Friedlander, Tamar, Roshan Prizak, Calin C Guet, Nicholas H Barton, and Gasper Tkadik. “Intrinsic Limits to Gene Regulation by Global Crosstalk.”https://doi.org/10.1038/ncomms12307__Nature Communications. Nature Publishing Group, 2016.https://doi.org/10.1038/ncomms12307 .
LibreCat: https://research-explorer.ista.ac.at/record/1358
DOI: 10.1038/ncomms12307

Parise, Francesca, John Lygeros, and Jakob Ruess. “Bayesian Inference for Stochastic Individual-Based Models of Ecological Systems: A Pest Control Simulation Study.”https://doi.org/10.3389/fenvs.2015.00042__Frontiers in Environmental Science. Frontiers, 2015.https://doi.org/10.3389/fenvs.2015.00042 .
LibreCat: https://research-explorer.ista.ac.at/record/10794
DOI: 10.3389/fenvs.2015.00042

Ruess, Jakob. “Minimal Moment Equations for Stochastic Models of Biochemical Reaction Networks with Partially Finite State Space.”https://doi.org/10.1063/1.4937937__Journal of Chemical Physics. American Institute of Physics, 2015.https://doi.org/10.1063/1.4937937 .
LibreCat: https://research-explorer.ista.ac.at/record/1539
DOI: 10.1063/1.4937937

Ruess, Jakob, Francesca Parise, Andreas Milias Argeitis, Mustafa Khammash, and John Lygeros. “Iterative Experiment Design Guides the Characterization of a Light-Inducible Gene Expression Circuit.”https://doi.org/10.1073/pnas.1423947112__PNAS. National Academy of Sciences, 2015.https://doi.org/10.1073/pnas.1423947112 .
LibreCat: https://research-explorer.ista.ac.at/record/1538
DOI: 10.1073/pnas.1423947112
PMID: 26085136

Gilson, Matthieu, Cristina Savin, and Friedemann Zenke. “Editorial: Emergent Neural Computation from the Interaction of Different Forms of Plasticity.”https://doi.org/10.3389/fncom.2015.00145__Frontiers in Computational Neuroscience. Frontiers Research Foundation, 2015.https://doi.org/10.3389/fncom.2015.00145 .
LibreCat: https://research-explorer.ista.ac.at/record/1564
DOI: 10.3389/fncom.2015.00145

Der, Ralf, and Georg S Martius. “Novel Plasticity Rule Can Explain the Development of Sensorimotor Intelligence.”https://doi.org/10.1073/pnas.1508400112__PNAS. National Academy of Sciences, 2015.https://doi.org/10.1073/pnas.1508400112 .
LibreCat: https://research-explorer.ista.ac.at/record/1570
DOI: 10.1073/pnas.1508400112
PMID: 26504200

Bogomolov, Sergiy, Thomas A Henzinger, Andreas Podelski, Jakob Ruess, and Christian Schilling. “Adaptive Moment Closure for Parameter Inference of Biochemical Reaction Networks.”https://doi.org/10.1007/978-3-319-23401-4_8__Lecture Notes in Computer Science. Springer, 2015.https://doi.org/10.1007/978-3-319-23401-4_8 .
LibreCat: https://research-explorer.ista.ac.at/record/1658
DOI: 10.1007/978-3-319-23401-4_8

Marre, Olivier, Vicente Botella Soler, Kristina Simmons, Thierry Mora, Gasper Tkadik, and Michael Berry. “High Accuracy Decoding of Dynamical Motion from a Large Retinal Population.”https://doi.org/10.1371/journal.pcbi.1004304__PLoS Computational Biology. Public Library of Science, 2015.https://doi.org/10.1371/journal.pcbi.1004304 .
LibreCat: https://research-explorer.ista.ac.at/record/1697
DOI: 10.1371/journal.pcbi.1004304

Tkadik, Gasper, Thierry Mora, Olivier Marre, Dario Amodei, Stephanie Palmer, Michael Berry Ii, and William Bialek. “Thermodynamics and Signatures of Criticality in a Network of Neurons.”https://doi.org/10.1073/pnas.1514188112__PNAS. National Academy of Sciences, 2015.https://doi.org/10.1073/pnas.1514188112 .
LibreCat: https://research-explorer.ista.ac.at/record/1701
DOI: 10.1073/pnas.1514188112
PMID: 26330611

Ruess, Jakob, and John Lygeros. “Moment-Based Methods for Parameter Inference and Experiment Design for Stochastic Biochemical Reaction Networks.”https://doi.org/10.1145/2688906__ACM Transactions on Modeling and Computer Simulation. ACM, 2015.https://doi.org/10.1145/2688906 .
LibreCat: https://research-explorer.ista.ac.at/record/1861
DOI: 10.1145/2688906

Tkadik, Gasper, Julien Dubuis, Mariela Petkova, and Thomas Gregor. “Positional Information, Positional Error, and Readout Precision in Morphogenesis: A Mathematical Framework.”https://doi.org/10.1534/genetics.114.171850__Genetics. Genetics Society of America, 2015.https://doi.org/10.1534/genetics.114.171850 .
LibreCat: https://research-explorer.ista.ac.at/record/1885
DOI: 10.1534/genetics.114.171850

Sokolowski, Thomas R, and Gasper Tkadik. “Optimizing Information Flow in Small Genetic Networks. IV. Spatial Coupling.”https://doi.org/10.1103/PhysRevE.91.062710__Physical Review E Statistical Nonlinear and Soft Matter Physics. American Institute of Physics, 2015.https://doi.org/10.1103/PhysRevE.91.062710 .
LibreCat: https://research-explorer.ista.ac.at/record/1940
DOI: 10.1103/PhysRevE.91.062710

Friedlander, Tamar, Avraham E. Mayo, Tsvi Tlusty, and Uri Alon. “Supporting Information Text.”https://doi.org/10.1371/journal.pcbi.1004055.s001__Public Library of Science, 2015.https://doi.org/10.1371/journal.pcbi.1004055.s001 .
LibreCat: https://research-explorer.ista.ac.at/record/9718
DOI: 10.1371/journal.pcbi.1004055.s001

Friedlander, Tamar, Avraham Mayo, Tsvi Tlusty, and Uri Alon. “Evolution of Bow-Tie Architectures in Biology.”https://doi.org/10.1371/journal.pcbi.1004055__PLoS Computational Biology. Public Library of Science, 2015.https://doi.org/10.1371/journal.pcbi.1004055 .
LibreCat: https://research-explorer.ista.ac.at/record/1827
DOI: 10.1371/journal.pcbi.1004055

Friedlander, Tamar, Avraham E. Mayo, Tsvi Tlusty, and Uri Alon. “Evolutionary Simulation Code.”https://doi.org/10.1371/journal.pcbi.1004055.s002__Public Library of Science, 2015.https://doi.org/10.1371/journal.pcbi.1004055.s002 .
LibreCat: https://research-explorer.ista.ac.at/record/9773
DOI: 10.1371/journal.pcbi.1004055.s002

Tugrul, Murat, Tiago Paixao, Nicholas H Barton, and Gasper Tkadik. “Other Fitness Models for Comparison &; for Interacting TFBSs.”https://doi.org/10.1371/journal.pgen.1005639.s001__Public Library of Science, 2015.https://doi.org/10.1371/journal.pgen.1005639.s001 .
LibreCat: https://research-explorer.ista.ac.at/record/9712
DOI: 10.1371/journal.pgen.1005639.s001

Tugrul, Murat, Tiago Paixao, Nicholas H Barton, and Gasper Tkadik. “Dynamics of Transcription Factor Binding Site Evolution.”https://doi.org/10.1371/journal.pgen.1005639__PLoS Genetics. Public Library of Science, 2015.https://doi.org/10.1371/journal.pgen.1005639 .
LibreCat: https://research-explorer.ista.ac.at/record/1666
DOI: 10.1371/journal.pgen.1005639

Cepeda Humerez, Sarah A, Georg Rieckh, and Gasper Tkadik. “Stochastic Proofreading Mechanism Alleviates Crosstalk in Transcriptional Regulation.”https://doi.org/10.1103/PhysRevLett.115.248101__Physical Review Letters. American Physical Society, 2015.https://doi.org/10.1103/PhysRevLett.115.248101 .
LibreCat: https://research-explorer.ista.ac.at/record/1576
DOI: 10.1103/PhysRevLett.115.248101

Martius, Georg S, and Eckehard Olbrich. “Quantifying Emergent Behavior of Autonomous Robots.”https://doi.org/10.3390/e17107266__Entropy. MDPI, 2015.https://doi.org/10.3390/e17107266 .
LibreCat: https://research-explorer.ista.ac.at/record/1655
DOI: 10.3390/e17107266

Savin, Cristina, and Sophie Denève. “Spatio-Temporal Representations of Uncertainty in Spiking Neural Networks,” 3:2024–32. Neural Information Processing Systems, 2014.
LibreCat: https://research-explorer.ista.ac.at/record/1708

Hermundstad, Ann, John Briguglio, Mary Conte, Jonathan Victor, Vijay Balasubramanian, and Gasper Tkadik. “Variance Predicts Salience in Central Sensory Processing.”https://doi.org/10.7554/eLife.03722__ELife. eLife Sciences Publications, 2014.https://doi.org/10.7554/eLife.03722 .
LibreCat: https://research-explorer.ista.ac.at/record/1886
DOI: 10.7554/eLife.03722

Kollár, Richard, Katarina Bodova, Jozef Nosek, and dubomír Tomáska. “Mathematical Model of Alternative Mechanism of Telomere Length Maintenance.”https://doi.org/10.1103/PhysRevE.89.032701__Physical Review E Statistical Nonlinear and Soft Matter Physics. American Institute of Physics, 2014.https://doi.org/10.1103/PhysRevE.89.032701 .
LibreCat: https://research-explorer.ista.ac.at/record/1896
DOI: 10.1103/PhysRevE.89.032701

Ezard, Thomas, Roshan Prizak, and Rebecca Hoyle. “The Fitness Costs of Adaptation via Phenotypic Plasticity and Maternal Effects.”https://doi.org/10.1111/1365-2435.12207__Functional Ecology. Wiley-Blackwell, 2014.https://doi.org/10.1111/1365-2435.12207 .
LibreCat: https://research-explorer.ista.ac.at/record/1909
DOI: 10.1111/1365-2435.12207

Humplik, Jan, Alison Hill, and Martin Nowak. “Evolutionary Dynamics of Infectious Diseases in Finite Populations.”https://doi.org/10.1016/j.jtbi.2014.06.039__Journal of Theoretical Biology. Elsevier, 2014.https://doi.org/10.1016/j.jtbi.2014.06.039 .
LibreCat: https://research-explorer.ista.ac.at/record/1928
DOI: 10.1016/j.jtbi.2014.06.039

Savin, Cristina, and Jochen Triesch. “Emergence of Task-Dependent Representations in Working Memory Circuits.”https://doi.org/10.3389/fncom.2014.00057__Frontiers in Computational Neuroscience. Frontiers Research Foundation, 2014.https://doi.org/10.3389/fncom.2014.00057 .
LibreCat: https://research-explorer.ista.ac.at/record/1931
DOI: 10.3389/fncom.2014.00057

Bodova, Katarina, David Paydarfar, and Daniel Forger. “Characterizing Spiking in Noisy Type II Neurons.”https://doi.org/10.1016/j.jtbi.2014.09.041__https://doi.org/10.1016/j.jtbi.2014.09.041__Journal of Theoretical Biology. Academic Press, 2014.https://doi.org/10.1016/j.jtbi.2014.09.041 .
LibreCat: https://research-explorer.ista.ac.at/record/2028
DOI: 10.1016/j.jtbi.2014.09.041

Botella Soler, Vicente, and Paul Glendinning. “Hierarchy and Polysynchrony in an Adaptive Network .”https://doi.org/10.1103/PhysRevE.89.062809__Physical Review E Statistical Nonlinear and Soft Matter Physics. American Institute of Physics, 2014.https://doi.org/10.1103/PhysRevE.89.062809 .
LibreCat: https://research-explorer.ista.ac.at/record/2183
DOI: 10.1103/PhysRevE.89.062809

Rieckh, Georg, and Gasper Tkadik. “Noise and Information Transmission in Promoters with Multiple Internal States.”https://doi.org/10.1016/j.bpj.2014.01.014__Biophysical Journal. Biophysical Society, 2014.https://doi.org/10.1016/j.bpj.2014.01.014 .
LibreCat: https://research-explorer.ista.ac.at/record/2231
DOI: 10.1016/j.bpj.2014.01.014
PMID: 24606943

Tkadik, Gasper, Anandamohan Ghosh, Elad Schneidman, and Ronen Segev. “Adaptation to Changes in Higher-Order Stimulus Statistics in the Salamander Retina.”https://doi.org/10.1371/journal.pone.0085841__PLoS One. Public Library of Science, 2014.https://doi.org/10.1371/journal.pone.0085841 .
LibreCat: https://research-explorer.ista.ac.at/record/3263
DOI: 10.1371/journal.pone.0085841

Prizak, Roshan, Thomas Ezard, and Rebecca Hoyle. “Fitness Consequences of Maternal and Grandmaternal Effects.”https://doi.org/10.1002/ece3.1150__Ecology and Evolution. Wiley-Blackwell, 2014.https://doi.org/10.1002/ece3.1150 .
LibreCat: https://research-explorer.ista.ac.at/record/537
DOI: 10.1002/ece3.1150

Simmons, Kristina, Jason Prentice, Gasper Tkadik, Jan Homann, Heather Yee, Stephanie Palmer, Philip Nelson, and Vijay Balasubramanian. “Data from: Transformation of Stimulus Correlations by the Retina.”https://doi.org/10.5061/dryad.246qg__Dryad, 2014.https://doi.org/10.5061/dryad.246qg .
LibreCat: https://research-explorer.ista.ac.at/record/9752
DOI: 10.5061/dryad.246qg

Tkadik, Gasper, Olivier Marre, Dario Amodei, Elad Schneidman, William Bialek, and Michael Berry. “Searching for Collective Behavior in a Large Network of Sensory Neurons.”https://doi.org/10.1371/journal.pcbi.1003408__PLoS Computational Biology. Public Library of Science, 2014.https://doi.org/10.1371/journal.pcbi.1003408 .
LibreCat: https://research-explorer.ista.ac.at/record/2257
DOI: 10.1371/journal.pcbi.1003408

Valderrama, Mario, Vicente Botella Soler, and Michel Le Van Quyen. “Neuronal Oscillations Scale up and Scale down the Brain Dynamics .”https://doi.org/10.1002/9783527671632.ch08__In Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain, edited by Misha Meyer and Z. Pesenson. Wiley-VCH, 2013.https://doi.org/10.1002/9783527671632.ch08 .
LibreCat: https://research-explorer.ista.ac.at/record/2413
DOI: 10.1002/9783527671632.ch08

Rajan, Kanaka, Olivier Marre, and Gasper Tkadik. “Learning Quadratic Receptive Fields from Neural Responses to Natural Stimuli.”https://doi.org/10.1162/NECO_a_00463__Neural Computation. MIT Press , 2013.https://doi.org/10.1162/NECO_a_00463 .
LibreCat: https://research-explorer.ista.ac.at/record/2818
DOI: 10.1162/NECO_a_00463
arXiv: 1209.0121

Tkadik, Gasper, Olivier Marre, Thierry Mora, Dario Amodei, Michael Berry, and William Bialek. “The Simplest Maximum Entropy Model for Collective Behavior in a Neural Network.”https://doi.org/10.1088/1742-5468/2013/03/P03011__Journal of Statistical Mechanics Theory and Experiment. IOP Publishing Ltd., 2013.https://doi.org/10.1088/1742-5468/2013/03/P03011 .
LibreCat: https://research-explorer.ista.ac.at/record/2850
DOI: 10.1088/1742-5468/2013/03/P03011
arXiv: 1207.6319

Berry, Michael, Gasper Tkadik, Julien Dubuis, Olivier Marre, and Ravá Da Silveira. “A Simple Method for Estimating the Entropy of Neural Activity.”https://doi.org/10.1088/1742-5468/2013/03/P03015__Journal of Statistical Mechanics Theory and Experiment. IOP Publishing Ltd., 2013.https://doi.org/10.1088/1742-5468/2013/03/P03015 .
LibreCat: https://research-explorer.ista.ac.at/record/2851
DOI: 10.1088/1742-5468/2013/03/P03015

Granot Atedgi, Einat, Gasper Tkadik, Ronen Segev, and Elad Schneidman. “Stimulus-Dependent Maximum Entropy Models of Neural Population Codes.”https://doi.org/10.1371/journal.pcbi.1002922__PLoS Computational Biology. Public Library of Science, 2013.https://doi.org/10.1371/journal.pcbi.1002922 .
LibreCat: https://research-explorer.ista.ac.at/record/2863
DOI: 10.1371/journal.pcbi.1002922

Botella Soler, Vicente, José Oteo, Javier Ros, and Paul Glendinning. “Lyapunov Exponent and Topological Entropy Plateaus in Piecewise Linear Maps.”https://doi.org/10.1088/1751-8113/46/12/125101__Journal of Physics A: Mathematical and Theoretical. IOP Publishing Ltd., 2013.https://doi.org/10.1088/1751-8113/46/12/125101 .
LibreCat: https://research-explorer.ista.ac.at/record/2861
DOI: 10.1088/1751-8113/46/12/125101

Tkadik, Gasper, Einat Granot Atedgi, Ronen Segev, and Elad Schneidman. “Retinal Metric: A Stimulus Distance Measure Derived from Population Neural Responses.”https://doi.org/10.1103/PhysRevLett.110.058104__Physical Review Letters. American Physical Society, 2013.https://doi.org/10.1103/PhysRevLett.110.058104 .
LibreCat: https://research-explorer.ista.ac.at/record/2913
DOI: 10.1103/PhysRevLett.110.058104

Dubuis, Julien, Gasper Tkadik, Eric Wieschaus, Thomas Gregor, and William Bialek. “Positional Information, in Bits.”https://doi.org/10.1073/pnas.1315642110__PNAS. National Academy of Sciences, 2013.https://doi.org/10.1073/pnas.1315642110 .
LibreCat: https://research-explorer.ista.ac.at/record/3261
DOI: 10.1073/pnas.1315642110
PMID: 24089448

Wakamoto, Yurichi, Neraaj Dhar, Remy P Chait, Katrin Schneider, François Signorino Gelo, Stanislas Leibler, and John Mckinney. “Dynamic Persistence of Antibiotic-Stressed Mycobacteria.”https://doi.org/10.1126/science.1229858__Science. American Association for the Advancement of Science, 2013.https://doi.org/10.1126/science.1229858 .
LibreCat: https://research-explorer.ista.ac.at/record/499
DOI: 10.1126/science.1229858

Simmons, Kristina, Jason Prentice, Gasper Tkadik, Jan Homann, Heather Yee, Stephanie Palmer, Philip Nelson, and Vijay Balasubramanian. “Transformation of Stimulus Correlations by the Retina.”https://doi.org/10.1371/journal.pcbi.1003344__PLoS Computational Biology. Public Library of Science, 2013.https://doi.org/10.1371/journal.pcbi.1003344 .
LibreCat: https://research-explorer.ista.ac.at/record/2277
DOI: 10.1371/journal.pcbi.1003344

Stephens, Greg, Thierry Mora, Gasper Tkadik, and William Bialek. “Statistical Thermodynamics of Natural Images.”https://doi.org/10.1103/PhysRevLett.110.018701__Physical Review Letters. American Physical Society, 2013.https://doi.org/10.1103/PhysRevLett.110.018701 .
LibreCat: https://research-explorer.ista.ac.at/record/2914
DOI: 10.1103/PhysRevLett.110.018701
arXiv: 0806.2694

Tkadik, Gasper, Aleksandra Walczak, and William Bialek. “Optimizing Information Flow in Small Genetic Networks. III. A Self-Interacting Gene.”https://doi.org/10.1103/PhysRevE.85.041903__https://doi.org/10.1103/PhysRevE.85.041903__Physical Review E Statistical Nonlinear and Soft Matter Physics . American Institute of Physics, 2012.https://doi.org/10.1103/PhysRevE.85.041903 .
LibreCat: https://research-explorer.ista.ac.at/record/3262
DOI: 10.1103/PhysRevE.85.041903

Rieckh, Georg, Wolfgang Kreuzer, Holger Waubke, and Peter Balazs. “A 2.5D-Fourier-BEM Model for Vibrations in a Tunnel Running through Layered Anisotropic Soil.”https://doi.org/10.1016/j.enganabound.2011.12.014__https://doi.org/10.1016/j.enganabound.2011.12.014__Engineering Analysis with Boundary Elements. Elsevier, 2012.https://doi.org/10.1016/j.enganabound.2011.12.014 .
LibreCat: https://research-explorer.ista.ac.at/record/3274
DOI: 10.1016/j.enganabound.2011.12.014

Tkadik, Gasper, and Aleksandra Walczak. “Information Transmission in Genetic Regulatory Networks a Review.”https://doi.org/10.1088/0953-8984/23/15/153102__Journal of Physics: Condensed Matter. IOP Publishing Ltd., 2011.https://doi.org/10.1088/0953-8984/23/15/153102 .
LibreCat: https://research-explorer.ista.ac.at/record/3374
DOI: 10.1088/0953-8984/23/15/153102

Tkadik, Gasper, Patrick Garrigan, Charles Ratliff, Grega Milcinski, Jennifer Klein, Lucia Seyfarth, Peter Sterling, David Brainard, and Vijay Balasubramanian. “Natural Images from the Birthplace of the Human Eye.”https://doi.org/10.1371/journal.pone.0020409__PLoS One. Public Library of Science, 2011.https://doi.org/10.1371/journal.pone.0020409 .
LibreCat: https://research-explorer.ista.ac.at/record/3384
DOI: 10.1371/journal.pone.0020409