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82 Publications
2020 | Research Data | IST-REx-ID: 7383 
Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation
R. Grah, Matlab Scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression Regulation, IST Austria, 2020.
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R. Grah, Matlab Scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression Regulation, IST Austria, 2020.
2019 | Journal Article | IST-REx-ID: 6717
Commentary: A host-produced quorum-sensing autoinducer controls a phage lysis-lysogeny decision
C. Igler, S.T. Abedon, Frontiers in Microbiology 10 (2019).
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C. Igler, S.T. Abedon, Frontiers in Microbiology 10 (2019).
2019 | Journal Article | IST-REx-ID: 6465
A modular degron library for synthetic circuits in mammalian cells
H. Chassin, M. Müller, M. Tigges, L. Scheller, M. Lang, M. Fussenegger, Nature Communications 10 (2019).
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H. Chassin, M. Müller, M. Tigges, L. Scheller, M. Lang, M. Fussenegger, Nature Communications 10 (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, IST Austria, 2019.
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C. Igler, On the Nature of Gene Regulatory Design - The Biophysics of Transcription Factor Binding Shapes Gene Regulation, IST Austria, 2019.
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 | 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: 6784
Molecular noise of innate immunity shapes bacteria-phage ecologies
J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, PLoS Computational Biology 15 (2019).
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J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, PLoS Computational Biology 15 (2019).
2019 | Research Data | IST-REx-ID: 7016
Data for the paper "Gene amplification as a form of population-level gene expression regulation"
I. Tomanek, Data for the Paper “Gene Amplification as a Form of Population-Level Gene Expression Regulation,” IST Austria, 2019.
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I. Tomanek, Data for the Paper “Gene Amplification as a Form of Population-Level Gene Expression Regulation,” IST Austria, 2019.
2018 | Journal Article | IST-REx-ID: 67
Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkacik, J.P. Bollback, C.C. Guet, Nature Ecology and Evolution 2 (2018) 1633–1643.
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C. Igler, M. Lagator, G. Tkacik, J.P. Bollback, C.C. Guet, Nature Ecology and Evolution 2 (2018) 1633–1643.
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 | IST-REx-ID: 5569
Time-lapse microscopy data
T. Bergmiller, N. Nikolic, Time-Lapse Microscopy Data, IST Austria, 2018.
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T. Bergmiller, N. Nikolic, Time-Lapse Microscopy Data, IST Austria, 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 | Preprint | IST-REx-ID: 196
Harmonic dynamics of the Abelian sandpile
M. Lang, M. Shkolnikov, ArXiv (2018).
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M. Lang, M. Shkolnikov, ArXiv (2018).
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 | 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, IST Austria, 2018.
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M. Steinrück, The Influence of Sequence Context on the Evolution of Bacterial Gene Expression, IST Austria, 2018.
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: 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: 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: 161
Statistical mechanics for metabolic networks during steady state growth
D. De Martino, A.A. Mc, T. Bergmiller, C.C. Guet, G. Tkacik, Nature Communications 9 (2018).
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D. De Martino, A.A. Mc, T. Bergmiller, C.C. Guet, G. Tkacik, Nature Communications 9 (2018).
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: 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: 5585
Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkacik, J.P. Bollback, C.C. Guet, Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring, IST Austria, 2018.
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C. Igler, M. Lagator, G. Tkacik, J.P. Bollback, C.C. Guet, Data for the Paper Evolutionary Potential of Transcription Factors for Gene Regulatory Rewiring, IST Austria, 2018.
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: 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 | 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: 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 | 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, IST Austria, 2017.
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M. Pleska, Biology of Restriction-Modification Systems at the Single-Cell and Population Level, IST Austria, 2017.
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: 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: 613
Shaping bacterial population behavior through computer interfaced control of individual cells
R.P. Chait, J. Ruess, T. Bergmiller, G. Tkacik, C.C. Guet, Nature Communications 8 (2017).
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R.P. Chait, J. Ruess, T. Bergmiller, G. Tkacik, C.C. Guet, Nature Communications 8 (2017).
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 | 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, Fastq Files for “Complex Chromosomal Neighborhood Effects Determine the Adaptive Potential of a Gene under Selection,” IST Austria, 2017.
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M. Steinrück, C.C. Guet, Fastq Files for “Complex Chromosomal Neighborhood Effects Determine the Adaptive Potential of a Gene under Selection,” IST Austria, 2017.
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: 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.
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: 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: 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. Tkacik, 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. Tkacik, C.C. Guet, Science 356 (2017) 311–315.
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. Tkacik, C.C. Guet, Biased Partitioning of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity, IST Austria, 2017.
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T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild, G. Tkacik, C.C. Guet, Biased Partitioning of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity, IST Austria, 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 | 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: 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).
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: 1250
Genetic manipulation of glycogen allocation affects replicative lifespan in E coli
A. Boehm, M. Arnoldini, T. Bergmiller, T. Röösli, C. Bigosch, M. Ackermann, PLoS Genetics 12 (2016).
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A. Boehm, M. Arnoldini, T. Bergmiller, T. Röösli, C. Bigosch, M. Ackermann, PLoS Genetics 12 (2016).
2016 | Conference Paper | IST-REx-ID: 1320
Scale-invariant systems realize nonlinear differential operators
M. Lang, E. Sontag, in:, IEEE, 2016.
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M. Lang, E. Sontag, in:, IEEE, 2016.
2016 | Journal Article | IST-REx-ID: 1332
Pervasive selection for and against antibiotic resistance in inhomogeneous multistress environments
R.P. Chait, A. Palmer, I. Yelin, R. Kishony, Nature Communications 7 (2016).
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R.P. Chait, A. Palmer, I. Yelin, R. Kishony, Nature Communications 7 (2016).
2016 | Conference Paper | IST-REx-ID: 1349
When non-elitism outperforms elitism for crossing fitness valleys
P. Oliveto, T. Paixao, J. Heredia, D. Sudholt, B. Trubenova, in:, Proceedings of the Genetic and Evolutionary Computation Conference 2016 , ACM, 2016, pp. 1163–1170.
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P. Oliveto, T. Paixao, J. Heredia, D. Sudholt, B. Trubenova, in:, Proceedings of the Genetic and Evolutionary Computation Conference 2016 , ACM, 2016, pp. 1163–1170.
2016 | Journal Article | IST-REx-ID: 1243
Bacterial autoimmunity due to a restriction-modification system
M. Pleska, L. Qian, R. Okura, T. Bergmiller, Y. Wakamoto, E. Kussell, C.C. Guet, Current Biology 26 (2016) 404–409.
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M. Pleska, L. Qian, R. Okura, T. Bergmiller, Y. Wakamoto, E. Kussell, C.C. Guet, Current Biology 26 (2016) 404–409.
2016 | Conference Paper | IST-REx-ID: 1220
Fuselage boundary layer ingestion propulsion applied to a thin haul commuter aircraft for optimal efficiency
G. Mikić, A. Stoll, J. Bevirt, R. Grah, M. Moore, in:, AIAA, 2016, pp. 1–19.
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G. Mikić, A. Stoll, J. Bevirt, R. Grah, M. Moore, in:, AIAA, 2016, pp. 1–19.
2016 | Journal Article | IST-REx-ID: 1427
Epistatic interactions in the arabinose cis-regulatory element
M. Lagator, C. Igler, A. Moreno, C.C. Guet, J.P. Bollback, Molecular Biology and Evolution 33 (2016) 761–769.
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M. Lagator, C. Igler, A. Moreno, C.C. Guet, J.P. Bollback, Molecular Biology and Evolution 33 (2016) 761–769.