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79 Publications

2019 | Journal Article | IST-REx-ID: 6717   OA
Igler, C., & Abedon, S. T. (2019). Commentary: A host-produced quorum-sensing autoinducer controls a phage lysis-lysogeny decision. Frontiers in Microbiology, 10, 1171. https://doi.org/10.3389/fmicb.2019.01171
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2019 | Journal Article | IST-REx-ID: 6465   OA
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. https://doi.org/10.1038/s41467-019-09974-5
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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. IST Austria. https://doi.org/10.15479/AT:ISTA:6371
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2019 | Journal Article | IST-REx-ID: 138   OA
Nikolic, N. (2019). Autoregulation of bacterial gene expression: lessons from the MazEF toxin–antitoxin system. Current Genetics, 65(1), 133–138. https://doi.org/10.1007/s00294-018-0879-8
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2019 | Journal Article | IST-REx-ID: 6784   OA
Ruess, J., Pleska, M., Guet, C. C., & Tkačik, G. (2019). Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology, 15(7). https://doi.org/10.1371/journal.pcbi.1007168
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2018 | Journal Article | IST-REx-ID: 67
Igler, C., Lagator, M., Tkacik, G., Bollback, J. P., & Guet, C. C. (2018). Evolutionary potential of transcription factors for gene regulatory rewiring. Nature Ecology and Evolution, 2(10), 1633–1643. https://doi.org/10.1038/s41559-018-0651-y
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2018 | Journal Article | IST-REx-ID: 82   OA
Chaudhry, W., Pleska, M., Shah, N., Weiss, H., Mccall, I., Meyer, J., … Levin, B. (2018). Leaky resistance and the conditions for the existence of lytic bacteriophage. PLoS Biology, 16(8). https://doi.org/10.1371/journal.pbio.2005971
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2018 | Research Data | IST-REx-ID: 5569
Bergmiller, T., & Nikolic, N. (2018). Time-lapse microscopy data. IST Austria. https://doi.org/10.15479/AT:ISTA:74
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2018 | Journal Article | IST-REx-ID: 19   OA
Palmer, A., Chait, R. P., & Kishony, R. (2018). Nonoptimal gene expression creates latent potential for antibiotic resistance. Molecular Biology and Evolution, 35(11), 2669–2684. https://doi.org/10.1093/molbev/msy163
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2018 | Preprint | IST-REx-ID: 196   OA
Lang, M., & Shkolnikov, M. (2018). Harmonic dynamics of the Abelian sandpile. ArXiv. ArXiv.
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2018 | Journal Article | IST-REx-ID: 305
Misun, P., Birchler, A., Lang, M., Hierlemann, A., & Frey, O. (2018). Fabrication and operation of microfluidic hanging drop networks. Methods in Molecular Biology, 1771, 183–202. https://doi.org/10.1007/978-1-4939-7792-5_15
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2018 | Journal Article | IST-REx-ID: 723   OA
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. https://doi.org/10.1007/s00453-017-0369-2
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2018 | Thesis | IST-REx-ID: 26
Steinrück, M. (2018). The influence of sequence context on the evolution of bacterial gene expression. IST Austria. https://doi.org/10.15479/AT:ISTA:th1059
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2018 | Journal Article | IST-REx-ID: 503
Tomasek, K., Bergmiller, T., & Guet, C. C. (2018). Lack of cations in flow cytometry buffers affect fluorescence signals by reducing membrane stability and viability of Escherichia coli strains. Journal of Biotechnology, 268, 40–52. https://doi.org/10.1016/j.jbiotec.2018.01.008
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2018 | Journal Article | IST-REx-ID: 5984   OA
Morri, M., Sanchez-Romero, I., Tichy, A.-M., Kainrath, S., Gerrard, E. J., Hirschfeld, P., … Janovjak, H. L. (2018). Optical functionalization of human class A orphan G-protein-coupled receptors. Nature Communications, 9(1). https://doi.org/10.1038/s41467-018-04342-1
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2018 | Research Data | IST-REx-ID: 5585
Igler, C., Lagator, M., Tkacik, G., Bollback, J. P., & Guet, C. C. (2018). Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring. IST Austria. https://doi.org/10.15479/AT:ISTA:108
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2018 | Journal Article | IST-REx-ID: 457
Pleska, M., Lang, M., Refardt, D., Levin, B., & Guet, C. C. (2018). Phage-host population dynamics promotes prophage acquisition in bacteria with innate immunity. Nature Ecology and Evolution, 2(2), 359–366. https://doi.org/10.1038/s41559-017-0424-z
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2018 | Journal Article | IST-REx-ID: 438   OA
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. https://doi.org/10.1093/nar/gky079
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2018 | Journal Article | IST-REx-ID: 161   OA
De Martino, D., Mc, A. A., Bergmiller, T., Guet, C. C., & Tkacik, G. (2018). Statistical mechanics for metabolic networks during steady state growth. Nature Communications, 9(1), 2988. https://doi.org/10.1038/s41467-018-05417-9
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2017 | Journal Article | IST-REx-ID: 1084
Fang, C., Nagy-Staron, A. A., Grafe, M., Heermann, R., Jung, K., Gebhard, S., & Mascher, T. (2017). Insulation and wiring specificity of BceR like response regulators and their target promoters in Bacillus subtilis. Molecular Microbiology, 104(1), 16–31. https://doi.org/10.1111/mmi.13597
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2017 | Journal Article | IST-REx-ID: 624   OA
Nikolic, N., Didara, Z., & Moll, I. (2017). MazF activation promotes translational heterogeneity of the grcA mRNA in Escherichia coli populations. PeerJ, 2017(9). https://doi.org/10.7717/peerj.3830
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2017 | Journal Article | IST-REx-ID: 655   OA
Renault, T., Abraham, A., Bergmiller, T., Paradis, G., Rainville, S., Charpentier, E., … Erhardt, M. (2017). Bacterial flagella grow through an injection diffusion mechanism. ELife, 6. https://doi.org/10.7554/eLife.23136
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2017 | Journal Article | IST-REx-ID: 561
Pleska, M., & Guet, C. C. (2017). Effects of mutations in phage restriction sites during escape from restriction–modification. Biology Letters, 13(12). https://doi.org/10.1098/rsbl.2017.0646
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2017 | Journal Article | IST-REx-ID: 1351   OA
Giacobbe, M., Guet, C. C., Gupta, A., Henzinger, T. A., Paixao, T., & Petrov, T. (2017). Model checking the evolution of gene regulatory networks. Acta Informatica, 54(8), 765–787. https://doi.org/10.1007/s00236-016-0278-x
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2017 | Journal Article | IST-REx-ID: 613   OA
Chait, R. P., Ruess, J., Bergmiller, T., Tkacik, G., & Guet, C. C. (2017). Shaping bacterial population behavior through computer interfaced control of individual cells. Nature Communications, 8(1). https://doi.org/10.1038/s41467-017-01683-1
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2017 | Journal Article | IST-REx-ID: 954   OA
Lagator, M., Paixao, T., Barton, N. H., Bollback, J. P., & Guet, C. C. (2017). On the mechanistic nature of epistasis in a canonical cis-regulatory element. ELife, 6. https://doi.org/10.7554/eLife.25192
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2017 | Thesis | IST-REx-ID: 202   OA
Pleska, M. (2017). Biology of restriction-modification systems at the single-cell and population level. IST Austria. https://doi.org/10.15479/AT:ISTA:th_916
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2017 | Journal Article | IST-REx-ID: 1028   OA
Kainrath, S., Stadler, M., Gschaider-Reichhart, E., Distel, M., & Janovjak, H. L. (2017). Green-light-induced inactivation of receptor signaling using cobalamin-binding domains. Angewandte Chemie - International Edition, 56(16), 4608–4611. https://doi.org/10.1002/anie.201611998
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2017 | Journal Article | IST-REx-ID: 570   OA
Lagator, M., Sarikas, S., Acar, H., Bollback, J. P., & Guet, C. C. (2017). Regulatory network structure determines patterns of intermolecular epistasis. ELife, 6. https://doi.org/10.7554/eLife.28921
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2017 | Research Data | IST-REx-ID: 5564
Steinrück, M., & Guet, C. C. (2017). Fastq files for “Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection.” IST Austria. https://doi.org/10.15479/AT:ISTA:65
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2017 | Journal Article | IST-REx-ID: 538   OA
Kainrath, S., Stadler, M., Gschaider-Reichhart, E., Distel, M., & Janovjak, H. L. (2017). Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen. Angewandte Chemie, 129(16), 4679–4682. https://doi.org/10.1002/ange.201611998
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2017 | Journal Article | IST-REx-ID: 665
Bergmiller, T., Andersson, A. M., Tomasek, K., Balleza, E., Kiviet, D., Hauschild, R., … Guet, C. C. (2017). Biased partitioning of the multidrug efflux pump AcrAB TolC underlies long lived phenotypic heterogeneity. Science, 356(6335), 311–315. https://doi.org/10.1126/science.aaf4762
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2017 | Research Data | IST-REx-ID: 5560
Bergmiller, T., Andersson, A. M., Tomasek, K., Balleza, E., Kiviet, D., Hauschild, R., … Guet, C. C. (2017). Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity. IST Austria. https://doi.org/doi:10.15479/AT:ISTA:53
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2017 | Journal Article | IST-REx-ID: 735
Barone, V., Lang, M., Krens, G., Pradhan, S., Shamipour, S., Sako, K., … Heisenberg, C.-P. J. (2017). An effective feedback loop between cell-cell contact duration and morphogen signaling determines cell fate. Developmental Cell, 43(2), 198–211. https://doi.org/10.1016/j.devcel.2017.09.014
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2017 | Journal Article | IST-REx-ID: 696   OA
Lukacisinova, M., Novak, S., & Paixao, T. (2017). Stress induced mutagenesis: Stress diversity facilitates the persistence of mutator genes. PLoS Computational Biology, 13(7), e1005609. https://doi.org/10.1371/journal.pcbi.1005609
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2017 | Journal Article | IST-REx-ID: 704   OA
Steinrück, M., & Guet, C. C. (2017). Complex chromosomal neighborhood effects determine the adaptive potential of a gene under selection. ELife, 6, e25100. https://doi.org/10.7554/eLife.25100
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2017 | Journal Article | IST-REx-ID: 1007   OA
Lang, M., & Sontag, E. (2017). Zeros of nonlinear systems with input invariances. Automatica, 81C, 46–55. https://doi.org/10.1016/j.automatica.2017.03.030
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2017 | Journal Article | IST-REx-ID: 1336   OA
Paixao, T., Pérez Heredia, J., Sudholt, D., & Trubenova, B. (2017). Towards a runtime comparison of natural and artificial evolution. Algorithmica, 78(2), 681–713. https://doi.org/10.1007/s00453-016-0212-1
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2017 | Journal Article | IST-REx-ID: 541   OA
Nikolic, N., Schreiber, F., Dal Co, A., Kiviet, D., Bergmiller, T., Littmann, S., … Ackermann, M. (2017). Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial populations. PLoS Genetics, 13(12). https://doi.org/10.1371/journal.pgen.1007122
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2016 | Journal Article | IST-REx-ID: 1008
Gnügge, R., Dharmarajan, L., Lang, M., & Stelling, J. (2016). An orthogonal permease–inducer–repressor feedback loop shows bistability. ACS Synthetic Biology, 5(10), 1098–1107. https://doi.org/10.1021/acssynbio.6b00013
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2016 | Journal Article | IST-REx-ID: 1250   OA
Boehm, A., Arnoldini, M., Bergmiller, T., Röösli, T., Bigosch, C., & Ackermann, M. (2016). Genetic manipulation of glycogen allocation affects replicative lifespan in E coli. PLoS Genetics, 12(4). https://doi.org/10.1371/journal.pgen.1005974
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2016 | Conference Paper | IST-REx-ID: 1320
Lang, M., & Sontag, E. (2016). Scale-invariant systems realize nonlinear differential operators (Vol. 2016–July). Presented at the ACC: American Control Conference, Boston, MA, USA: IEEE. https://doi.org/10.1109/ACC.2016.7526722
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2016 | Conference Paper | IST-REx-ID: 1349   OA
Oliveto, P., Paixao, T., Heredia, J., Sudholt, D., & Trubenova, B. (2016). When non-elitism outperforms elitism for crossing fitness valleys. In Proceedings of the Genetic and Evolutionary Computation Conference 2016 (pp. 1163–1170). Denver, CO, USA: ACM. https://doi.org/10.1145/2908812.2908909
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2016 | Journal Article | IST-REx-ID: 1332   OA
Chait, R. P., Palmer, A., Yelin, I., & Kishony, R. (2016). Pervasive selection for and against antibiotic resistance in inhomogeneous multistress environments. Nature Communications, 7. https://doi.org/10.1038/ncomms10333
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2016 | Journal Article | IST-REx-ID: 1243
Pleska, M., Qian, L., Okura, R., Bergmiller, T., Wakamoto, Y., Kussell, E., & Guet, C. C. (2016). Bacterial autoimmunity due to a restriction-modification system. Current Biology, 26(3), 404–409. https://doi.org/10.1016/j.cub.2015.12.041
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2016 | Conference Paper | IST-REx-ID: 1220   OA
Mikić, G., Stoll, A., Bevirt, J., Grah, R., & Moore, M. (2016). Fuselage boundary layer ingestion propulsion applied to a thin haul commuter aircraft for optimal efficiency (pp. 1–19). Presented at the AIAA: Aviation Technology, Integration, and Operations Conference, Washington, D.C., USA: AIAA. https://doi.org/10.2514/6.2016-3764
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2016 | Journal Article | IST-REx-ID: 1427   OA
Lagator, M., Igler, C., Moreno, A., Guet, C. C., & Bollback, J. P. (2016). Epistatic interactions in the arabinose cis-regulatory element. Molecular Biology and Evolution, 33(3), 761–769. https://doi.org/10.1093/molbev/msv269
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2016 | Journal Article | IST-REx-ID: 1170
Lang, M., & Stelling, J. (2016). Modular parameter identification of biomolecular networks. SIAM Journal on Scientific Computing, 38(6), B988–B1008. https://doi.org/10.1137/15M103306X
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2016 | Journal Article | IST-REx-ID: 1290   OA
Stone, L., Baym, M., Lieberman, T., Chait, R. P., Clardy, J., & Kishony, R. (2016). Compounds that select against the tetracycline-resistance efflux pump. Nature Chemical Biology, 12(11), 902–904. https://doi.org/10.1038/nchembio.2176
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2016 | Conference Paper | IST-REx-ID: 1524   OA
Beica, A., Guet, C. C., & Petrov, T. (2016). Efficient reduction of kappa models by static inspection of the rule-set (Vol. 9271, pp. 173–191). Presented at the HSB: Hybrid Systems Biology, Madrid, Spain: Springer. https://doi.org/10.1007/978-3-319-26916-0_10
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