Chaudhry, Waqas, Maros Pleska, Nilang Shah, Howard Weiss, Ingrid Mccall, Justin Meyer, Animesh Gupta, Calin C Guet, and Bruce Levin. “Numerical Data Used in Figures.”https://doi.org/10.1371/journal.pbio.2005971.s008__Public Library of Science, 2018.https://doi.org/10.1371/journal.pbio.2005971.s008 .
LibreCat: https://research-explorer.ista.ac.at/record/9810
DOI: 10.1371/journal.pbio.2005971.s008

Pleska, Maros, Moritz Lang, Dominik Refardt, Bruce Levin, and Calin C Guet. “Phage-Host Population Dynamics Promotes Prophage Acquisition in Bacteria with Innate Immunity.”https://doi.org/10.1038/s41559-017-0424-z__Nature Ecology and Evolution. Springer Nature, 2018.https://doi.org/10.1038/s41559-017-0424-z .
LibreCat: https://research-explorer.ista.ac.at/record/457
DOI: 10.1038/s41559-017-0424-z
WoS: 000426516400027

Morri, Maurizio, Inmaculada Sanchez-Romero, Alexandra-Madelaine Tichy, Stephanie Kainrath, Elliot J. Gerrard, Priscila Hirschfeld, Jan Schwarz, and Harald L Janovjak. “Optical Functionalization of Human Class A Orphan G-Protein-Coupled Receptors.”https://doi.org/10.1038/s41467-018-04342-1__Nature Communications. Springer Nature, 2018.https://doi.org/10.1038/s41467-018-04342-1 .
LibreCat: https://research-explorer.ista.ac.at/record/5984
DOI: 10.1038/s41467-018-04342-1
WoS: 000432280000006

Palmer, Adam, Remy P Chait, and Roy Kishony. “Nonoptimal Gene Expression Creates Latent Potential for Antibiotic Resistance.”https://doi.org/10.1093/molbev/msy163__Molecular Biology and Evolution. Oxford University Press, 2018.https://doi.org/10.1093/molbev/msy163 .
LibreCat: https://research-explorer.ista.ac.at/record/19
DOI: 10.1093/molbev/msy163
WoS: 000452567200006
PMID: 30169679

Nikolic, Nela, Tobias Bergmiller, Alexandra Vandervelde, Tanino Albanese, Lendert Gelens, and Isabella Moll. “Autoregulation of MazEF Expression Underlies Growth Heterogeneity in Bacterial Populations.”https://doi.org/10.1093/nar/gky079__Nucleic Acids Research. Oxford University Press, 2018.https://doi.org/10.1093/nar/gky079 .
LibreCat: https://research-explorer.ista.ac.at/record/438
DOI: 10.1093/nar/gky079
WoS: 000429009500021

Bergmiller, Tobias, and Nela Nikolic. “Time-Lapse Microscopy Data.”https://doi.org/10.15479/AT:ISTA:74__Institute of Science and Technology Austria, 2018.https://doi.org/10.15479/AT:ISTA:74 .
LibreCat: https://research-explorer.ista.ac.at/record/5569
DOI: 10.15479/AT:ISTA:74

De Martino, Daniele, Andersson Anna Mc, Tobias Bergmiller, Calin C Guet, and Gasper Tkadik. “Statistical Mechanics for Metabolic Networks during Steady State Growth.”https://doi.org/10.1038/s41467-018-05417-9__Nature Communications. Springer Nature, 2018.https://doi.org/10.1038/s41467-018-05417-9 .
LibreCat: https://research-explorer.ista.ac.at/record/161
DOI: 10.1038/s41467-018-05417-9
WoS: 000440149300021

Steinrück, Magdalena. “The Influence of Sequence Context on the Evolution of Bacterial Gene Expression.”https://doi.org/10.15479/AT:ISTA:th1059__Institute of Science and Technology Austria, 2018.https://doi.org/10.15479/AT:ISTA:th1059 .
LibreCat: https://research-explorer.ista.ac.at/record/26
DOI: 10.15479/AT:ISTA:th1059

Igler, Claudia, Mato Lagator, Gasper Tkadik, Jonathan P Bollback, and Calin C Guet. “Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring.”https://doi.org/10.1038/s41559-018-0651-y__Nature Ecology and Evolution. Nature Publishing Group, 2018.https://doi.org/10.1038/s41559-018-0651-y .
LibreCat: https://research-explorer.ista.ac.at/record/67
DOI: 10.1038/s41559-018-0651-y
WoS: 000447947600021

Igler, Claudia, Mato Lagator, Gasper Tkadik, Jonathan P Bollback, and Calin C Guet. “Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring.”https://doi.org/10.15479/AT:ISTA:108__Institute of Science and Technology Austria, 2018.https://doi.org/10.15479/AT:ISTA:108 .
LibreCat: https://research-explorer.ista.ac.at/record/5585
DOI: 10.15479/AT:ISTA:108

Kainrath, Stephanie, Manuela Stadler, Eva Gschaider-Reichhart, Martin Distel, and Harald L Janovjak. “Grünlicht-Induzierte Rezeptorinaktivierung Durch Cobalamin-Bindende Domänen.”https://doi.org/10.1002/ange.201611998__Angewandte Chemie. Wiley, 2017.https://doi.org/10.1002/ange.201611998 .
LibreCat: https://research-explorer.ista.ac.at/record/538
DOI: 10.1002/ange.201611998

Lagator, Mato, Srdjan Sarikas, Hande Acar, Jonathan P Bollback, and Calin C Guet. “Regulatory Network Structure Determines Patterns of Intermolecular Epistasis.”https://doi.org/10.7554/eLife.28921__ELife. eLife Sciences Publications, 2017.https://doi.org/10.7554/eLife.28921 .
LibreCat: https://research-explorer.ista.ac.at/record/570
DOI: 10.7554/eLife.28921

Chait, Remy P, Jakob Ruess, Tobias Bergmiller, Gasper Tkadik, and Calin C Guet. “Shaping Bacterial Population Behavior through Computer Interfaced Control of Individual Cells.”https://doi.org/10.1038/s41467-017-01683-1__Nature Communications. Nature Publishing Group, 2017.https://doi.org/10.1038/s41467-017-01683-1 .
LibreCat: https://research-explorer.ista.ac.at/record/613
DOI: 10.1038/s41467-017-01683-1

Nikolic, Nela, Zrinka Didara, and Isabella Moll. “MazF Activation Promotes Translational Heterogeneity of the GrcA MRNA in Escherichia Coli Populations.”https://doi.org/10.7717/peerj.3830__PeerJ. PeerJ, 2017.https://doi.org/10.7717/peerj.3830 .
LibreCat: https://research-explorer.ista.ac.at/record/624
DOI: 10.7717/peerj.3830

Renault, Thibaud, Anthony Abraham, Tobias Bergmiller, Guillaume Paradis, Simon Rainville, Emmanuelle Charpentier, Calin C Guet, et al. “Bacterial Flagella Grow through an Injection Diffusion Mechanism.”https://doi.org/10.7554/eLife.23136__ELife. eLife Sciences Publications, 2017.https://doi.org/10.7554/eLife.23136 .
LibreCat: https://research-explorer.ista.ac.at/record/655
DOI: 10.7554/eLife.23136

Nikolic, Nela, Frank Schreiber, Alma Dal Co, Daniel Kiviet, Tobias Bergmiller, Sten Littmann, Marcel Kuypers, and Martin Ackermann. “Cell-to-Cell Variation and Specialization in Sugar Metabolism in Clonal Bacterial Populations.”https://doi.org/10.1371/journal.pgen.1007122__PLoS Genetics. Public Library of Science, 2017.https://doi.org/10.1371/journal.pgen.1007122 .
LibreCat: https://research-explorer.ista.ac.at/record/541
DOI: 10.1371/journal.pgen.1007122

Pleska, Maros, and Calin C Guet. “Supplementary Materials and Methods; Full Data Set from Effects of Mutations in Phage Restriction Sites during Escape from Restriction–Modification.”https://doi.org/10.6084/m9.figshare.5633917.v1__The Royal Society, 2017.https://doi.org/10.6084/m9.figshare.5633917.v1 .
LibreCat: https://research-explorer.ista.ac.at/record/9847
DOI: 10.6084/m9.figshare.5633917.v1

Nikolic, Nela, Frank Schreiber, Alma Dal Co, Daniel Kiviet, Tobias Bergmiller, Sten Littmann, Marcel Kuypers, and Martin Ackermann. “Mathematical Model.”https://doi.org/10.1371/journal.pgen.1007122.s017__Public Library of Science, 2017.https://doi.org/10.1371/journal.pgen.1007122.s017 .
LibreCat: https://research-explorer.ista.ac.at/record/9845
DOI: 10.1371/journal.pgen.1007122.s017

Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Modelling and Simulation Details.”https://doi.org/10.1371/journal.pcbi.1005609.s001__Public Library of Science, 2017.https://doi.org/10.1371/journal.pcbi.1005609.s001 .
LibreCat: https://research-explorer.ista.ac.at/record/9849
DOI: 10.1371/journal.pcbi.1005609.s001

Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Extensions of the Model.”https://doi.org/10.1371/journal.pcbi.1005609.s002__Public Library of Science, 2017.https://doi.org/10.1371/journal.pcbi.1005609.s002 .
LibreCat: https://research-explorer.ista.ac.at/record/9850
DOI: 10.1371/journal.pcbi.1005609.s002

Nikolic, Nela, Frank Schreiber, Alma Dal Co, Daniel Kiviet, Tobias Bergmiller, Sten Littmann, Marcel Kuypers, and Martin Ackermann. “Supplementary Methods.”https://doi.org/10.1371/journal.pgen.1007122.s016__Public Library of Science, 2017.https://doi.org/10.1371/journal.pgen.1007122.s016 .
LibreCat: https://research-explorer.ista.ac.at/record/9846
DOI: 10.1371/journal.pgen.1007122.s016

Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Heuristic Prediction for Multiple Stresses.”https://doi.org/10.1371/journal.pcbi.1005609.s003__Public Library of Science, 2017.https://doi.org/10.1371/journal.pcbi.1005609.s003 .
LibreCat: https://research-explorer.ista.ac.at/record/9851
DOI: 10.1371/journal.pcbi.1005609.s003

Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Resistance Frequencies for Different Combination Strategies.”https://doi.org/10.1371/journal.pcbi.1005609.s004__Public Library of Science, 2017.https://doi.org/10.1371/journal.pcbi.1005609.s004 .
LibreCat: https://research-explorer.ista.ac.at/record/9852
DOI: 10.1371/journal.pcbi.1005609.s004

Nikolic, Nela, Frank Schreiber, Alma Dal Co, Daniel Kiviet, Tobias Bergmiller, Sten Littmann, Marcel Kuypers, and Martin Ackermann. “Source Data for Figures and Tables.”https://doi.org/10.1371/journal.pgen.1007122.s018__Public Library of Science, 2017.https://doi.org/10.1371/journal.pgen.1007122.s018 .
LibreCat: https://research-explorer.ista.ac.at/record/9844
DOI: 10.1371/journal.pgen.1007122.s018

Pleska, Maros, and Calin C Guet. “Effects of Mutations in Phage Restriction Sites during Escape from Restriction–Modification.”https://doi.org/10.1098/rsbl.2017.0646__Biology Letters. The Royal Society, 2017.https://doi.org/10.1098/rsbl.2017.0646 .
LibreCat: https://research-explorer.ista.ac.at/record/561
DOI: 10.1098/rsbl.2017.0646
PMID: 29237814

Pleska, Maros. “Biology of Restriction-Modification Systems at the Single-Cell and Population Level.”https://doi.org/10.15479/AT:ISTA:th_916__Institute of Science and Technology Austria, 2017.https://doi.org/10.15479/AT:ISTA:th_916 .
LibreCat: https://research-explorer.ista.ac.at/record/202
DOI: 10.15479/AT:ISTA:th_916

Giacobbe, Mirco, Calin C Guet, Ashutosh Gupta, Thomas A Henzinger, Tiago Paixao, and Tatjana Petrov. “Model Checking the Evolution of Gene Regulatory Networks.”https://doi.org/10.1007/s00236-016-0278-x__Acta Informatica. Springer, 2017.https://doi.org/10.1007/s00236-016-0278-x .
LibreCat: https://research-explorer.ista.ac.at/record/1351
DOI: 10.1007/s00236-016-0278-x
WoS: 000414343200003

Paixao, Tiago, Jorge Pérez Heredia, Dirk Sudholt, and Barbora Trubenova. “Towards a Runtime Comparison of Natural and Artificial Evolution.”https://doi.org/10.1007/s00453-016-0212-1__Algorithmica. Springer, 2017.https://doi.org/10.1007/s00453-016-0212-1 .
LibreCat: https://research-explorer.ista.ac.at/record/1336
DOI: 10.1007/s00453-016-0212-1
WoS: 000400379500013

Fang, Chong, Anna A Nagy-Staron, Martin Grafe, Ralf Heermann, Kirsten Jung, Susanne Gebhard, and Thorsten Mascher. “Insulation and Wiring Specificity of BceR like Response Regulators and Their Target Promoters in Bacillus Subtilis.”https://doi.org/10.1111/mmi.13597__Molecular Microbiology. Wiley-Blackwell, 2017.https://doi.org/10.1111/mmi.13597 .
LibreCat: https://research-explorer.ista.ac.at/record/1084
DOI: 10.1111/mmi.13597
WoS: 000398059200002

Lagator, Mato, Tiago Paixao, Nicholas H Barton, Jonathan P Bollback, and Calin C Guet. “On the Mechanistic Nature of Epistasis in a Canonical Cis-Regulatory Element.”https://doi.org/10.7554/eLife.25192__ELife. eLife Sciences Publications, 2017.https://doi.org/10.7554/eLife.25192 .
LibreCat: https://research-explorer.ista.ac.at/record/954
DOI: 10.7554/eLife.25192
WoS: 000404024800001

Lang, Moritz, and Eduardo Sontag. “Zeros of Nonlinear Systems with Input Invariances.”https://doi.org/10.1016/j.automatica.2017.03.030__Automatica. International Federation of Automatic Control, 2017.https://doi.org/10.1016/j.automatica.2017.03.030 .
LibreCat: https://research-explorer.ista.ac.at/record/1007
DOI: 10.1016/j.automatica.2017.03.030
WoS: 000403513900006

Steinrück, Magdalena, and Calin C Guet. “Fastq Files for ‘Complex Chromosomal Neighborhood Effects Determine the Adaptive Potential of a Gene under Selection.’”https://doi.org/10.15479/AT:ISTA:65__Institute of Science and Technology Austria, 2017.https://doi.org/10.15479/AT:ISTA:65 .
LibreCat: https://research-explorer.ista.ac.at/record/5564
DOI: 10.15479/AT:ISTA:65

Bergmiller, Tobias, Anna M Andersson, Kathrin Tomasek, Enrique Balleza, Daniel Kiviet, Robert Hauschild, Gasper Tkadik, and Calin C Guet. “Biased Partitioning of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity.”https://doi.org/10.15479/AT:ISTA:53__Institute of Science and Technology Austria, 2017.https://doi.org/10.15479/AT:ISTA:53 .
LibreCat: https://research-explorer.ista.ac.at/record/5560
DOI: 10.15479/AT:ISTA:53

Bergmiller, Tobias, Anna M Andersson, Kathrin Tomasek, Enrique Balleza, Daniel Kiviet, Robert Hauschild, Gasper Tkadik, and Calin C Guet. “Biased Partitioning of the Multidrug Efflux Pump AcrAB TolC Underlies Long Lived Phenotypic Heterogeneity.”https://doi.org/10.1126/science.aaf4762__Science. American Association for the Advancement of Science, 2017.https://doi.org/10.1126/science.aaf4762 .
LibreCat: https://research-explorer.ista.ac.at/record/665
DOI: 10.1126/science.aaf4762

Kainrath, Stephanie, Manuela Stadler, Eva Gschaider-Reichhart, Martin Distel, and Harald L Janovjak. “Green-Light-Induced Inactivation of Receptor Signaling Using Cobalamin-Binding Domains.”https://doi.org/10.1002/anie.201611998__Angewandte Chemie - International Edition. Wiley-Blackwell, 2017.https://doi.org/10.1002/anie.201611998 .
LibreCat: https://research-explorer.ista.ac.at/record/1028
DOI: 10.1002/anie.201611998
WoS: 000398154000038

Steinrück, Magdalena, and Calin C Guet. “Complex Chromosomal Neighborhood Effects Determine the Adaptive Potential of a Gene under Selection.”https://doi.org/10.7554/eLife.25100__ELife. eLife Sciences Publications, 2017.https://doi.org/10.7554/eLife.25100 .
LibreCat: https://research-explorer.ista.ac.at/record/704
DOI: 10.7554/eLife.25100

Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Stress Induced Mutagenesis: Stress Diversity Facilitates the Persistence of Mutator Genes.”https://doi.org/10.1371/journal.pcbi.1005609__PLoS Computational Biology. Public Library of Science, 2017.https://doi.org/10.1371/journal.pcbi.1005609 .
LibreCat: https://research-explorer.ista.ac.at/record/696
DOI: 10.1371/journal.pcbi.1005609

Barone, Vanessa, Moritz Lang, Gabriel Krens, Saurabh Pradhan, Shayan Shamipour, Keisuke Sako, Mateusz K Sikora, Calin C Guet, and Carl-Philipp J Heisenberg. “An Effective Feedback Loop between Cell-Cell Contact Duration and Morphogen Signaling Determines Cell Fate.”https://doi.org/10.1016/j.devcel.2017.09.014__Developmental Cell. Cell Press, 2017.https://doi.org/10.1016/j.devcel.2017.09.014 .
LibreCat: https://research-explorer.ista.ac.at/record/735
DOI: 10.1016/j.devcel.2017.09.014
WoS: 000413443700011

Gnügge, Robert, Lekshmi Dharmarajan, Moritz Lang, and Jörg Stelling. “An Orthogonal Permease–Inducer–Repressor Feedback Loop Shows Bistability.”https://doi.org/10.1021/acssynbio.6b00013__ACS Synthetic Biology. American Chemical Society, 2016.https://doi.org/10.1021/acssynbio.6b00013 .
LibreCat: https://research-explorer.ista.ac.at/record/1008
DOI: 10.1021/acssynbio.6b00013

Lang, Moritz, and Jörg Stelling. “Modular Parameter Identification of Biomolecular Networks.”https://doi.org/10.1137/15M103306X__SIAM Journal on Scientific Computing. Society for Industrial and Applied Mathematics , 2016.https://doi.org/10.1137/15M103306X .
LibreCat: https://research-explorer.ista.ac.at/record/1170
DOI: 10.1137/15M103306X

Miki, Gregor, Alex Stoll, Joe Bevirt, Rok Grah, and Mark Moore. “Fuselage Boundary Layer Ingestion Propulsion Applied to a Thin Haul Commuter Aircraft for Optimal Efficiency,”https://doi.org/10.2514/6.2016-3764__1–19. AIAA, 2016.https://doi.org/10.2514/6.2016-3764 .
LibreCat: https://research-explorer.ista.ac.at/record/1220
DOI: 10.2514/6.2016-3764

Stone, Laura, Michael Baym, Tami Lieberman, Remy P Chait, Jon Clardy, and Roy Kishony. “Compounds That Select against the Tetracycline-Resistance Efflux Pump.”https://doi.org/10.1038/nchembio.2176__Nature Chemical Biology. Nature Publishing Group, 2016.https://doi.org/10.1038/nchembio.2176 .
LibreCat: https://research-explorer.ista.ac.at/record/1290
DOI: 10.1038/nchembio.2176

Lang, Moritz, and Eduardo Sontag. “Scale-Invariant Systems Realize Nonlinear Differential Operators,”https://doi.org/10.1109/ACC.2016.7526722__Vol. 2016–July. IEEE, 2016.https://doi.org/10.1109/ACC.2016.7526722 .
LibreCat: https://research-explorer.ista.ac.at/record/1320
DOI: 10.1109/ACC.2016.7526722

Chait, Remy P, Adam Palmer, Idan Yelin, and Roy Kishony. “Pervasive Selection for and against Antibiotic Resistance in Inhomogeneous Multistress Environments.”https://doi.org/10.1038/ncomms10333__Nature Communications. Nature Publishing Group, 2016.https://doi.org/10.1038/ncomms10333 .
LibreCat: https://research-explorer.ista.ac.at/record/1332
DOI: 10.1038/ncomms10333

Baym, Michael, Tami Lieberman, Eric Kelsic, Remy P Chait, Rotem Gross, Idan Yelin, and Roy Kishony. “Spatiotemporal Microbial Evolution on Antibiotic Landscapes.”https://doi.org/10.1126/science.aag0822__Science. American Association for the Advancement of Science, 2016.https://doi.org/10.1126/science.aag0822 .
LibreCat: https://research-explorer.ista.ac.at/record/1342
DOI: 10.1126/science.aag0822

Oliveto, Pietro, Tiago Paixao, Jorge Heredia, Dirk Sudholt, and Barbora Trubenova. “When Non-Elitism Outperforms Elitism for Crossing Fitness Valleys.”https://doi.org/10.1145/2908812.2908909__In Proceedings of the Genetic and Evolutionary Computation Conference 2016 , 1163–70. ACM, 2016.https://doi.org/10.1145/2908812.2908909 .
LibreCat: https://research-explorer.ista.ac.at/record/1349
DOI: 10.1145/2908812.2908909

Paixao, Tiago, and Nicholas H Barton. “The Effect of Gene Interactions on the Long-Term Response to Selection.”https://doi.org/10.1073/pnas.1518830113__PNAS. National Academy of Sciences, 2016.https://doi.org/10.1073/pnas.1518830113 .
LibreCat: https://research-explorer.ista.ac.at/record/1359
DOI: 10.1073/pnas.1518830113
PMID: 27044080

Lagator, Mato, Claudia Igler, Anaisa Moreno, Calin C Guet, and Jonathan P Bollback. “Epistatic Interactions in the Arabinose Cis-Regulatory Element.”https://doi.org/10.1093/molbev/msv269__Molecular Biology and Evolution. Oxford University Press, 2016.https://doi.org/10.1093/molbev/msv269 .
LibreCat: https://research-explorer.ista.ac.at/record/1427
DOI: 10.1093/molbev/msv269

Beica, Andreea, Calin C Guet, and Tatjana Petrov. “Efficient Reduction of Kappa Models by Static Inspection of the Rule-Set,”https://doi.org/10.1007/978-3-319-26916-0_10__9271:173–91. Springer, 2016.https://doi.org/10.1007/978-3-319-26916-0_10 .
LibreCat: https://research-explorer.ista.ac.at/record/1524
DOI: 10.1007/978-3-319-26916-0_10

Boehm, Alex, Markus Arnoldini, Tobias Bergmiller, Thomas Röösli, Colette Bigosch, and Martin Ackermann. “Genetic Manipulation of Glycogen Allocation Affects Replicative Lifespan in E Coli.”https://doi.org/10.1371/journal.pgen.1005974__PLoS Genetics. Public Library of Science, 2016.https://doi.org/10.1371/journal.pgen.1005974 .
LibreCat: https://research-explorer.ista.ac.at/record/1250
DOI: 10.1371/journal.pgen.1005974