 | Journal Article | IST-REx-ID: 613   OA
Shaping bacterial population behavior through computer interfaced control of individual cells
R.P. Chait, J. Ruess, T. Bergmiller, G. Tkacik, C.C. Guet, Nature Communications 8 (2017).
View | Files available | DOI
 
[56]
2017 | Journal Article | IST-REx-ID: 943   OA
Decoding of position in the developing neural tube from antiparallel morphogen gradients
M.P. Zagórski, Y. Tabata, N. Brandenberg, M. Lutolf, G. Tkacik, T. Bollenbach, J. Briscoe, A. Kicheva, Science 356 (2017) 1379–1383.
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[55]
2017 | Journal Article | IST-REx-ID: 955   OA
Evolution of new regulatory functions on biophysically realistic fitness landscapes
T. Friedlander, R. Prizak, N.H. Barton, G. Tkacik, Nature Communications 8 (2017).
View | Files available | DOI
 
[54]
2017 | Research Data | IST-REx-ID: 5560
Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity
T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkacik, C.C. Guet, Biased Partitioning of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity, IST Austria, 2017.
View | Files available | DOI
 
[53]
2017 | Journal Article | IST-REx-ID: 665
Biased partitioning of the multidrug efflux pump AcrAB TolC underlies long lived phenotypic heterogeneity
T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkacik, C.C. Guet, Science 356 (2017) 311–315.
View | Files available | DOI
 
[52]
2017 | Journal Article | IST-REx-ID: 730
Maximum entropy models as a tool for building precise neural controls
C. Savin, G. Tkacik, Current Opinion in Neurobiology 46 (2017) 120–126.
View | DOI
 
[51]
2016 | Journal Article | IST-REx-ID: 1197   OA
Error-robust modes of the retinal population code
J. Prentice, O. Marre, M. Ioffe, A. Loback, G. Tkacik, M. Berry, PLoS Computational Biology 12 (2016).
View | Files available | DOI
 
[50]
2016 | Journal Article | IST-REx-ID: 1248   OA
Information processing in living systems
G. Tkacik, W. Bialek, Annual Review of Condensed Matter Physics 7 (2016) 89–117.
View | DOI | Download (ext.)
 
[49]
2016 | Conference Paper | IST-REx-ID: 1105
Estimating nonlinear neural response functions using GP priors and Kronecker methods
C. Savin, G. Tkacik, in:, Neural Information Processing Systems, 2016, pp. 3610–3618.
View | Download (ext.)
 
[48]
2016 | Journal Article | IST-REx-ID: 1270   OA View | Files available | DOI
 
[47]
2016 | Journal Article | IST-REx-ID: 1358
Intrinsic limits to gene regulation by global crosstalk
T. Friedlander, R. Prizak, C.C. Guet, N.H. Barton, G. Tkacik, Nature Communications 7 (2016).
View | Files available | DOI
 
[46]
2016 | Conference Paper | IST-REx-ID: 1082   OA
Relevant sparse codes with variational information bottleneck
M.J. Chalk, O. Marre, G. Tkacik, in:, Neural Information Processing Systems, 2016, pp. 1965–1973.
View | Files available | Download (ext.)
 
 
[44]
2016 | Journal Article | IST-REx-ID: 1242   OA
Extending the dynamic range of transcription factor action by translational regulation
T.R. Sokolowski, A. Walczak, W. Bialek, G. Tkacik, Physical Review E Statistical Nonlinear and Soft Matter Physics 93 (2016).
View | DOI | Download (ext.)
 
[43]
2016 | Journal Article | IST-REx-ID: 1420   OA
A general approximation for the dynamics of quantitative traits
K. Bod’ová, G. Tkacik, N.H. Barton, Genetics 202 (2016) 1523–1548.
View | DOI | Download (ext.) | arXiv
 
[42]
2015 | Journal Article | IST-REx-ID: 1666   OA
Dynamics of transcription factor binding site evolution
M. Tugrul, T. Paixao, N.H. Barton, G. Tkacik, PLoS Genetics 11 (2015).
View | Files available | DOI
 
[41]
2015 | Journal Article | IST-REx-ID: 1697   OA
High accuracy decoding of dynamical motion from a large retinal population
O. Marre, V. Botella Soler, K. Simmons, T. Mora, G. Tkacik, M. Berry, PLoS Computational Biology 11 (2015).
View | Files available | DOI
 
[40]
2015 | Journal Article | IST-REx-ID: 1940   OA
Optimizing information flow in small genetic networks. IV. Spatial coupling
T.R. Sokolowski, G. Tkacik, Physical Review E Statistical Nonlinear and Soft Matter Physics 91 (2015).
View | DOI | Download (ext.)
 
[39]
2015 | Journal Article | IST-REx-ID: 1701   OA
Thermodynamics and signatures of criticality in a network of neurons
G. Tkacik, T. Mora, O. Marre, D. Amodei, S. Palmer, M. Berry Ii, W. Bialek, PNAS 112 (2015) 11508–11513.
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[38]
2015 | Journal Article | IST-REx-ID: 1885   OA
Positional information, positional error, and readout precision in morphogenesis: A mathematical framework
G. Tkacik, J. Dubuis, M. Petkova, T. Gregor, Genetics 199 (2015) 39–59.
View | DOI | Download (ext.)
 
[37]
2015 | Journal Article | IST-REx-ID: 1576
Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation
S.A. Cepeda Humerez, G. Rieckh, G. Tkacik, Physical Review Letters 115 (2015).
View | Files available | DOI | Download (ext.)
 
[36]
2014 | Journal Article | IST-REx-ID: 3263   OA
Adaptation to changes in higher-order stimulus statistics in the salamander retina
G. Tkacik, A. Ghosh, E. Schneidman, R. Segev, PLoS One 9 (2014).
View | Files available | DOI
 
[35]
2014 | Journal Article | IST-REx-ID: 2231   OA
Noise and information transmission in promoters with multiple internal states
G. Rieckh, G. Tkacik, Biophysical Journal 106 (2014) 1194–1204.
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[34]
2014 | Journal Article | IST-REx-ID: 1886   OA
Variance predicts salience in central sensory processing
A. Hermundstad, J. Briguglio, M. Conte, J. Victor, V. Balasubramanian, G. Tkacik, ELife (2014).
View | Files available | DOI
 
[33]
2014 | Journal Article | IST-REx-ID: 2257
Searching for collective behavior in a large network of sensory neurons
G. Tkacik, O. Marre, D. Amodei, E. Schneidman, W. Bialek, M. Berry, PLoS Computational Biology 10 (2014).
View | Files available | DOI | Download (ext.)
 
[32]
2013 | Journal Article | IST-REx-ID: 2277   OA
Transformation of stimulus correlations by the retina
K. Simmons, J. Prentice, G. Tkacik, J. Homann, H. Yee, S. Palmer, P. Nelson, V. Balasubramanian, PLoS Computational Biology 9 (2013).
View | Files available | DOI
 
[31]
2013 | Journal Article | IST-REx-ID: 2913   OA
Retinal metric: a stimulus distance measure derived from population neural responses
G. Tkacik, E. Granot Atedgi, R. Segev, E. Schneidman, Physical Review Letters 110 (2013).
View | DOI | Download (ext.)
 
[30]
2013 | Journal Article | IST-REx-ID: 2850   OA
The simplest maximum entropy model for collective behavior in a neural network
G. Tkacik, O. Marre, T. Mora, D. Amodei, M. Berry, W. Bialek, Journal of Statistical Mechanics Theory and Experiment 2013 (2013).
View | DOI | Download (ext.) | arXiv
 
[29]
2013 | Journal Article | IST-REx-ID: 2851
A simple method for estimating the entropy of neural activity
M. Berry, G. Tkacik, J. Dubuis, O. Marre, R. Da Silveira, Journal of Statistical Mechanics Theory and Experiment 2013 (2013).
View | DOI
 
[28]
2013 | Journal Article | IST-REx-ID: 2818   OA
Learning quadratic receptive fields from neural responses to natural stimuli
K. Rajan, O. Marre, G. Tkacik, Neural Computation 25 (2013) 1661–1692.
View | DOI | Download (ext.) | arXiv
 
[27]
2013 | Journal Article | IST-REx-ID: 2863   OA
Stimulus-dependent maximum entropy models of neural population codes
E. Granot Atedgi, G. Tkacik, R. Segev, E. Schneidman, PLoS Computational Biology 9 (2013).
View | Files available | DOI
 
[26]
2013 | Journal Article | IST-REx-ID: 2914   OA
Statistical thermodynamics of natural images
G. Stephens, T. Mora, G. Tkacik, W. Bialek, Physical Review Letters 110 (2013).
View | Files available | DOI | Download (ext.) | arXiv
 
[25]
2013 | Journal Article | IST-REx-ID: 3261   OA
Positional information, in bits
J. Dubuis, G. Tkacik, E. Wieschaus, T. Gregor, W. Bialek, PNAS 110 (2013) 16301–16308.
View | Files available | DOI | PubMed | Europe PMC
 
[24]
2012 | Journal Article | IST-REx-ID: 3262   OA
Optimizing information flow in small genetic networks. III. A self-interacting gene
G. Tkacik, A. Walczak, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 85 (2012).
View | DOI | Download (ext.)
 
[23]
2011 | Journal Article | IST-REx-ID: 3276   OA
Fast, scalable, Bayesian spike identification for multi-electrode arrays
J. Prentice, J. Homann, K. Simmons, G. Tkacik, V. Balasubramanian, P. Nelson, PLoS One 6 (2011).
View | Files available | DOI
 
[22]
2011 | Journal Article | IST-REx-ID: 3384   OA
Natural images from the birthplace of the human eye
G. Tkacik, P. Garrigan, C. Ratliff, G. Milcinski, J. Klein, L. Seyfarth, P. Sterling, D. Brainard, V. Balasubramanian, PLoS One 6 (2011).
View | Files available | DOI
 
[21]
2011 | Journal Article | IST-REx-ID: 3401
The formation of the Bicoid morphogen gradient requires protein movement from anteriorly localized source
S. Little, G. Tkacik, T. Kneeland, E. Wieschaus, T. Gregor, PLoS Biology 9 (2011).
View | DOI
 
[20]
2011 | Journal Article | IST-REx-ID: 3374   OA
Information transmission in genetic regulatory networks a review
G. Tkacik, A. Walczak, Journal of Physics: Condensed Matter 23 (2011).
View | DOI | Download (ext.)
 
[19]
2010 | Conference Paper | IST-REx-ID: 3430   OA View | Download (ext.)
 
[18]
2010 | Journal Article | IST-REx-ID: 3738
Optimizing information flow in small genetic networks. II. Feed-forward interactions
A. Walczak, G. Tkacik, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 81 (2010).
View | DOI | Download (ext.)
 
[17]
2010 | Journal Article | IST-REx-ID: 3735
Local statistics in natural scenes predict the saliency of synthetic textures
G. Tkacik, J. Prentice, J. Victor, V. Balasubramanian, PNAS 107 (2010) 18149–18154.
View | DOI | Download (ext.)
 
[16]
2010 | Journal Article | IST-REx-ID: 3736
Optimal population coding by noisy spiking neurons
G. Tkacik, J. Prentice, V. Balasubramanian, E. Schneidman, PNAS 107 (2010) 14419–14424.
View | DOI | Download (ext.)
 
[15]
 
[14]
2009 | Preprint | IST-REx-ID: 3732   OA
Spin glass models for a network of real neurons
G. Tkacik, E. Schneidman, M. Berry, W. Bialek, ArXiv q-NC (2009).
View | Download (ext.)
 
[13]
2009 | Journal Article | IST-REx-ID: 3737
Optimizing information flow in small genetic networks
G. Tkacik, A. Walczak, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 80 (2009).
View | DOI | Download (ext.)
 
[12]
2009 | Journal Article | IST-REx-ID: 3745
Diffusion, dimensionality, and noise in transcriptional regulation
G. Tkacik, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 79 (2009).
View | DOI
 
[11]
2009 | Journal Article | IST-REx-ID: 3733
The dynamics of adaptation on correlated fitness landscapes
S. Kryazhimskiy, G. Tkacik, J. Plotkin, PNAS 106 (2009) 18638–18643.
View | DOI | Download (ext.)
 
[10]
2009 | Book Chapter | IST-REx-ID: 3747
Cell Biology: Networks, regulation, pathways
G. Tkacik, W. Bialek, in:, R. Meyers (Ed.), Encyclopedia of Complexity and Systems Science, Springer, 2009, pp. 719–741.
View | DOI
 
[9]
2008 | Journal Article | IST-REx-ID: 3744   OA
Decoding spike timing: The differential reverse-correlation method
G. Tkacik, M. Magnasco, Biosystems 93 (2008) 90–100.
View | DOI | Download (ext.)
 
[8]
2008 | Journal Article | IST-REx-ID: 3740   OA
Information flow and optimization in transcriptional regulation
G. Tkacik, C. Callan, W. Bialek, PNAS 105 (2008) 12265–12270.
View | DOI | Download (ext.)
 
[7]
2008 | Journal Article | IST-REx-ID: 3734   OA
The role of input noise in transcriptional regulation
G. Tkacik, T. Gregor, W. Bialek, PLoS One 3 (2008).
View | DOI | Download (ext.)
 
[6]
2008 | Journal Article | IST-REx-ID: 3739
Information capacity of genetic regulatory elements
G. Tkacik, C. Callan, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 78 (2008).
View | DOI
 
[5]
2007 | Preprint | IST-REx-ID: 3742   OA
Faster solutions of the inverse pairwise Ising problem
T. Broderick, M. Dudik, G. Tkacik, R. Schapire, W. Bialek, ArXiv q-QM (2007).
View | Download (ext.)
 
[4]
2007 | Journal Article | IST-REx-ID: 3731
Precise physical models of protein-DNA interaction from high-throughput data
J. Kinney, G. Tkacik, C. Callan, PNAS 104 (2007) 501–506.
View | DOI | Download (ext.)
 
[3]
2006 | Preprint | IST-REx-ID: 3431   OA
Ising models for networks of real neurons
G. Tkacik, E. Schneidman, M. Berry, W. Bialek, ArXiv (2006) 1–4.
View | Download (ext.)
 
[2]
2005 | Journal Article | IST-REx-ID: 3741   OA
Information-based clustering
N. Slonim, G. Atwal, G. Tkacik, W. Bialek, PNAS 102 (2005) 18297–18302.
View | DOI | Download (ext.)
 
[1]
2005 | Preprint | IST-REx-ID: 3746   OA
Estimating mutual information and multi-information in large networks
N. Slonim, G. Atwal, G. Tkacik, W. Bialek, ArXiv (2005) 1–11.
View | Download (ext.)
 

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75 Publications

Mark all

[75]
2019 | Preprint | IST-REx-ID: 7083   OA
Mechanistic origin of drug interactions between translation-inhibiting antibiotics
B. Kavcic, G. Tkačik, T. Bollenbach, BioRxiv (2019).
View | Download (ext.)
 
[74]
2019 | Journal Article | IST-REx-ID: 5945
Optimal decoding of cellular identities in a genetic network
M.D. Petkova, G. Tkacik, W. Bialek, E.F. Wieschaus, T. Gregor, Cell 176 (2019) 844–855.e15.
View | Files available | DOI
 
[73]
2019 | Journal Article | IST-REx-ID: 6784   OA
Molecular noise of innate immunity shapes bacteria-phage ecologies
J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, PLoS Computational Biology 15 (2019).
View | Files available | DOI
 
[72]
2019 | Journal Article | IST-REx-ID: 6900   OA
Estimating information in time-varying signals
S.A. Cepeda Humerez, J. Ruess, G. Tkačik, PLoS Computational Biology 15 (2019) e1007290.
View | Files available | DOI | PubMed | Europe PMC
 
[71]
2018 | Journal Article | IST-REx-ID: 31   OA
Separating intrinsic interactions from extrinsic correlations in a network of sensory neurons
U. Ferrari, S. Deny, M.J. Chalk, G. Tkacik, O. Marre, T. Mora, Physical Review E 98 (2018).
View | DOI | Download (ext.)
 
[70]
2018 | Journal Article | IST-REx-ID: 543   OA
Toward a unified theory of efficient, predictive, and sparse coding
M.J. Chalk, O. Marre, G. Tkacik, PNAS 115 (2018) 186–191.
View | DOI | Download (ext.)
 
[69]
2018 | Research Data | IST-REx-ID: 5587   OA
Supporting materials "STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH"
D. De Martino, G. Tkacik, Supporting Materials “STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH,” IST Austria, 2018.
View | Files available | DOI
 
[68]
2018 | Journal Article | IST-REx-ID: 67
Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkacik, J.P. Bollback, C.C. Guet, Nature Ecology and Evolution 2 (2018) 1633–1643.
View | Files available | DOI
 
[67]
2018 | Journal Article | IST-REx-ID: 292
Nonlinear decoding of a complex movie from the mammalian retina
V. Botella Soler, S. Deny, G.S. Martius, O. Marre, G. Tkacik, PLoS Computational Biology 14 (2018).
View | Files available | DOI
 
[66]
2018 | Research Data | IST-REx-ID: 5584   OA
Nonlinear decoding of a complex movie from the mammalian retina
S. Deny, O. Marre, V. Botella-Soler, G.S. Martius, G. Tkacik, Nonlinear Decoding of a Complex Movie from the Mammalian Retina, IST Austria, 2018.
View | Files available | DOI
 
[65]
2018 | Journal Article | IST-REx-ID: 406   OA
Probabilistic models of individual and collective animal behavior
K. Bod’Ová, G. Mitchell, R. Harpaz, E. Schneidman, G. Tkacik, PLoS One 13 (2018).
View | Files available | DOI
 
[64]
2018 | Journal Article | IST-REx-ID: 161
Statistical mechanics for metabolic networks during steady state growth
D. De Martino, A.A. Mc, T. Bergmiller, C.C. Guet, G. Tkacik, Nature Communications 9 (2018).
View | Files available | DOI
 
[63]
2018 | Journal Article | IST-REx-ID: 281
Distributed and dynamic intracellular organization of extracellular information
A. Granados, J. Pietsch, S.A. Cepeda Humerez, I. Farquhar, G. Tkacik, P. Swain, PNAS 115 (2018) 6088–6093.
View | Files available | DOI | Download (ext.) | PubMed | Europe PMC
 
[62]
2018 | Research Data | IST-REx-ID: 5585
Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkacik, J.P. Bollback, C.C. Guet, Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring, IST Austria, 2018.
View | Files available | DOI
 
[61]
2017 | Journal Article | IST-REx-ID: 1104   OA
Multiplexed computations in retinal ganglion cells of a single type
S. Deny, U. Ferrari, E. Mace, P. Yger, R. Caplette, S. Picaud, G. Tkacik, O. Marre, Nature Communications 8 (2017).
View | Files available | DOI
 
[60]
2017 | Research Data | IST-REx-ID: 5562   OA
Multi-electrode array recording from salamander retinal ganglion cells
O. Marre, G. Tkacik, D. Amodei, E. Schneidman, W. Bialek, M. Berry, Multi-Electrode Array Recording from Salamander Retinal Ganglion Cells, IST Austria, 2017.
View | Files available | DOI
 
[59]
2017 | Journal Article | IST-REx-ID: 725   OA
Discrete modes of social information processing predict individual behavior of fish in a group
R. Harpaz, G. Tkacik, E. Schneidman, PNAS 114 (2017) 10149–10154.
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[58]
2017 | Journal Article | IST-REx-ID: 720   OA View | Files available | DOI
 
[57]
2017 | Journal Article | IST-REx-ID: 613   OA
Shaping bacterial population behavior through computer interfaced control of individual cells
R.P. Chait, J. Ruess, T. Bergmiller, G. Tkacik, C.C. Guet, Nature Communications 8 (2017).
View | Files available | DOI
 
[56]
2017 | Journal Article | IST-REx-ID: 943   OA
Decoding of position in the developing neural tube from antiparallel morphogen gradients
M.P. Zagórski, Y. Tabata, N. Brandenberg, M. Lutolf, G. Tkacik, T. Bollenbach, J. Briscoe, A. Kicheva, Science 356 (2017) 1379–1383.
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[55]
2017 | Journal Article | IST-REx-ID: 955   OA
Evolution of new regulatory functions on biophysically realistic fitness landscapes
T. Friedlander, R. Prizak, N.H. Barton, G. Tkacik, Nature Communications 8 (2017).
View | Files available | DOI
 
[54]
2017 | Research Data | IST-REx-ID: 5560
Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity
T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkacik, C.C. Guet, Biased Partitioning of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity, IST Austria, 2017.
View | Files available | DOI
 
[53]
2017 | Journal Article | IST-REx-ID: 665
Biased partitioning of the multidrug efflux pump AcrAB TolC underlies long lived phenotypic heterogeneity
T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkacik, C.C. Guet, Science 356 (2017) 311–315.
View | Files available | DOI
 
[52]
2017 | Journal Article | IST-REx-ID: 730
Maximum entropy models as a tool for building precise neural controls
C. Savin, G. Tkacik, Current Opinion in Neurobiology 46 (2017) 120–126.
View | DOI
 
[51]
2016 | Journal Article | IST-REx-ID: 1197   OA
Error-robust modes of the retinal population code
J. Prentice, O. Marre, M. Ioffe, A. Loback, G. Tkacik, M. Berry, PLoS Computational Biology 12 (2016).
View | Files available | DOI
 
[50]
2016 | Journal Article | IST-REx-ID: 1248   OA
Information processing in living systems
G. Tkacik, W. Bialek, Annual Review of Condensed Matter Physics 7 (2016) 89–117.
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[49]
2016 | Conference Paper | IST-REx-ID: 1105
Estimating nonlinear neural response functions using GP priors and Kronecker methods
C. Savin, G. Tkacik, in:, Neural Information Processing Systems, 2016, pp. 3610–3618.
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[48]
2016 | Journal Article | IST-REx-ID: 1270   OA View | Files available | DOI
 
[47]
2016 | Journal Article | IST-REx-ID: 1358
Intrinsic limits to gene regulation by global crosstalk
T. Friedlander, R. Prizak, C.C. Guet, N.H. Barton, G. Tkacik, Nature Communications 7 (2016).
View | Files available | DOI
 
[46]
2016 | Conference Paper | IST-REx-ID: 1082   OA
Relevant sparse codes with variational information bottleneck
M.J. Chalk, O. Marre, G. Tkacik, in:, Neural Information Processing Systems, 2016, pp. 1965–1973.
View | Files available | Download (ext.)
 
 
[44]
2016 | Journal Article | IST-REx-ID: 1242   OA
Extending the dynamic range of transcription factor action by translational regulation
T.R. Sokolowski, A. Walczak, W. Bialek, G. Tkacik, Physical Review E Statistical Nonlinear and Soft Matter Physics 93 (2016).
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[43]
2016 | Journal Article | IST-REx-ID: 1420   OA
A general approximation for the dynamics of quantitative traits
K. Bod’ová, G. Tkacik, N.H. Barton, Genetics 202 (2016) 1523–1548.
View | DOI | Download (ext.) | arXiv
 
[42]
2015 | Journal Article | IST-REx-ID: 1666   OA
Dynamics of transcription factor binding site evolution
M. Tugrul, T. Paixao, N.H. Barton, G. Tkacik, PLoS Genetics 11 (2015).
View | Files available | DOI
 
[41]
2015 | Journal Article | IST-REx-ID: 1697   OA
High accuracy decoding of dynamical motion from a large retinal population
O. Marre, V. Botella Soler, K. Simmons, T. Mora, G. Tkacik, M. Berry, PLoS Computational Biology 11 (2015).
View | Files available | DOI
 
[40]
2015 | Journal Article | IST-REx-ID: 1940   OA
Optimizing information flow in small genetic networks. IV. Spatial coupling
T.R. Sokolowski, G. Tkacik, Physical Review E Statistical Nonlinear and Soft Matter Physics 91 (2015).
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[39]
2015 | Journal Article | IST-REx-ID: 1701   OA
Thermodynamics and signatures of criticality in a network of neurons
G. Tkacik, T. Mora, O. Marre, D. Amodei, S. Palmer, M. Berry Ii, W. Bialek, PNAS 112 (2015) 11508–11513.
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[38]
2015 | Journal Article | IST-REx-ID: 1885   OA
Positional information, positional error, and readout precision in morphogenesis: A mathematical framework
G. Tkacik, J. Dubuis, M. Petkova, T. Gregor, Genetics 199 (2015) 39–59.
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[37]
2015 | Journal Article | IST-REx-ID: 1576
Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation
S.A. Cepeda Humerez, G. Rieckh, G. Tkacik, Physical Review Letters 115 (2015).
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[36]
2014 | Journal Article | IST-REx-ID: 3263   OA
Adaptation to changes in higher-order stimulus statistics in the salamander retina
G. Tkacik, A. Ghosh, E. Schneidman, R. Segev, PLoS One 9 (2014).
View | Files available | DOI
 
[35]
2014 | Journal Article | IST-REx-ID: 2231   OA
Noise and information transmission in promoters with multiple internal states
G. Rieckh, G. Tkacik, Biophysical Journal 106 (2014) 1194–1204.
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[34]
2014 | Journal Article | IST-REx-ID: 1886   OA
Variance predicts salience in central sensory processing
A. Hermundstad, J. Briguglio, M. Conte, J. Victor, V. Balasubramanian, G. Tkacik, ELife (2014).
View | Files available | DOI
 
[33]
2014 | Journal Article | IST-REx-ID: 2257
Searching for collective behavior in a large network of sensory neurons
G. Tkacik, O. Marre, D. Amodei, E. Schneidman, W. Bialek, M. Berry, PLoS Computational Biology 10 (2014).
View | Files available | DOI | Download (ext.)
 
[32]
2013 | Journal Article | IST-REx-ID: 2277   OA
Transformation of stimulus correlations by the retina
K. Simmons, J. Prentice, G. Tkacik, J. Homann, H. Yee, S. Palmer, P. Nelson, V. Balasubramanian, PLoS Computational Biology 9 (2013).
View | Files available | DOI
 
[31]
2013 | Journal Article | IST-REx-ID: 2913   OA
Retinal metric: a stimulus distance measure derived from population neural responses
G. Tkacik, E. Granot Atedgi, R. Segev, E. Schneidman, Physical Review Letters 110 (2013).
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[30]
2013 | Journal Article | IST-REx-ID: 2850   OA
The simplest maximum entropy model for collective behavior in a neural network
G. Tkacik, O. Marre, T. Mora, D. Amodei, M. Berry, W. Bialek, Journal of Statistical Mechanics Theory and Experiment 2013 (2013).
View | DOI | Download (ext.) | arXiv
 
[29]
2013 | Journal Article | IST-REx-ID: 2851
A simple method for estimating the entropy of neural activity
M. Berry, G. Tkacik, J. Dubuis, O. Marre, R. Da Silveira, Journal of Statistical Mechanics Theory and Experiment 2013 (2013).
View | DOI
 
[28]
2013 | Journal Article | IST-REx-ID: 2818   OA
Learning quadratic receptive fields from neural responses to natural stimuli
K. Rajan, O. Marre, G. Tkacik, Neural Computation 25 (2013) 1661–1692.
View | DOI | Download (ext.) | arXiv
 
[27]
2013 | Journal Article | IST-REx-ID: 2863   OA
Stimulus-dependent maximum entropy models of neural population codes
E. Granot Atedgi, G. Tkacik, R. Segev, E. Schneidman, PLoS Computational Biology 9 (2013).
View | Files available | DOI
 
[26]
2013 | Journal Article | IST-REx-ID: 2914   OA
Statistical thermodynamics of natural images
G. Stephens, T. Mora, G. Tkacik, W. Bialek, Physical Review Letters 110 (2013).
View | Files available | DOI | Download (ext.) | arXiv
 
[25]
2013 | Journal Article | IST-REx-ID: 3261   OA
Positional information, in bits
J. Dubuis, G. Tkacik, E. Wieschaus, T. Gregor, W. Bialek, PNAS 110 (2013) 16301–16308.
View | Files available | DOI | PubMed | Europe PMC
 
[24]
2012 | Journal Article | IST-REx-ID: 3262   OA
Optimizing information flow in small genetic networks. III. A self-interacting gene
G. Tkacik, A. Walczak, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 85 (2012).
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[23]
2011 | Journal Article | IST-REx-ID: 3276   OA
Fast, scalable, Bayesian spike identification for multi-electrode arrays
J. Prentice, J. Homann, K. Simmons, G. Tkacik, V. Balasubramanian, P. Nelson, PLoS One 6 (2011).
View | Files available | DOI
 
[22]
2011 | Journal Article | IST-REx-ID: 3384   OA
Natural images from the birthplace of the human eye
G. Tkacik, P. Garrigan, C. Ratliff, G. Milcinski, J. Klein, L. Seyfarth, P. Sterling, D. Brainard, V. Balasubramanian, PLoS One 6 (2011).
View | Files available | DOI
 
[21]
2011 | Journal Article | IST-REx-ID: 3401
The formation of the Bicoid morphogen gradient requires protein movement from anteriorly localized source
S. Little, G. Tkacik, T. Kneeland, E. Wieschaus, T. Gregor, PLoS Biology 9 (2011).
View | DOI
 
[20]
2011 | Journal Article | IST-REx-ID: 3374   OA
Information transmission in genetic regulatory networks a review
G. Tkacik, A. Walczak, Journal of Physics: Condensed Matter 23 (2011).
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[19]
2010 | Conference Paper | IST-REx-ID: 3430   OA View | Download (ext.)
 
[18]
2010 | Journal Article | IST-REx-ID: 3738
Optimizing information flow in small genetic networks. II. Feed-forward interactions
A. Walczak, G. Tkacik, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 81 (2010).
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[17]
2010 | Journal Article | IST-REx-ID: 3735
Local statistics in natural scenes predict the saliency of synthetic textures
G. Tkacik, J. Prentice, J. Victor, V. Balasubramanian, PNAS 107 (2010) 18149–18154.
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[16]
2010 | Journal Article | IST-REx-ID: 3736
Optimal population coding by noisy spiking neurons
G. Tkacik, J. Prentice, V. Balasubramanian, E. Schneidman, PNAS 107 (2010) 14419–14424.
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[15]
 
[14]
2009 | Preprint | IST-REx-ID: 3732   OA
Spin glass models for a network of real neurons
G. Tkacik, E. Schneidman, M. Berry, W. Bialek, ArXiv q-NC (2009).
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[13]
2009 | Journal Article | IST-REx-ID: 3737
Optimizing information flow in small genetic networks
G. Tkacik, A. Walczak, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 80 (2009).
View | DOI | Download (ext.)
 
[12]
2009 | Journal Article | IST-REx-ID: 3745
Diffusion, dimensionality, and noise in transcriptional regulation
G. Tkacik, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 79 (2009).
View | DOI
 
[11]
2009 | Journal Article | IST-REx-ID: 3733
The dynamics of adaptation on correlated fitness landscapes
S. Kryazhimskiy, G. Tkacik, J. Plotkin, PNAS 106 (2009) 18638–18643.
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[10]
2009 | Book Chapter | IST-REx-ID: 3747
Cell Biology: Networks, regulation, pathways
G. Tkacik, W. Bialek, in:, R. Meyers (Ed.), Encyclopedia of Complexity and Systems Science, Springer, 2009, pp. 719–741.
View | DOI
 
[9]
2008 | Journal Article | IST-REx-ID: 3744   OA
Decoding spike timing: The differential reverse-correlation method
G. Tkacik, M. Magnasco, Biosystems 93 (2008) 90–100.
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[8]
2008 | Journal Article | IST-REx-ID: 3740   OA
Information flow and optimization in transcriptional regulation
G. Tkacik, C. Callan, W. Bialek, PNAS 105 (2008) 12265–12270.
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[7]
2008 | Journal Article | IST-REx-ID: 3734   OA
The role of input noise in transcriptional regulation
G. Tkacik, T. Gregor, W. Bialek, PLoS One 3 (2008).
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[6]
2008 | Journal Article | IST-REx-ID: 3739
Information capacity of genetic regulatory elements
G. Tkacik, C. Callan, W. Bialek, Physical Review E Statistical Nonlinear and Soft Matter Physics 78 (2008).
View | DOI
 
[5]
2007 | Preprint | IST-REx-ID: 3742   OA
Faster solutions of the inverse pairwise Ising problem
T. Broderick, M. Dudik, G. Tkacik, R. Schapire, W. Bialek, ArXiv q-QM (2007).
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[4]
2007 | Journal Article | IST-REx-ID: 3731
Precise physical models of protein-DNA interaction from high-throughput data
J. Kinney, G. Tkacik, C. Callan, PNAS 104 (2007) 501–506.
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[3]
2006 | Preprint | IST-REx-ID: 3431   OA
Ising models for networks of real neurons
G. Tkacik, E. Schneidman, M. Berry, W. Bialek, ArXiv (2006) 1–4.
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[2]
2005 | Journal Article | IST-REx-ID: 3741   OA
Information-based clustering
N. Slonim, G. Atwal, G. Tkacik, W. Bialek, PNAS 102 (2005) 18297–18302.
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[1]
2005 | Preprint | IST-REx-ID: 3746   OA
Estimating mutual information and multi-information in large networks
N. Slonim, G. Atwal, G. Tkacik, W. Bialek, ArXiv (2005) 1–11.
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