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127 Publications

2020 | Preprint | IST-REx-ID: 7675 | OA
Grah, Rok, Benjamin Zoller, and Gašper Tkačik. “Normative Models of Enhancer Function.” BioRxiv. Cold Spring Harbor Laboratory, 2020.
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2020 | Journal Article | IST-REx-ID: 8084 | OA
Lombardi, Fabrizio, Manuel Gómez-Extremera, Pedro Bernaola-Galván, Ramalingam Vetrivelan, Clifford B. Saper, Thomas E. Scammell, and Plamen Ch. Ivanov. “Critical Dynamics and Coupling in Bursts of Cortical Rhythms Indicate Non-Homeostatic Mechanism for Sleep-Stage Transitions and Dual Role of VLPO Neurons in Both Sleep and Wake.” Journal of Neuroscience 40, no. 1 (2020): 171–90. https://doi.org/10.1523/jneurosci.1278-19.2019.
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2020 | Journal Article | IST-REx-ID: 8105 | OA
Lombardi, Fabrizio, Jilin W.J.L. Wang, Xiyun Zhang, and Plamen Ch Ivanov. “Power-Law Correlations and Coupling of Active and Quiet States Underlie a Class of Complex Systems with Self-Organization at Criticality.” EPJ Web of Conferences 230 (2020). https://doi.org/10.1051/epjconf/202023000005.
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2020 | Thesis | IST-REx-ID: 8155 | OA
Grah, Rok. Gene Regulation across Scales – How Biophysical Constraints Shape Evolution. IST Austria, 2020. https://doi.org/10.15479/AT:ISTA:8155.
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2020 | Thesis | IST-REx-ID: 8657
Kavcic, Bor. Perturbations of Protein Synthesis: From Antibiotics to Genetics and Physiology. IST Austria, 2020. https://doi.org/10.15479/AT:ISTA:8657.
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2020 | Journal Article | IST-REx-ID: 8250 | OA
Kavcic, Bor, Gašper Tkačik, and Mark Tobias Bollenbach. “Mechanisms of Drug Interactions between Translation-Inhibiting Antibiotics.” Nature Communications 11 (2020). https://doi.org/10.1038/s41467-020-17734-z.
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2020 | Preprint | IST-REx-ID: 7673 | OA
Kavcic, Bor, Gašper Tkačik, and Tobias Bollenbach. “A Minimal Biophysical Model of Combined Antibiotic Action.” BioRxiv. Cold Spring Harbor Laboratory, 2020.
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2020 | Journal Article | IST-REx-ID: 7652 | OA
Tomanek, Isabella, Rok Grah, M. Lagator, A. M. C. Andersson, Jonathan P Bollback, Gašper Tkačik, and Calin C Guet. “Gene Amplification as a Form of Population-Level Gene Expression Regulation.” Nature Ecology & Evolution 4, no. 4 (2020): 612–25. https://doi.org/10.1038/s41559-020-1132-7.
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2019 | Journal Article | IST-REx-ID: 7422 | OA
Sokolowski, Thomas R, Joris Paijmans, Laurens Bossen, Thomas Miedema, Martijn Wehrens, Nils B. Becker, Kazunari Kaizu, Koichi Takahashi, Marileen Dogterom, and Pieter Rein ten Wolde. “EGFRD in All Dimensions.” The Journal of Chemical Physics 150, no. 5 (2019): 054108. https://doi.org/10.1063/1.5064867.
View | DOI | Download Preprint (ext.) | arXiv
 
2019 | Preprint | IST-REx-ID: 7552 | OA
Bialek, William, Thomas Gregor, and Gašper Tkačik. “Action at a Distance in Transcriptional Regulation.” ArXiv:1912.08579. ArXiv, n.d.
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2019 | Conference Paper | IST-REx-ID: 7606 | OA
Hledik, Michal, Thomas R Sokolowski, and Gašper Tkačik. “A Tight Upper Bound on Mutual Information.” In IEEE Information Theory Workshop, ITW 2019, 8989292. IEEE, 2019. https://doi.org/10.1109/ITW44776.2019.8989292.
View | DOI | Download Preprint (ext.) | arXiv
 
2019 | Journal Article | IST-REx-ID: 6046 | OA
Mitosch, Karin, Georg Rieckh, and Mark Tobias Bollenbach. “Temporal Order and Precision of Complex Stress Responses in Individual Bacteria.” Molecular Systems Biology 15, no. 2 (2019). https://doi.org/10.15252/msb.20188470.
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2019 | Journal Article | IST-REx-ID: 6049 | OA
De Martino, Daniele. “Feedback-Induced Self-Oscillations in Large Interacting Systems Subjected to Phase Transitions.” Journal of Physics A: Mathematical and Theoretical 52, no. 4 (2019). https://doi.org/10.1088/1751-8121/aaf2dd.
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2019 | Thesis | IST-REx-ID: 6071 | OA
Prizak, Roshan. Coevolution of Transcription Factors and Their Binding Sites in Sequence Space. IST Austria, 2019. https://doi.org/10.15479/at:ista:th6071.
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2019 | Journal Article | IST-REx-ID: 6090 | OA
Carballo-Pacheco, Martín, Jonathan Desponds, Tatyana Gavrilchenko, Andreas Mayer, Roshan Prizak, Gautam Reddy, Ilya Nemenman, and Thierry Mora. “Receptor Crosstalk Improves Concentration Sensing of Multiple Ligands.” Physical Review E 99, no. 2 (2019). https://doi.org/10.1103/PhysRevE.99.022423.
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2019 | Thesis | IST-REx-ID: 6473 | OA
Cepeda Humerez, Sarah A. Estimating Information Flow in Single Cells. IST Austria, 2019. https://doi.org/10.15479/AT:ISTA:6473.
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2019 | Journal Article | IST-REx-ID: 6784 | OA
Ruess, Jakob, Maros Pleska, Calin C Guet, and Gašper Tkačik. “Molecular Noise of Innate Immunity Shapes Bacteria-Phage Ecologies.” PLoS Computational Biology 15, no. 7 (2019). https://doi.org/10.1371/journal.pcbi.1007168.
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2019 | Journal Article | IST-REx-ID: 6900 | OA
Cepeda Humerez, Sarah A, Jakob Ruess, and Gašper Tkačik. “Estimating Information in Time-Varying Signals.” PLoS Computational Biology 15, no. 9 (2019): e1007290. https://doi.org/10.1371/journal.pcbi.1007290.
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2019 | Preprint | IST-REx-ID: 7083 | OA
Kavcic, Bor, Gašper Tkačik, and Tobias Bollenbach. “Mechanistic Origin of Drug Interactions between Translation-Inhibiting Antibiotics.” BioRxiv. Cold Spring Harbor Laboratory, n.d.
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2019 | Journal Article | IST-REx-ID: 7103 | OA
Wang, Jilin W. J. L., Fabrizio Lombardi, Xiyun Zhang, Christelle Anaclet, and Plamen Ch. Ivanov. “Non-Equilibrium Critical Dynamics of Bursts in θ and δ Rhythms as Fundamental Characteristic of Sleep and Wake Micro-Architecture.” PLOS Computational Biology 15, no. 11 (2019). https://doi.org/10.1371/journal.pcbi.1007268.
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