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126 Publications
2019 | Research Data Reference | IST-REx-ID: 9786
Supporting text and results
J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, (2019).
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J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, (2019).
2019 | Conference Paper | IST-REx-ID: 7147
Transient memory in gene regulation
C.C. Guet, T.A. Henzinger, C. Igler, T. Petrov, A. Sezgin, in:, 17th International Conference on Computational Methods in Systems Biology, Springer Nature, 2019, pp. 155–187.
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C.C. Guet, T.A. Henzinger, C. Igler, T. Petrov, A. Sezgin, in:, 17th International Conference on Computational Methods in Systems Biology, Springer Nature, 2019, pp. 155–187.
2019 | Journal Article | IST-REx-ID: 138 | 
Autoregulation of bacterial gene expression: lessons from the MazEF toxin–antitoxin system
N. Nikolic, Current Genetics 65 (2019) 133–138.
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N. Nikolic, Current Genetics 65 (2019) 133–138.
2019 | Journal Article | IST-REx-ID: 196 |
Harmonic dynamics of the Abelian sandpile
M. Lang, M. Shkolnikov, Proceedings of the National Academy of Sciences 116 (2019) 2821–2830.
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M. Lang, M. Shkolnikov, Proceedings of the National Academy of Sciences 116 (2019) 2821–2830.
2019 | Research Data | IST-REx-ID: 7016 |
Data for the paper "Gene amplification as a form of population-level gene expression regulation"
I. Tomanek, (2019).
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I. Tomanek, (2019).
2019 | Thesis | IST-REx-ID: 6371 |
On the nature of gene regulatory design - The biophysics of transcription factor binding shapes gene regulation
C. Igler, On the Nature of Gene Regulatory Design - The Biophysics of Transcription Factor Binding Shapes Gene Regulation, Institute of Science and Technology Austria, 2019.
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C. Igler, On the Nature of Gene Regulatory Design - The Biophysics of Transcription Factor Binding Shapes Gene Regulation, Institute of Science and Technology Austria, 2019.
2018 | Journal Article | IST-REx-ID: 305
Fabrication and operation of microfluidic hanging drop networks
P. Misun, A. Birchler, M. Lang, A. Hierlemann, O. Frey, Methods in Molecular Biology 1771 (2018) 183–202.
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P. Misun, A. Birchler, M. Lang, A. Hierlemann, O. Frey, Methods in Molecular Biology 1771 (2018) 183–202.
2018 | Journal Article | IST-REx-ID: 723 |
How to escape local optima in black box optimisation when non elitism outperforms elitism
P. Oliveto, T. Paixao, J. Pérez Heredia, D. Sudholt, B. Trubenova, Algorithmica 80 (2018) 1604–1633.
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P. Oliveto, T. Paixao, J. Pérez Heredia, D. Sudholt, B. Trubenova, Algorithmica 80 (2018) 1604–1633.
2018 | Journal Article | IST-REx-ID: 503
Lack of cations in flow cytometry buffers affect fluorescence signals by reducing membrane stability and viability of Escherichia coli strains
K. Tomasek, T. Bergmiller, C.C. Guet, Journal of Biotechnology 268 (2018) 40–52.
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K. Tomasek, T. Bergmiller, C.C. Guet, Journal of Biotechnology 268 (2018) 40–52.
2018 | Journal Article | IST-REx-ID: 82 |
Leaky resistance and the conditions for the existence of lytic bacteriophage
W. Chaudhry, M. Pleska, N. Shah, H. Weiss, I. Mccall, J. Meyer, A. Gupta, C.C. Guet, B. Levin, PLoS Biology 16 (2018).
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W. Chaudhry, M. Pleska, N. Shah, H. Weiss, I. Mccall, J. Meyer, A. Gupta, C.C. Guet, B. Levin, PLoS Biology 16 (2018).
2018 | Research Data Reference | IST-REx-ID: 9810
Numerical data used in figures
W. Chaudhry, M. Pleska, N. Shah, H. Weiss, I. Mccall, J. Meyer, A. Gupta, C.C. Guet, B. Levin, (2018).
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W. Chaudhry, M. Pleska, N. Shah, H. Weiss, I. Mccall, J. Meyer, A. Gupta, C.C. Guet, B. Levin, (2018).
2018 | Journal Article | IST-REx-ID: 457
Phage-host population dynamics promotes prophage acquisition in bacteria with innate immunity
M. Pleska, M. Lang, D. Refardt, B. Levin, C.C. Guet, Nature Ecology and Evolution 2 (2018) 359–366.
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M. Pleska, M. Lang, D. Refardt, B. Levin, C.C. Guet, Nature Ecology and Evolution 2 (2018) 359–366.
2018 | Journal Article | IST-REx-ID: 5984 |
Optical functionalization of human class A orphan G-protein-coupled receptors
M. Morri, I. Sanchez-Romero, A.-M. Tichy, S. Kainrath, E.J. Gerrard, P. Hirschfeld, J. Schwarz, H.L. Janovjak, Nature Communications 9 (2018).
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M. Morri, I. Sanchez-Romero, A.-M. Tichy, S. Kainrath, E.J. Gerrard, P. Hirschfeld, J. Schwarz, H.L. Janovjak, Nature Communications 9 (2018).
2018 | Journal Article | IST-REx-ID: 19 |
Nonoptimal gene expression creates latent potential for antibiotic resistance
A. Palmer, R.P. Chait, R. Kishony, Molecular Biology and Evolution 35 (2018) 2669–2684.
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A. Palmer, R.P. Chait, R. Kishony, Molecular Biology and Evolution 35 (2018) 2669–2684.
2018 | Journal Article | IST-REx-ID: 438 |
Autoregulation of mazEF expression underlies growth heterogeneity in bacterial populations
N. Nikolic, T. Bergmiller, A. Vandervelde, T. Albanese, L. Gelens, I. Moll, Nucleic Acids Research 46 (2018) 2918–2931.
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N. Nikolic, T. Bergmiller, A. Vandervelde, T. Albanese, L. Gelens, I. Moll, Nucleic Acids Research 46 (2018) 2918–2931.
2018 | Research Data | IST-REx-ID: 5569 |
Time-lapse microscopy data
T. Bergmiller, N. Nikolic, (2018).
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T. Bergmiller, N. Nikolic, (2018).
2018 | Journal Article | IST-REx-ID: 161 |
Statistical mechanics for metabolic networks during steady state growth
D. De Martino, A.A. Mc, T. Bergmiller, C.C. Guet, G. Tkačik, Nature Communications 9 (2018).
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D. De Martino, A.A. Mc, T. Bergmiller, C.C. Guet, G. Tkačik, Nature Communications 9 (2018).
2018 | Thesis | IST-REx-ID: 26 |
The influence of sequence context on the evolution of bacterial gene expression
M. Steinrück, The Influence of Sequence Context on the Evolution of Bacterial Gene Expression, Institute of Science and Technology Austria, 2018.
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M. Steinrück, The Influence of Sequence Context on the Evolution of Bacterial Gene Expression, Institute of Science and Technology Austria, 2018.
2018 | Journal Article | IST-REx-ID: 67 |
Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkačik, J.P. Bollback, C.C. Guet, Nature Ecology and Evolution 2 (2018) 1633–1643.
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C. Igler, M. Lagator, G. Tkačik, J.P. Bollback, C.C. Guet, Nature Ecology and Evolution 2 (2018) 1633–1643.
2018 | Research Data | IST-REx-ID: 5585 |
Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkačik, J.P. Bollback, C.C. Guet, (2018).
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C. Igler, M. Lagator, G. Tkačik, J.P. Bollback, C.C. Guet, (2018).
2017 | Journal Article | IST-REx-ID: 538 |
Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen
S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak, Angewandte Chemie 129 (2017) 4679–4682.
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S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak, Angewandte Chemie 129 (2017) 4679–4682.
2017 | Journal Article | IST-REx-ID: 570 |
Regulatory network structure determines patterns of intermolecular epistasis
M. Lagator, S. Sarikas, H. Acar, J.P. Bollback, C.C. Guet, ELife 6 (2017).
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M. Lagator, S. Sarikas, H. Acar, J.P. Bollback, C.C. Guet, ELife 6 (2017).
2017 | Journal Article | IST-REx-ID: 613 |
Shaping bacterial population behavior through computer interfaced control of individual cells
R.P. Chait, J. Ruess, T. Bergmiller, G. Tkačik, C.C. Guet, Nature Communications 8 (2017).
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R.P. Chait, J. Ruess, T. Bergmiller, G. Tkačik, C.C. Guet, Nature Communications 8 (2017).
2017 | Journal Article | IST-REx-ID: 624 |
MazF activation promotes translational heterogeneity of the grcA mRNA in Escherichia coli populations
N. Nikolic, Z. Didara, I. Moll, PeerJ 2017 (2017).
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N. Nikolic, Z. Didara, I. Moll, PeerJ 2017 (2017).
2017 | Journal Article | IST-REx-ID: 655 |
Bacterial flagella grow through an injection diffusion mechanism
T. Renault, A. Abraham, T. Bergmiller, G. Paradis, S. Rainville, E. Charpentier, C.C. Guet, Y. Tu, K. Namba, J. Keener, T. Minamino, M. Erhardt, ELife 6 (2017).
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T. Renault, A. Abraham, T. Bergmiller, G. Paradis, S. Rainville, E. Charpentier, C.C. Guet, Y. Tu, K. Namba, J. Keener, T. Minamino, M. Erhardt, ELife 6 (2017).
2017 | Journal Article | IST-REx-ID: 541 |
Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial populations
N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, PLoS Genetics 13 (2017).
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N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, PLoS Genetics 13 (2017).
2017 | Research Data Reference | IST-REx-ID: 9847 |
Supplementary materials and methods; Full data set from effects of mutations in phage restriction sites during escape from restriction–modification
M. Pleska, C.C. Guet, (2017).
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M. Pleska, C.C. Guet, (2017).
2017 | Research Data Reference | IST-REx-ID: 9845
Mathematical model
N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, (2017).
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N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, (2017).
2017 | Research Data Reference | IST-REx-ID: 9849
Modelling and simulation details
M. Lukacisinova, S. Novak, T. Paixao, (2017).
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M. Lukacisinova, S. Novak, T. Paixao, (2017).
2017 | Research Data Reference | IST-REx-ID: 9850
Extensions of the model
M. Lukacisinova, S. Novak, T. Paixao, (2017).
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M. Lukacisinova, S. Novak, T. Paixao, (2017).
2017 | Research Data Reference | IST-REx-ID: 9846
Supplementary methods
N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, (2017).
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N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, (2017).
2017 | Research Data Reference | IST-REx-ID: 9851
Heuristic prediction for multiple stresses
M. Lukacisinova, S. Novak, T. Paixao, (2017).
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M. Lukacisinova, S. Novak, T. Paixao, (2017).
2017 | Research Data Reference | IST-REx-ID: 9852
Resistance frequencies for different combination strategies
M. Lukacisinova, S. Novak, T. Paixao, (2017).
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M. Lukacisinova, S. Novak, T. Paixao, (2017).
2017 | Research Data Reference | IST-REx-ID: 9844
Source data for figures and tables
N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, (2017).
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N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, (2017).
2017 | Journal Article | IST-REx-ID: 561 |
Effects of mutations in phage restriction sites during escape from restriction–modification
M. Pleska, C.C. Guet, Biology Letters 13 (2017).
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M. Pleska, C.C. Guet, Biology Letters 13 (2017).
2017 | Thesis | IST-REx-ID: 202 |
Biology of restriction-modification systems at the single-cell and population level
M. Pleska, Biology of Restriction-Modification Systems at the Single-Cell and Population Level, Institute of Science and Technology Austria, 2017.
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M. Pleska, Biology of Restriction-Modification Systems at the Single-Cell and Population Level, Institute of Science and Technology Austria, 2017.
2017 | Journal Article | IST-REx-ID: 1351 |
Model checking the evolution of gene regulatory networks
M. Giacobbe, C.C. Guet, A. Gupta, T.A. Henzinger, T. Paixao, T. Petrov, Acta Informatica 54 (2017) 765–787.
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M. Giacobbe, C.C. Guet, A. Gupta, T.A. Henzinger, T. Paixao, T. Petrov, Acta Informatica 54 (2017) 765–787.
2017 | Journal Article | IST-REx-ID: 1336 |
Towards a runtime comparison of natural and artificial evolution
T. Paixao, J. Pérez Heredia, D. Sudholt, B. Trubenova, Algorithmica 78 (2017) 681–713.
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T. Paixao, J. Pérez Heredia, D. Sudholt, B. Trubenova, Algorithmica 78 (2017) 681–713.
2017 | Journal Article | IST-REx-ID: 1084
Insulation and wiring specificity of BceR like response regulators and their target promoters in Bacillus subtilis
C. Fang, A.A. Nagy-Staron, M. Grafe, R. Heermann, K. Jung, S. Gebhard, T. Mascher, Molecular Microbiology 104 (2017) 16–31.
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C. Fang, A.A. Nagy-Staron, M. Grafe, R. Heermann, K. Jung, S. Gebhard, T. Mascher, Molecular Microbiology 104 (2017) 16–31.
2017 | Journal Article | IST-REx-ID: 954 |
On the mechanistic nature of epistasis in a canonical cis-regulatory element
M. Lagator, T. Paixao, N.H. Barton, J.P. Bollback, C.C. Guet, ELife 6 (2017).
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M. Lagator, T. Paixao, N.H. Barton, J.P. Bollback, C.C. Guet, ELife 6 (2017).
2017 | Journal Article | IST-REx-ID: 1007 |
Zeros of nonlinear systems with input invariances
M. Lang, E. Sontag, Automatica 81C (2017) 46–55.
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M. Lang, E. Sontag, Automatica 81C (2017) 46–55.
2017 | Research Data | IST-REx-ID: 5564 |
Fastq files for "Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection"
M. Steinrück, C.C. Guet, (2017).
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M. Steinrück, C.C. Guet, (2017).
2017 | Research Data | IST-REx-ID: 5560 |
Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity
T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkačik, C.C. Guet, (2017).
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T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkačik, C.C. Guet, (2017).
2017 | Journal Article | IST-REx-ID: 665
Biased partitioning of the multidrug efflux pump AcrAB TolC underlies long lived phenotypic heterogeneity
T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkačik, C.C. Guet, Science 356 (2017) 311–315.
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T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkačik, C.C. Guet, Science 356 (2017) 311–315.
2017 | Journal Article | IST-REx-ID: 1028 |
Green-light-induced inactivation of receptor signaling using cobalamin-binding domains
S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak, Angewandte Chemie - International Edition 56 (2017) 4608–4611.
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S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak, Angewandte Chemie - International Edition 56 (2017) 4608–4611.
2017 | Journal Article | IST-REx-ID: 704 |
Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection
M. Steinrück, C.C. Guet, ELife 6 (2017).
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M. Steinrück, C.C. Guet, ELife 6 (2017).
2017 | Journal Article | IST-REx-ID: 696 |
Stress induced mutagenesis: Stress diversity facilitates the persistence of mutator genes
M. Lukacisinova, S. Novak, T. Paixao, PLoS Computational Biology 13 (2017).
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M. Lukacisinova, S. Novak, T. Paixao, PLoS Computational Biology 13 (2017).
2017 | Journal Article | IST-REx-ID: 735
An effective feedback loop between cell-cell contact duration and morphogen signaling determines cell fate
V. Barone, M. Lang, G. Krens, S. Pradhan, S. Shamipour, K. Sako, M.K. Sikora, C.C. Guet, C.-P.J. Heisenberg, Developmental Cell 43 (2017) 198–211.
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V. Barone, M. Lang, G. Krens, S. Pradhan, S. Shamipour, K. Sako, M.K. Sikora, C.C. Guet, C.-P.J. Heisenberg, Developmental Cell 43 (2017) 198–211.
2016 | Journal Article | IST-REx-ID: 1008
An orthogonal permease–inducer–repressor feedback loop shows bistability
R. Gnügge, L. Dharmarajan, M. Lang, J. Stelling, ACS Synthetic Biology 5 (2016) 1098–1107.
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R. Gnügge, L. Dharmarajan, M. Lang, J. Stelling, ACS Synthetic Biology 5 (2016) 1098–1107.
2016 | Journal Article | IST-REx-ID: 1170
Modular parameter identification of biomolecular networks
M. Lang, J. Stelling, SIAM Journal on Scientific Computing 38 (2016) B988–B1008.
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M. Lang, J. Stelling, SIAM Journal on Scientific Computing 38 (2016) B988–B1008.