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125 Publications

2020 | Preprint | IST-REx-ID: 7463 | OA
Lombardi, Fabrizio, Oren Shriki, Hans J Herrmann, and Lucilla de Arcangelis. “Long-Range Temporal Correlations in the Broadband Resting State Activity of the Human Brain Revealed by Neuronal Avalanches.” BioRxiv. Cold Spring Harbor Laboratory, 2020.
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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: 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 | 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: 7490 | OA
Narasimhan, Madhumitha, Alexander J Johnson, Roshan Prizak, Walter Kaufmann, Shutang Tan, Barbara E Casillas Perez, and Jiří Friml. “Evolutionarily Unique Mechanistic Framework of Clathrin-Mediated Endocytosis in Plants.” ELife 9 (2020). https://doi.org/10.7554/eLife.52067.
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2020 | Journal Article | IST-REx-ID: 7569 | OA
Grah, Rok, and Tamar Friedlander. “The Relation between Crosstalk and Gene Regulation Form Revisited.” PLOS Computational Biology 16, no. 2 (2020). https://doi.org/10.1371/journal.pcbi.1007642.
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2020 | Journal Article | IST-REx-ID: 7652
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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2020 | Journal Article | IST-REx-ID: 7656 | OA
Berry, Michael J., and Gašper Tkačik. “Clustering of Neural Activity: A Design Principle for Population Codes.” Frontiers in Computational Neuroscience 14 (2020). https://doi.org/10.3389/fncom.2020.00020.
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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 | 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 | Preprint | IST-REx-ID: 7553 | OA
Mlynarski, Wiktor F, Michal Hledik, Thomas R Sokolowski, and Gašper Tkačik. “Statistical Analysis and Optimality of Biological Systems.” BioRxiv. Cold Spring Harbor Laboratory, n.d.
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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: 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.
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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 | Journal Article | IST-REx-ID: 196 | OA
Lang, Moritz, and Mikhail Shkolnikov. “Harmonic Dynamics of the Abelian Sandpile.” Proceedings of the National Academy of Sciences 116, no. 8 (2019): 2821–30. https://doi.org/10.1073/pnas.1812015116.
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2019 | Journal Article | IST-REx-ID: 5817
Kavcic, Bor, A. Sakashita, H. Noguchi, and P. Ziherl. “Limiting Shapes of Confined Lipid Vesicles.” Soft Matter 15, no. 4 (2019): 602–14. https://doi.org/10.1039/c8sm01956h.
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2019 | Journal Article | IST-REx-ID: 5945
Petkova, Mariela D., Gašper Tkačik, William Bialek, Eric F. Wieschaus, and Thomas Gregor. “Optimal Decoding of Cellular Identities in a Genetic Network.” Cell 176, no. 4 (2019): 844–855.e15. https://doi.org/10.1016/j.cell.2019.01.007.
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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 | 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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