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.
126 Publications
2020 | Preprint | IST-REx-ID: 7675 | 
Grah R, Zoller B, Tkačik G. 2020. Normative models of enhancer function. bioRxiv, 10.1101/2020.04.08.029405.
[Preprint]
View
| Files available
| DOI
| Download Preprint (ext.)
2020 | Journal Article | IST-REx-ID: 7569 |
Grah R, Friedlander T. 2020. The relation between crosstalk and gene regulation form revisited. PLOS Computational Biology. 16(2), e1007642.
[Published Version]
View
| Files available
| DOI
| WoS
2020 | Research Data | IST-REx-ID: 8951 |
Nagy-Staron AA. 2020. Sequences of gene regulatory network permutations for the article ‘Local genetic context shapes the function of a gene regulatory network’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8951.
[Published Version]
View
| Files available
| DOI
2020 | Research Data | IST-REx-ID: 7383 |
Grah R. 2020. Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7383.
[Published Version]
View
| Files available
| DOI
2020 | Thesis | IST-REx-ID: 7680 |
Kainrath S. 2020. Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals. Institute of Science and Technology Austria.
View
| Files available
| DOI
2020 | Journal Article | IST-REx-ID: 7652 |
Tomanek I, Grah R, Lagator M, Andersson AMC, Bollback JP, Tkačik G, Guet CC. 2020. Gene amplification as a form of population-level gene expression regulation. Nature Ecology & Evolution. 4(4), 612–625.
[Submitted Version]
View
| Files available
| DOI
| WoS
2020 | Thesis | IST-REx-ID: 8653 |
Tomanek I. 2020. The evolution of gene expression by copy number and point mutations. Institute of Science and Technology Austria.
[Published Version]
View
| Files available
| DOI
2019 | Journal Article | IST-REx-ID: 6465 |
Chassin H, Müller M, Tigges M, Scheller L, Lang M, Fussenegger M. 2019. A modular degron library for synthetic circuits in mammalian cells. Nature Communications. 10(1), 2013.
[Published Version]
View
| Files available
| DOI
| WoS
2019 | Journal Article | IST-REx-ID: 6717 |
Igler C, Abedon ST. 2019. Commentary: A host-produced quorum-sensing autoinducer controls a phage lysis-lysogeny decision. Frontiers in Microbiology. 10, 1171.
[Published Version]
View
| Files available
| DOI
| WoS
2019 | Journal Article | IST-REx-ID: 6784 |
Ruess J, Pleska M, Guet CC, Tkačik G. 2019. Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology. 15(7), e1007168.
[Published Version]
View
| Files available
| DOI
| WoS
2019 | Research Data Reference | IST-REx-ID: 9786
Ruess J, Pleska M, Guet CC, Tkačik G. 2019. Supporting text and results, Public Library of Science, 10.1371/journal.pcbi.1007168.s001.
[Published Version]
View
| Files available
| DOI
2019 | Conference Paper | IST-REx-ID: 7147
Guet CC, Henzinger TA, Igler C, Petrov T, Sezgin A. 2019. Transient memory in gene regulation. 17th International Conference on Computational Methods in Systems Biology. CMSB: Computational Methods in Systems Biology, LNCS, vol. 11773, 155–187.
View
| DOI
| WoS
2019 | Journal Article | IST-REx-ID: 138 |
Nikolic N. 2019. Autoregulation of bacterial gene expression: lessons from the MazEF toxin–antitoxin system. Current Genetics. 65(1), 133–138.
[Published Version]
View
| Files available
| DOI
| WoS
2019 | Journal Article | IST-REx-ID: 196 |
Lang M, Shkolnikov M. 2019. Harmonic dynamics of the Abelian sandpile. Proceedings of the National Academy of Sciences. 116(8), 2821–2830.
[Published Version]
View
| Files available
| DOI
| Download Published Version (ext.)
| WoS
| PubMed | Europe PMC
| arXiv
2019 | Research Data | IST-REx-ID: 7016 |
Tomanek I. 2019. Data for the paper ‘Gene amplification as a form of population-level gene expression regulation’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7016.
[Published Version]
View
| Files available
| DOI
2019 | Thesis | IST-REx-ID: 6371 |
Igler C. 2019. On the nature of gene regulatory design - The biophysics of transcription factor binding shapes gene regulation. Institute of Science and Technology Austria.
[Published Version]
View
| Files available
| DOI
2018 | Journal Article | IST-REx-ID: 723 |
Oliveto P, Paixao T, Pérez Heredia J, Sudholt D, Trubenova B. 2018. How to escape local optima in black box optimisation when non elitism outperforms elitism. Algorithmica. 80(5), 1604–1633.
[Published Version]
View
| Files available
| DOI
| WoS
2018 | Journal Article | IST-REx-ID: 82 |
Chaudhry W, Pleska M, Shah N, Weiss H, Mccall I, Meyer J, Gupta A, Guet CC, Levin B. 2018. Leaky resistance and the conditions for the existence of lytic bacteriophage. PLoS Biology. 16(8), 2005971.
[Published Version]
View
| Files available
| DOI
| WoS
2018 | Research Data Reference | IST-REx-ID: 9810
Chaudhry W, Pleska M, Shah N, Weiss H, Mccall I, Meyer J, Gupta A, Guet CC, Levin B. 2018. Numerical data used in figures, Public Library of Science, 10.1371/journal.pbio.2005971.s008.
[Published Version]
View
| Files available
| DOI
2018 | Journal Article | IST-REx-ID: 457
Pleska M, Lang M, Refardt D, Levin B, Guet CC. 2018. Phage-host population dynamics promotes prophage acquisition in bacteria with innate immunity. Nature Ecology and Evolution. 2(2), 359–366.
View
| Files available
| DOI
| WoS
2018 | Journal Article | IST-REx-ID: 5984 |
Morri M, Sanchez-Romero I, Tichy A-M, Kainrath S, Gerrard EJ, Hirschfeld P, Schwarz J, Janovjak HL. 2018. Optical functionalization of human class A orphan G-protein-coupled receptors. Nature Communications. 9(1), 1950.
[Published Version]
View
| Files available
| DOI
| WoS
2018 | Journal Article | IST-REx-ID: 19 |
Palmer A, Chait RP, Kishony R. 2018. Nonoptimal gene expression creates latent potential for antibiotic resistance. Molecular Biology and Evolution. 35(11), 2669–2684.
[Submitted Version]
View
| DOI
| Download Submitted Version (ext.)
| WoS
| PubMed | Europe PMC
2018 | Journal Article | IST-REx-ID: 438 |
Nikolic N, Bergmiller T, Vandervelde A, Albanese T, Gelens L, Moll I. 2018. Autoregulation of mazEF expression underlies growth heterogeneity in bacterial populations. Nucleic Acids Research. 46(6), 2918–2931.
[Published Version]
View
| Files available
| DOI
| WoS
2018 | Research Data | IST-REx-ID: 5569 |
Bergmiller T, Nikolic N. 2018. Time-lapse microscopy data, Institute of Science and Technology Austria, 10.15479/AT:ISTA:74.
[Published Version]
View
| Files available
| DOI
2018 | Journal Article | IST-REx-ID: 161 |
De Martino D, Mc AA, Bergmiller T, Guet CC, Tkačik G. 2018. Statistical mechanics for metabolic networks during steady state growth. Nature Communications. 9(1), 2988.
[Published Version]
View
| Files available
| DOI
| WoS
2018 | Thesis | IST-REx-ID: 26 |
Steinrück M. 2018. The influence of sequence context on the evolution of bacterial gene expression. Institute of Science and Technology Austria.
[Published Version]
View
| Files available
| DOI
2018 | Journal Article | IST-REx-ID: 67 |
Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Evolutionary potential of transcription factors for gene regulatory rewiring. Nature Ecology and Evolution. 2(10), 1633–1643.
[Submitted Version]
View
| Files available
| DOI
| WoS
2018 | Research Data | IST-REx-ID: 5585 |
Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring, Institute of Science and Technology Austria, 10.15479/AT:ISTA:108.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 538 |
Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. 2017. Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen. Angewandte Chemie. 129(16), 4679–4682.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 570 |
Lagator M, Sarikas S, Acar H, Bollback JP, Guet CC. 2017. Regulatory network structure determines patterns of intermolecular epistasis. eLife. 6, e28921.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 613 |
Chait RP, Ruess J, Bergmiller T, Tkačik G, Guet CC. 2017. Shaping bacterial population behavior through computer interfaced control of individual cells. Nature Communications. 8(1), 1535.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 624 |
Nikolic N, Didara Z, Moll I. 2017. MazF activation promotes translational heterogeneity of the grcA mRNA in Escherichia coli populations. PeerJ. 2017(9), 3830.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 655 |
Renault T, Abraham A, Bergmiller T, Paradis G, Rainville S, Charpentier E, Guet CC, Tu Y, Namba K, Keener J, Minamino T, Erhardt M. 2017. Bacterial flagella grow through an injection diffusion mechanism. eLife. 6, e23136.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 541 |
Nikolic N, Schreiber F, Dal Co A, Kiviet D, Bergmiller T, Littmann S, Kuypers M, Ackermann M. 2017. Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial populations. PLoS Genetics. 13(12), e1007122.
[Published Version]
View
| Files available
| DOI
2017 | Research Data Reference | IST-REx-ID: 9847 |
Pleska M, Guet CC. 2017. Supplementary materials and methods; Full data set from effects of mutations in phage restriction sites during escape from restriction–modification, The Royal Society, 10.6084/m9.figshare.5633917.v1.
[Published Version]
View
| Files available
| DOI
| Download Published Version (ext.)
2017 | Research Data Reference | IST-REx-ID: 9845
Nikolic N, Schreiber F, Dal Co A, Kiviet D, Bergmiller T, Littmann S, Kuypers M, Ackermann M. 2017. Mathematical model, Public Library of Science, 10.1371/journal.pgen.1007122.s017.
View
| Files available
| DOI
2017 | Research Data Reference | IST-REx-ID: 9849
Lukacisinova M, Novak S, Paixao T. 2017. Modelling and simulation details, Public Library of Science, 10.1371/journal.pcbi.1005609.s001.
[Published Version]
View
| Files available
| DOI
2017 | Research Data Reference | IST-REx-ID: 9850
Lukacisinova M, Novak S, Paixao T. 2017. Extensions of the model, Public Library of Science, 10.1371/journal.pcbi.1005609.s002.
[Published Version]
View
| Files available
| DOI
2017 | Research Data Reference | IST-REx-ID: 9846
Nikolic N, Schreiber F, Dal Co A, Kiviet D, Bergmiller T, Littmann S, Kuypers M, Ackermann M. 2017. Supplementary methods, Public Library of Science, 10.1371/journal.pgen.1007122.s016.
[Published Version]
View
| Files available
| DOI
2017 | Research Data Reference | IST-REx-ID: 9851
Lukacisinova M, Novak S, Paixao T. 2017. Heuristic prediction for multiple stresses, Public Library of Science, 10.1371/journal.pcbi.1005609.s003.
[Published Version]
View
| Files available
| DOI
2017 | Research Data Reference | IST-REx-ID: 9852
Lukacisinova M, Novak S, Paixao T. 2017. Resistance frequencies for different combination strategies, Public Library of Science, 10.1371/journal.pcbi.1005609.s004.
[Published Version]
View
| Files available
| DOI
2017 | Research Data Reference | IST-REx-ID: 9844
Nikolic N, Schreiber F, Dal Co A, Kiviet D, Bergmiller T, Littmann S, Kuypers M, Ackermann M. 2017. Source data for figures and tables, Public Library of Science, 10.1371/journal.pgen.1007122.s018.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 561 |
Pleska M, Guet CC. 2017. Effects of mutations in phage restriction sites during escape from restriction–modification. Biology Letters. 13(12), 20170646.
[Published Version]
View
| Files available
| DOI
| Download Published Version (ext.)
| PubMed | Europe PMC
2017 | Thesis | IST-REx-ID: 202 |
Pleska M. 2017. Biology of restriction-modification systems at the single-cell and population level. Institute of Science and Technology Austria.
[Published Version]
View
| Files available
| DOI
2017 | Journal Article | IST-REx-ID: 1351 |
Giacobbe M, Guet CC, Gupta A, Henzinger TA, Paixao T, Petrov T. 2017. Model checking the evolution of gene regulatory networks. Acta Informatica. 54(8), 765–787.
[Published Version]
View
| Files available
| DOI
| WoS
2017 | Journal Article | IST-REx-ID: 1336 |
Paixao T, Pérez Heredia J, Sudholt D, Trubenova B. 2017. Towards a runtime comparison of natural and artificial evolution. Algorithmica. 78(2), 681–713.
[Published Version]
View
| Files available
| DOI
| WoS
2017 | Journal Article | IST-REx-ID: 954 |
Lagator M, Paixao T, Barton NH, Bollback JP, Guet CC. 2017. On the mechanistic nature of epistasis in a canonical cis-regulatory element. eLife. 6, e25192.
[Published Version]
View
| Files available
| DOI
| WoS