Please note that LibreCat no longer supports Internet Explorer versions 8 or 9 (or earlier).

We recommend upgrading to the latest Internet Explorer, Google Chrome, or Firefox.




132 Publications

2018 | Journal Article | IST-REx-ID: 543 | OA
Chalk, Matthew J, Olivier Marre, and Gasper Tkacik. “Toward a Unified Theory of Efficient, Predictive, and Sparse Coding.” PNAS 115, no. 1 (2018): 186–91. https://doi.org/10.1073/pnas.1711114115.
View | DOI | Download Submitted Version (ext.)
 
2018 | Journal Article | IST-REx-ID: 607 | OA
Bodova, Katarina, Jan Haskovec, and Peter Markowich. “Well Posedness and Maximum Entropy Approximation for the Dynamics of Quantitative Traits.” Physica D: Nonlinear Phenomena 376–377 (2018): 108–20. https://doi.org/10.1016/j.physd.2017.10.015.
View | DOI | Download Submitted Version (ext.) | arXiv
 
2018 | Journal Article | IST-REx-ID: 67 | OA
Igler, Claudia, Mato Lagator, Gašper Tkačik, Jonathan P Bollback, and Calin C Guet. “Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring.” Nature Ecology and Evolution 2, no. 10 (2018): 1633–43. https://doi.org/10.1038/s41559-018-0651-y.
View | Files available | DOI
 
2018 | Research Data | IST-REx-ID: 5585 | OA
Igler, Claudia, Mato Lagator, Gašper Tkačik, Jonathan P Bollback, and Calin C Guet. Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring. IST Austria, 2018. https://doi.org/10.15479/AT:ISTA:108.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 2016 | OA
Martin Del Campo Sanchez, Abraham, Sarah A Cepeda Humerez, and Caroline Uhler. “Exact Goodness-of-Fit Testing for the Ising Model.” Scandinavian Journal of Statistics 44, no. 2 (2017): 285–306. https://doi.org/10.1111/sjos.12251.
View | Files available | DOI | Download Preprint (ext.) | arXiv
 
2017 | Research Data | IST-REx-ID: 5562 | OA
Marre, Olivier, Gašper Tkačik, Dario Amodei, Elad Schneidman, William Bialek, and Michael Berry. Multi-Electrode Array Recording from Salamander Retinal Ganglion Cells. IST Austria, 2017. https://doi.org/10.15479/AT:ISTA:61.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 1007 | OA
Lang, Moritz, and Eduardo Sontag. “Zeros of Nonlinear Systems with Input Invariances.” Automatica 81C (2017): 46–55. https://doi.org/10.1016/j.automatica.2017.03.030.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 1104 | OA
Deny, Stephane, Ulisse Ferrari, Emilie Mace, Pierre Yger, Romain Caplette, Serge Picaud, Gasper Tkacik, and Olivier Marre. “Multiplexed Computations in Retinal Ganglion Cells of a Single Type.” Nature Communications 8, no. 1 (2017). https://doi.org/10.1038/s41467-017-02159-y.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 548 | OA
De Martino, Daniele. “Maximum Entropy Modeling of Metabolic Networks by Constraining Growth-Rate Moments Predicts Coexistence of Phenotypes.” Physical Review E 96, no. 6 (2017). https://doi.org/10.1103/PhysRevE.96.060401.
View | DOI | Download Submitted Version (ext.)
 
2017 | Journal Article | IST-REx-ID: 613 | OA
Chait, Remy P, Jakob Ruess, Tobias Bergmiller, Gašper Tkačik, and Calin C Guet. “Shaping Bacterial Population Behavior through Computer Interfaced Control of Individual Cells.” Nature Communications 8, no. 1 (2017). https://doi.org/10.1038/s41467-017-01683-1.
View | Files available | DOI
 
2017 | Conference Paper | IST-REx-ID: 652
Der, Ralf, and Georg S Martius. “Dynamical Self Consistency Leads to Behavioral Development and Emergent Social Interactions in Robots.” IEEE, 2017. https://doi.org/10.1109/DEVLRN.2016.7846789.
View | DOI
 
2017 | Journal Article | IST-REx-ID: 658 | OA
Der, Ralf, and Georg S Martius. “Self Organized Behavior Generation for Musculoskeletal Robots.” Frontiers in Neurorobotics 11, no. MAR (2017). https://doi.org/10.3389/fnbot.2017.00008.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 666 | OA
Mitosch, Karin, Georg Rieckh, and Mark Tobias Bollenbach. “Noisy Response to Antibiotic Stress Predicts Subsequent Single Cell Survival in an Acidic Environment.” Cell Systems 4, no. 4 (2017): 393–403. https://doi.org/10.1016/j.cels.2017.03.001.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 665
Bergmiller, Tobias, Anna M Andersson, Kathrin Tomasek, Enrique Balleza, Daniel Kiviet, Robert Hauschild, Gasper Tkacik, and Calin C Guet. “Biased Partitioning of the Multidrug Efflux Pump AcrAB TolC Underlies Long Lived Phenotypic Heterogeneity.” Science 356, no. 6335 (2017): 311–15. https://doi.org/10.1126/science.aaf4762.
View | Files available | DOI
 
2017 | Research Data | IST-REx-ID: 5560 | OA
Bergmiller, Tobias, Anna M Andersson, Kathrin Tomasek, Enrique Balleza, Daniel Kiviet, Robert Hauschild, Gašper Tkačik, and Calin C Guet. Biased Partitioning of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity. IST Austria, 2017. https://doi.org/doi:10.15479/AT:ISTA:53.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 680 | OA
Chalk, Matthew J, Paul Masset, Boris Gutkin, and Sophie Denève. “Sensory Noise Predicts Divisive Reshaping of Receptive Fields.” PLoS Computational Biology 13, no. 6 (2017). https://doi.org/10.1371/journal.pcbi.1005582.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 720 | OA
Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations That Naturally Capture Global Coupling and Criticality.” PLoS Computational Biology 13, no. 9 (2017). https://doi.org/10.1371/journal.pcbi.1005763.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 725 | OA
Harpaz, Roy, Gasper Tkacik, and Elad Schneidman. “Discrete Modes of Social Information Processing Predict Individual Behavior of Fish in a Group.” PNAS 114, no. 38 (2017): 10149–54. https://doi.org/10.1073/pnas.1703817114.
View | DOI | Download Submitted Version (ext.) | PubMed | Europe PMC
 
2017 | Journal Article | IST-REx-ID: 730
Savin, Cristina, and Gasper Tkacik. “Maximum Entropy Models as a Tool for Building Precise Neural Controls.” Current Opinion in Neurobiology 46 (2017): 120–26. https://doi.org/10.1016/j.conb.2017.08.001.
View | DOI
 
2017 | Journal Article | IST-REx-ID: 735
Barone, Vanessa, Moritz Lang, Gabriel Krens, Saurabh Pradhan, Shayan Shamipour, Keisuke Sako, Mateusz K Sikora, Calin C Guet, and Carl-Philipp J Heisenberg. “An Effective Feedback Loop between Cell-Cell Contact Duration and Morphogen Signaling Determines Cell Fate.” Developmental Cell 43, no. 2 (2017): 198–211. https://doi.org/10.1016/j.devcel.2017.09.014.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 823 | OA
Colabrese, Simona, Daniele De Martino, Luca Leuzzi, and Enzo Marinari. “Phase Transitions in Integer Linear Problems.” Journal of Statistical Mechanics: Theory and Experiment 2017, no. 9 (2017). https://doi.org/10.1088/1742-5468/aa85c3.
View | DOI | Download Submitted Version (ext.)
 
2017 | Journal Article | IST-REx-ID: 943 | OA
Zagórski, Marcin P, Yoji Tabata, Nathalie Brandenberg, Matthias Lutolf, Gasper Tkacik, Tobias Bollenbach, James Briscoe, and Anna Kicheva. “Decoding of Position in the Developing Neural Tube from Antiparallel Morphogen Gradients.” Science 356, no. 6345 (2017): 1379–83. https://doi.org/10.1126/science.aam5887.
View | DOI | Download Submitted Version (ext.) | PubMed | Europe PMC
 
2017 | Journal Article | IST-REx-ID: 955 | OA
Friedlander, Tamar, Roshan Prizak, Nicholas H Barton, and Gašper Tkačik. “Evolution of New Regulatory Functions on Biophysically Realistic Fitness Landscapes.” Nature Communications 8, no. 1 (2017). https://doi.org/10.1038/s41467-017-00238-8.
View | Files available | DOI
 
2017 | Journal Article | IST-REx-ID: 959 | OA
De Martino, Daniele. “Scales and Multimodal Flux Distributions in Stationary Metabolic Network Models via Thermodynamics.” Physical Review E Statistical Nonlinear and Soft Matter Physics 95, no. 6 (2017): 062419. https://doi.org/10.1103/PhysRevE.95.062419.
View | DOI | Download Submitted Version (ext.)
 
2017 | Journal Article | IST-REx-ID: 947 | OA
De Martino, Daniele, Fabrizio Capuani, and Andrea De Martino. “Quantifying the Entropic Cost of Cellular Growth Control.” Physical Review E Statistical Nonlinear and Soft Matter Physics 96, no. 1 (2017). https://doi.org/10.1103/PhysRevE.96.010401.
View | DOI | Download Submitted Version (ext.)
 
2017 | Journal Article | IST-REx-ID: 993 | OA
Levina (Martius), Anna, and Viola Priesemann. “Subsampling Scaling.” Nature Communications 8 (2017). https://doi.org/10.1038/ncomms15140.
View | Files available | DOI
 
2016 | Thesis | IST-REx-ID: 1128
Rieckh, Georg. Studying the Complexities of Transcriptional Regulation. IST Austria, 2016.
View | Files available
 
2016 | Conference Paper | IST-REx-ID: 1214
Martius, Georg S, Raphael Hostettler, Alois Knoll, and Ralf Der. “Compliant Control for Soft Robots: Emergent Behavior of a Tendon Driven Anthropomorphic Arm,” Vol. 2016–November. IEEE, 2016. https://doi.org/10.1109/IROS.2016.7759138.
View | DOI
 
2016 | Conference Paper | IST-REx-ID: 1220 | OA
Mikić, Gregor, Alex Stoll, Joe Bevirt, Rok Grah, and Mark Moore. “Fuselage Boundary Layer Ingestion Propulsion Applied to a Thin Haul Commuter Aircraft for Optimal Efficiency,” 1–19. AIAA, 2016. https://doi.org/10.2514/6.2016-3764.
View | DOI | Download Preprint (ext.)
 
2016 | Journal Article | IST-REx-ID: 1203 | OA
Hu, Fang, Lavanya Rishishwar, Ambily Sivadas, Gabriel Mitchell, Jordan King, Timothy Murphy, Janet Gilsdorf, Leonard Mayer, and Xin Wang. “Comparative Genomic Analysis of Haemophilus Haemolyticus and Nontypeable Haemophilus Influenzae and a New Testing Scheme for Their Discrimination.” Journal of Clinical Microbiology 54, no. 12 (2016): 3010–17. https://doi.org/10.1128/JCM.01511-16.
View | DOI | Download Submitted Version (ext.)
 
2016 | Journal Article | IST-REx-ID: 1197 | OA
Prentice, Jason, Olivier Marre, Mark Ioffe, Adrianna Loback, Gašper Tkačik, and Michael Berry. “Error-Robust Modes of the Retinal Population Code.” PLoS Computational Biology 12, no. 11 (2016). https://doi.org/10.1371/journal.pcbi.1005148.
View | Files available | DOI
 
2016 | Journal Article | IST-REx-ID: 1332 | OA
Chait, Remy P, Adam Palmer, Idan Yelin, and Roy Kishony. “Pervasive Selection for and against Antibiotic Resistance in Inhomogeneous Multistress Environments.” Nature Communications 7 (2016). https://doi.org/10.1038/ncomms10333.
View | Files available | DOI
 
2016 | Journal Article | IST-REx-ID: 1358 | OA
Friedlander, Tamar, Roshan Prizak, Calin C Guet, Nicholas H Barton, and Gašper Tkačik. “Intrinsic Limits to Gene Regulation by Global Crosstalk.” Nature Communications 7 (2016). https://doi.org/10.1038/ncomms12307.
View | Files available | DOI
 
2016 | Journal Article | IST-REx-ID: 1342 | OA
Baym, Michael, Tami Lieberman, Eric Kelsic, Remy P Chait, Rotem Gross, Idan Yelin, and Roy Kishony. “Spatiotemporal Microbial Evolution on Antibiotic Landscapes.” Science 353, no. 6304 (2016): 1147–51. https://doi.org/10.1126/science.aag0822.
View | DOI | Download Preprint (ext.)
 
2016 | Journal Article | IST-REx-ID: 1485 | OA
De Martino, Daniele. “Genome-Scale Estimate of the Metabolic Turnover of E. Coli from the Energy Balance Analysis.” Physical Biology 13, no. 1 (2016). https://doi.org/10.1088/1478-3975/13/1/016003.
View | DOI | Download Preprint (ext.)
 
2016 | Conference Paper | IST-REx-ID: 1082 | OA
Chalk, Matthew J, Olivier Marre, and Gasper Tkacik. “Relevant Sparse Codes with Variational Information Bottleneck,” 29:1965–73. Neural Information Processing Systems, 2016.
View | Files available | Download Preprint (ext.)
 
2016 | Conference Paper | IST-REx-ID: 1105
Savin, Cristina, and Gasper Tkacik. “Estimating Nonlinear Neural Response Functions Using GP Priors and Kronecker Methods,” 29:3610–18. Neural Information Processing Systems, 2016.
View | Download None (ext.)
 
2016 | Journal Article | IST-REx-ID: 1170
Lang, Moritz, and Jörg Stelling. “Modular Parameter Identification of Biomolecular Networks.” SIAM Journal on Scientific Computing 38, no. 6 (2016): B988–1008. https://doi.org/10.1137/15M103306X.
View | Files available | DOI
 
2016 | Journal Article | IST-REx-ID: 1171
Tkacik, Gasper. “Understanding Regulatory Networks Requires More than Computing a Multitude of Graph Statistics: Comment on "Drivers of Structural Features in Gene Regulatory Networks: From Biophysical Constraints to Biological Function" by O. C. Martin et Al.” Physics of Life Reviews 17 (2016): 166–67. https://doi.org/10.1016/j.plrev.2016.06.005.
View | DOI
 
2016 | Journal Article | IST-REx-ID: 1188 | OA
De Martino, Daniele, and Davide Masoero. “Asymptotic Analysis of Noisy Fitness Maximization, Applied to Metabolism & Growth.” Journal of Statistical Mechanics: Theory and Experiment 2016, no. 12 (2016). https://doi.org/10.1088/1742-5468/aa4e8f.
View | DOI | Download Preprint (ext.)
 
2016 | Journal Article | IST-REx-ID: 1242 | OA
Sokolowski, Thomas R, Aleksandra Walczak, William Bialek, and Gasper Tkacik. “Extending the Dynamic Range of Transcription Factor Action by Translational Regulation.” Physical Review E Statistical Nonlinear and Soft Matter Physics 93, no. 2 (2016). https://doi.org/10.1103/PhysRevE.93.022404.
View | DOI | Download Preprint (ext.)
 
2016 | Journal Article | IST-REx-ID: 1244 | OA
Recouvreux, Pierre, Thomas R Sokolowski, Aristea Grammoustianou, Pieter Tenwolde, and Marileen Dogterom. “Chimera Proteins with Affinity for Membranes and Microtubule Tips Polarize in the Membrane of Fission Yeast Cells.” PNAS 113, no. 7 (2016): 1811–16. https://doi.org/10.1073/pnas.1419248113.
View | DOI | Download Submitted Version (ext.)
 
2016 | Journal Article | IST-REx-ID: 1248 | OA
Tkacik, Gasper, and William Bialek. “Information Processing in Living Systems.” Annual Review of Condensed Matter Physics 7 (2016): 89–117. https://doi.org/10.1146/annurev-conmatphys-031214-014803.
View | DOI | Download Preprint (ext.)
 
2016 | Journal Article | IST-REx-ID: 1260 | OA
De Martino, Daniele. “The Dual of the Space of Interactions in Neural Network Models.” International Journal of Modern Physics C 27, no. 6 (2016): 1650067. https://doi.org/10.1142/S0129183116500674.
View | DOI | Download Preprint (ext.) | arXiv
 
2016 | Journal Article | IST-REx-ID: 1266 | OA
Chalk, Matthew J, Boris Gutkin, and Sophie Denève. “Neural Oscillations as a Signature of Efficient Coding in the Presence of Synaptic Delays.” ELife 5, no. 2016JULY (2016). https://doi.org/10.7554/eLife.13824.
View | Files available | DOI
 
2016 | Journal Article | IST-REx-ID: 1270 | OA
Hillenbrand, Patrick, Ulrich Gerland, and Gašper Tkačik. “Beyond the French Flag Model: Exploiting Spatial and Gene Regulatory Interactions for Positional Information.” PLoS One 11, no. 9 (2016). https://doi.org/10.1371/journal.pone.0163628.
View | Files available | DOI
 
2016 | Conference Paper | IST-REx-ID: 1320
Lang, Moritz, and Eduardo Sontag. “Scale-Invariant Systems Realize Nonlinear Differential Operators,” Vol. 2016–July. IEEE, 2016. https://doi.org/10.1109/ACC.2016.7526722.
View | Files available | DOI
 
2016 | Journal Article | IST-REx-ID: 1290 | OA
Stone, Laura, Michael Baym, Tami Lieberman, Remy P Chait, Jon Clardy, and Roy Kishony. “Compounds That Select against the Tetracycline-Resistance Efflux Pump.” Nature Chemical Biology 12, no. 11 (2016): 902–4. https://doi.org/10.1038/nchembio.2176.
View | DOI | Download Preprint (ext.)
 
2016 | Journal Article | IST-REx-ID: 1394 | OA
De Martino, Daniele, Fabrizio Capuani, and Andrea De Martino. “Growth against Entropy in Bacterial Metabolism: The Phenotypic Trade-off behind Empirical Growth Rate Distributions in E. Coli.” Physical Biology 13, no. 3 (2016). https://doi.org/10.1088/1478-3975/13/3/036005.
View | DOI | Download Preprint (ext.)
 
2016 | Journal Article | IST-REx-ID: 1420 | OA
Bod’ová, Katarína, Gasper Tkacik, and Nicholas H Barton. “A General Approximation for the Dynamics of Quantitative Traits.” Genetics 202, no. 4 (2016): 1523–48. https://doi.org/10.1534/genetics.115.184127.
View | DOI | Download Preprint (ext.) | arXiv
 

Search

Filter Publications