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. Springer.https://doi.org/10.1007/s00453-017-0369-2 
LibreCat: https://research-explorer.ista.ac.at/record/723
DOI: 10.1007/s00453-017-0369-2
WoS: 000428239300010

Paixao, T., &; Pérez Heredia, J. (2017). An application of stochastic differential equations to evolutionary algorithms. In Proceedings of the 14th ACM/SIGEVO Conference on Foundations of Genetic Algorithms (pp. 3–11). Copenhagen, Denmark: ACM.https://doi.org/10.1145/3040718.3040729 
LibreCat: https://research-explorer.ista.ac.at/record/1112
DOI: 10.1145/3040718.3040729

Lukacisinova, M., Novak, S., &; Paixao, T. (2017). Modelling and simulation details. Public Library of Science.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, M., Novak, S., &; Paixao, T. (2017). Extensions of the model. Public Library of Science.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

Lukacisinova, M., Novak, S., &; Paixao, T. (2017). Heuristic prediction for multiple stresses. Public Library of Science.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, M., Novak, S., &; Paixao, T. (2017). Resistance frequencies for different combination strategies. Public Library of Science.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

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. Springer.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, T., Pérez Heredia, J., Sudholt, D., &; Trubenova, B. (2017). Towards a runtime comparison of natural and artificial evolution. Algorithmica. Springer.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

Heredia, J., Trubenova, B., Sudholt, D., &; Paixao, T. (2017). Selection limits to adaptive walks on correlated landscapes. Genetics. Genetics Society of America.https://doi.org/10.1534/genetics.116.189340 
LibreCat: https://research-explorer.ista.ac.at/record/1111
DOI: 10.1534/genetics.116.189340
WoS: 000394144900025
PMID: 27881471

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. eLife Sciences Publications.https://doi.org/10.7554/eLife.25192 
LibreCat: https://research-explorer.ista.ac.at/record/954
DOI: 10.7554/eLife.25192
WoS: 000404024800001

Lukacisinova, M., Novak, S., &; Paixao, T. (2017). Stress induced mutagenesis: Stress diversity facilitates the persistence of mutator genes. PLoS Computational Biology. Public Library of Science.https://doi.org/10.1371/journal.pcbi.1005609 
LibreCat: https://research-explorer.ista.ac.at/record/696
DOI: 10.1371/journal.pcbi.1005609

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 
LibreCat: https://research-explorer.ista.ac.at/record/1349
DOI: 10.1145/2908812.2908909

Paixao, T., &; Barton, N. H. (2016). The effect of gene interactions on the long-term response to selection. PNAS. National Academy of Sciences.https://doi.org/10.1073/pnas.1518830113 
LibreCat: https://research-explorer.ista.ac.at/record/1359
DOI: 10.1073/pnas.1518830113
PMID: 27044080

Paixao, T., Sudholt, D., Heredia, J., &; Trubenova, B. (2015). First steps towards a runtime comparison of natural and artificial evolution. In Proceedings of the 2015 Annual Conference on Genetic and Evolutionary Computation (pp. 1455–1462). Madrid, Spain: ACM.https://doi.org/10.1145/2739480.2754758 
LibreCat: https://research-explorer.ista.ac.at/record/1430
DOI: 10.1145/2739480.2754758

Paixao, T., Badkobeh, G., Barton, N. H., Çörüf, D., Dang, D., Friedrich, T.,https://doi.org/10.1016/j.jtbi.2015.07.011__Trubenova, B. (2015). Toward a unifying framework for evolutionary processes. https://doi.org/10.1016/j.jtbi.2015.07.011__Journal of Theoretical Biology. Elsevier.https://doi.org/10.1016/j.jtbi.2015.07.011 
LibreCat: https://research-explorer.ista.ac.at/record/1542
DOI: 10.1016/j.jtbi.2015.07.011

Tugrul, M., Paixao, T., Barton, N. H., &; Tkadik, G. (2015). Other fitness models for comparison &; for interacting TFBSs. Public Library of Science.https://doi.org/10.1371/journal.pgen.1005639.s001 
LibreCat: https://research-explorer.ista.ac.at/record/9712
DOI: 10.1371/journal.pgen.1005639.s001

Tugrul, M., Paixao, T., Barton, N. H., &; Tkadik, G. (2015). Dynamics of transcription factor binding site evolution. PLoS Genetics. Public Library of Science.https://doi.org/10.1371/journal.pgen.1005639 
LibreCat: https://research-explorer.ista.ac.at/record/1666
DOI: 10.1371/journal.pgen.1005639

Giacobbe, M., Guet, C. C., Gupta, A., Henzinger, T. A., Paixao, T., &; Petrov, T. (2015). Model checking gene regulatory networks. Presented at the TACAS: Tools and Algorithms for the Construction and Analysis of Systems, London, United Kingdom: Springer.https://doi.org/10.1007/978-3-662-46681-0_47 
LibreCat: https://research-explorer.ista.ac.at/record/1835
DOI: 10.1007/978-3-662-46681-0_47

Barton, N. H., Novak, S., &; Paixao, T. (2014). Diverse forms of selection in evolution and computer science. PNAS. National Academy of Sciences.https://doi.org/10.1073/pnas.1410107111 
LibreCat: https://research-explorer.ista.ac.at/record/2169
DOI: 10.1073/pnas.1410107111

Phadke, S., Paixao, T., Pham, T., Pham, S., &; Zufall, R. (2014). Genetic background alters dominance relationships between mat alleles in the ciliate Tetrahymena Thermophila. Journal of Heredity. Oxford University Press.https://doi.org/10.1093/jhered/est063 
LibreCat: https://research-explorer.ista.ac.at/record/2252
DOI: 10.1093/jhered/est063