27 Publications

Mark all

[27]
2018 | Journal Article | IST-REx-ID: 723   OA
Oliveto, Pietro, et al. “How to Escape Local Optima in Black Box Optimisation When Non Elitism Outperforms Elitism.” Algorithmica, vol. 80, no. 5, Springer, 2018, pp. 1604–33, doi:10.1007/s00453-017-0369-2.
View | Files available | DOI
 
[26]
2017 | Journal Article | IST-REx-ID: 1111
Heredia, Jorge, et al. “Selection Limits to Adaptive Walks on Correlated Landscapes.” Genetics, vol. 205, no. 2, Genetics Society of America, 2017, pp. 803–25, doi:10.1534/genetics.116.189340.
View | DOI
 
[25]
2017 | Journal Article | IST-REx-ID: 1351
Giacobbe, Mirco, et al. “Model Checking the Evolution of Gene Regulatory Networks.” Acta Informatica, vol. 54, no. 8, Springer, 2017, pp. 765–87, doi:10.1007/s00236-016-0278-x.
View | Files available | DOI
 
[24]
2017 | Conference Paper | IST-REx-ID: 1112
Paixao, Tiago, and Jorge Pérez Heredia. An Application of Stochastic Differential Equations to Evolutionary Algorithms. ACM, 2017, pp. 3–11, doi:10.1145/3040718.3040729.
View | DOI
 
[23]
2017 | Journal Article | IST-REx-ID: 954   OA
Lagator, Mato, et al. “On the Mechanistic Nature of Epistasis in a Canonical Cis-Regulatory Element.” ELife, vol. 6, e25192, eLife Sciences Publications, 2017, doi:10.7554/eLife.25192.
View | Files available | DOI
 
[22]
2017 | Journal Article | IST-REx-ID: 696   OA
Lukacisinova, Marta, et al. “Stress Induced Mutagenesis: Stress Diversity Facilitates the Persistence of Mutator Genes.” PLoS Computational Biology, vol. 13, no. 7, Public Library of Science, 2017, p. e1005609, doi:10.1371/journal.pcbi.1005609.
View | Files available | DOI
 
[21]
2017 | Journal Article | IST-REx-ID: 1336   OA
Paixao, Tiago, et al. “Towards a Runtime Comparison of Natural and Artificial Evolution.” Algorithmica, vol. 78, no. 2, Springer, 2017, pp. 681–713, doi:10.1007/s00453-016-0212-1.
View | Files available | DOI
 
[20]
2016 | Conference Paper | IST-REx-ID: 1349   OA
Oliveto, Pietro, et al. “When Non-Elitism Outperforms Elitism for Crossing Fitness Valleys.” Proceedings of the Genetic and Evolutionary Computation Conference 2016 , ACM, 2016, pp. 1163–70, doi:10.1145/2908812.2908909.
View | Files available | DOI
 
[19]
2016 | Journal Article | IST-REx-ID: 1359   OA
Paixao, Tiago, and Nicholas H. Barton. “The Effect of Gene Interactions on the Long-Term Response to Selection.” PNAS, vol. 113, no. 16, National Academy of Sciences, 2016, pp. 4422–27, doi:10.1073/pnas.1518830113.
View | DOI | Download (ext.)
 
[18]
2015 | Journal Article | IST-REx-ID: 1666
Tugrul, Murat, et al. “Dynamics of Transcription Factor Binding Site Evolution.” PLoS Genetics, vol. 11, no. 11, Public Library of Science, 2015, doi:10.1371/journal.pgen.1005639.
View | Files available | DOI
 
[17]
2015 | Journal Article | IST-REx-ID: 1542   OA
Paixao, Tiago, et al. “Toward a Unifying Framework for Evolutionary Processes.” Journal of Theoretical Biology, vol. 383, Elsevier, 2015, pp. 28–43, doi:10.1016/j.jtbi.2015.07.011.
View | Files available | DOI
 
[16]
2015 | Conference Paper | IST-REx-ID: 1430   OA
Paixao, Tiago, et al. “First Steps towards a Runtime Comparison of Natural and Artificial Evolution.” Proceedings of the 2015 Annual Conference on Genetic and Evolutionary Computation, ACM, 2015, pp. 1455–62, doi:10.1145/2739480.2754758.
View | DOI | Download (ext.)
 
[15]
2015 | Conference Paper | IST-REx-ID: 1835   OA
Giacobbe, Mirco, et al. Model Checking Gene Regulatory Networks. Vol. 9035, Springer, 2015, pp. 469–83, doi:10.1007/978-3-662-46681-0_47.
View | Files available | DOI | Download (ext.)
 
[14]
2014 | Journal Article | IST-REx-ID: 2169   OA
Barton, Nicholas H., et al. “Diverse Forms of Selection in Evolution and Computer Science.” PNAS, vol. 111, no. 29, National Academy of Sciences, 2014, pp. 10398–99, doi:10.1073/pnas.1410107111.
View | DOI | Download (ext.)
 
[13]
2014 | Journal Article | IST-REx-ID: 2252
Phadke, Sujal, et al. “Genetic Background Alters Dominance Relationships between Mat Alleles in the Ciliate Tetrahymena Thermophila.” Journal of Heredity, vol. 105, no. 1, Oxford University Press, 2014, pp. 130–35, doi:10.1093/jhered/est063.
View | DOI
 
[12]
2013 | Journal Article | IST-REx-ID: 2900
Azevedo, Ricardo, et al. “Networking Networks.” Evolution & Development, vol. 10, no. 5, Wiley-Blackwell, 2013, pp. 514–15.
View | Download (ext.)
 
[11]
2013 | Conference Paper | IST-REx-ID: 2718   OA
Barton, Nicholas H., and Tiago Paixao. “Can Quantitative and Population Genetics Help Us Understand Evolutionary Computation?” Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 1573–80, doi:10.1145/2463372.2463568.
View | Files available | DOI
 
[10]
2013 | Journal Article | IST-REx-ID: 2720   OA
Long, Hongan, et al. “Accumulation of Spontaneous Mutations in the Ciliate Tetrahymena Thermophila.” Genetics, vol. 195, no. 2, Genetics Society of America, 2013, pp. 527–40, doi:10.1534/genetics.113.153536 .
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[9]
2013 | Conference Paper | IST-REx-ID: 2719
Paixao, Tiago, and Nicholas H. Barton. “A Variance Decomposition Approach to the Analysis of Genetic Algorithms.” Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 845–52, doi:10.1145/2463372.2463470.
View | DOI
 
[8]
2011 | Journal Article | IST-REx-ID: 2897
Paixao, Tiago, and Ricardo Azevedo. “Redundancy and the Evolution of Cis Regulatory Element Multiplicity.” PLoS Computational Biology, vol. 6, no. 7, Public Library of Science, 2011, doi:10.1371/journal.pcbi.1000848.
View | DOI
 
[7]
2011 | Journal Article | IST-REx-ID: 2898
Paixao, Tiago, et al. “Sex Ratio Evolution under Probabilistic Sex Determination.” Evolution; International Journal of Organic Evolution, vol. 65, no. 7, Wiley-Blackwell, 2011, pp. 2050–60, doi:10.1111/j.1558-5646.2011.01266.x.
View | DOI
 
[6]
2010 | Journal Article | IST-REx-ID: 2899
Cooper, Tim, et al. “Within Host Competition Selects for Plasmid Encoded Toxin–Antitoxin Systems.” Proc R Soc B, vol. 277, no. 1697, Wiley-Blackwell, 2010, pp. 3149–55, doi:10.1098/rspb.2010.0831.
View | DOI
 
[5]
2008 | Journal Article | IST-REx-ID: 2892
Azevedo, Ricardo, et al. “Networking Networks.” Evolution & Development, vol. 10, no. 5, Wiley-Blackwell, 2008, pp. 514–15, doi:10.1111/j.1525-142X.2008.00265.x.
View | DOI
 
[4]
2007 | Journal Article | IST-REx-ID: 2893
Carneiro, Jorge, et al. “When Three Is Not a Crowd a Crossregulation Model of the Dynamics and Repertoire Selection of Regulatory CD4 T Cells.” Immunological Reviews, vol. 216, no. 1, Wiley-Blackwell, 2007, pp. 48–68, doi:10.1111/j.1600-065X.2007.00487.x.
View | DOI
 
[3]
2007 | Journal Article | IST-REx-ID: 2896
Paixao, Tiago, et al. “Quantitative Insights into Stochastic Monoallelic Expression of Cytokine Genes.” Immunology and Cell Biology, vol. 85, no. 4, Nature Publishing Group, 2007, pp. 315–22, doi:10.1038/sj.icb.7100057.
View | DOI
 
[2]
2006 | Journal Article | IST-REx-ID: 2894
Calado, Dinis, et al. “Stochastic Monoallelic Expression of IL 10 in T Cells.” Journal of Immunology, vol. 177, no. 8, American Association of Immunologists, 2006, pp. 5358–64, doi:10.4049/jimmunol.177.8.5358 .
View | DOI
 
[1]
2005 | Journal Article | IST-REx-ID: 2895
Carneiro, Jorge, et al. “Immunological Self Tolerance: Lessons from Mathematical Modeling.” Journal of Computational and Applied Mathematics, vol. 184, no. 1, Elsevier, 2005, pp. 77–100, doi:10.1016/j.cam.2004.10.025.
View | DOI
 

Search

Filter Publications

Display / Sort

Citation Style: MLA

Export / Embed

27 Publications

Mark all

[27]
2018 | Journal Article | IST-REx-ID: 723   OA
Oliveto, Pietro, et al. “How to Escape Local Optima in Black Box Optimisation When Non Elitism Outperforms Elitism.” Algorithmica, vol. 80, no. 5, Springer, 2018, pp. 1604–33, doi:10.1007/s00453-017-0369-2.
View | Files available | DOI
 
[26]
2017 | Journal Article | IST-REx-ID: 1111
Heredia, Jorge, et al. “Selection Limits to Adaptive Walks on Correlated Landscapes.” Genetics, vol. 205, no. 2, Genetics Society of America, 2017, pp. 803–25, doi:10.1534/genetics.116.189340.
View | DOI
 
[25]
2017 | Journal Article | IST-REx-ID: 1351
Giacobbe, Mirco, et al. “Model Checking the Evolution of Gene Regulatory Networks.” Acta Informatica, vol. 54, no. 8, Springer, 2017, pp. 765–87, doi:10.1007/s00236-016-0278-x.
View | Files available | DOI
 
[24]
2017 | Conference Paper | IST-REx-ID: 1112
Paixao, Tiago, and Jorge Pérez Heredia. An Application of Stochastic Differential Equations to Evolutionary Algorithms. ACM, 2017, pp. 3–11, doi:10.1145/3040718.3040729.
View | DOI
 
[23]
2017 | Journal Article | IST-REx-ID: 954   OA
Lagator, Mato, et al. “On the Mechanistic Nature of Epistasis in a Canonical Cis-Regulatory Element.” ELife, vol. 6, e25192, eLife Sciences Publications, 2017, doi:10.7554/eLife.25192.
View | Files available | DOI
 
[22]
2017 | Journal Article | IST-REx-ID: 696   OA
Lukacisinova, Marta, et al. “Stress Induced Mutagenesis: Stress Diversity Facilitates the Persistence of Mutator Genes.” PLoS Computational Biology, vol. 13, no. 7, Public Library of Science, 2017, p. e1005609, doi:10.1371/journal.pcbi.1005609.
View | Files available | DOI
 
[21]
2017 | Journal Article | IST-REx-ID: 1336   OA
Paixao, Tiago, et al. “Towards a Runtime Comparison of Natural and Artificial Evolution.” Algorithmica, vol. 78, no. 2, Springer, 2017, pp. 681–713, doi:10.1007/s00453-016-0212-1.
View | Files available | DOI
 
[20]
2016 | Conference Paper | IST-REx-ID: 1349   OA
Oliveto, Pietro, et al. “When Non-Elitism Outperforms Elitism for Crossing Fitness Valleys.” Proceedings of the Genetic and Evolutionary Computation Conference 2016 , ACM, 2016, pp. 1163–70, doi:10.1145/2908812.2908909.
View | Files available | DOI
 
[19]
2016 | Journal Article | IST-REx-ID: 1359   OA
Paixao, Tiago, and Nicholas H. Barton. “The Effect of Gene Interactions on the Long-Term Response to Selection.” PNAS, vol. 113, no. 16, National Academy of Sciences, 2016, pp. 4422–27, doi:10.1073/pnas.1518830113.
View | DOI | Download (ext.)
 
[18]
2015 | Journal Article | IST-REx-ID: 1666
Tugrul, Murat, et al. “Dynamics of Transcription Factor Binding Site Evolution.” PLoS Genetics, vol. 11, no. 11, Public Library of Science, 2015, doi:10.1371/journal.pgen.1005639.
View | Files available | DOI
 
[17]
2015 | Journal Article | IST-REx-ID: 1542   OA
Paixao, Tiago, et al. “Toward a Unifying Framework for Evolutionary Processes.” Journal of Theoretical Biology, vol. 383, Elsevier, 2015, pp. 28–43, doi:10.1016/j.jtbi.2015.07.011.
View | Files available | DOI
 
[16]
2015 | Conference Paper | IST-REx-ID: 1430   OA
Paixao, Tiago, et al. “First Steps towards a Runtime Comparison of Natural and Artificial Evolution.” Proceedings of the 2015 Annual Conference on Genetic and Evolutionary Computation, ACM, 2015, pp. 1455–62, doi:10.1145/2739480.2754758.
View | DOI | Download (ext.)
 
[15]
2015 | Conference Paper | IST-REx-ID: 1835   OA
Giacobbe, Mirco, et al. Model Checking Gene Regulatory Networks. Vol. 9035, Springer, 2015, pp. 469–83, doi:10.1007/978-3-662-46681-0_47.
View | Files available | DOI | Download (ext.)
 
[14]
2014 | Journal Article | IST-REx-ID: 2169   OA
Barton, Nicholas H., et al. “Diverse Forms of Selection in Evolution and Computer Science.” PNAS, vol. 111, no. 29, National Academy of Sciences, 2014, pp. 10398–99, doi:10.1073/pnas.1410107111.
View | DOI | Download (ext.)
 
[13]
2014 | Journal Article | IST-REx-ID: 2252
Phadke, Sujal, et al. “Genetic Background Alters Dominance Relationships between Mat Alleles in the Ciliate Tetrahymena Thermophila.” Journal of Heredity, vol. 105, no. 1, Oxford University Press, 2014, pp. 130–35, doi:10.1093/jhered/est063.
View | DOI
 
[12]
2013 | Journal Article | IST-REx-ID: 2900
Azevedo, Ricardo, et al. “Networking Networks.” Evolution & Development, vol. 10, no. 5, Wiley-Blackwell, 2013, pp. 514–15.
View | Download (ext.)
 
[11]
2013 | Conference Paper | IST-REx-ID: 2718   OA
Barton, Nicholas H., and Tiago Paixao. “Can Quantitative and Population Genetics Help Us Understand Evolutionary Computation?” Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 1573–80, doi:10.1145/2463372.2463568.
View | Files available | DOI
 
[10]
2013 | Journal Article | IST-REx-ID: 2720   OA
Long, Hongan, et al. “Accumulation of Spontaneous Mutations in the Ciliate Tetrahymena Thermophila.” Genetics, vol. 195, no. 2, Genetics Society of America, 2013, pp. 527–40, doi:10.1534/genetics.113.153536 .
View | DOI | Download (ext.) | PubMed | Europe PMC
 
[9]
2013 | Conference Paper | IST-REx-ID: 2719
Paixao, Tiago, and Nicholas H. Barton. “A Variance Decomposition Approach to the Analysis of Genetic Algorithms.” Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 845–52, doi:10.1145/2463372.2463470.
View | DOI
 
[8]
2011 | Journal Article | IST-REx-ID: 2897
Paixao, Tiago, and Ricardo Azevedo. “Redundancy and the Evolution of Cis Regulatory Element Multiplicity.” PLoS Computational Biology, vol. 6, no. 7, Public Library of Science, 2011, doi:10.1371/journal.pcbi.1000848.
View | DOI
 
[7]
2011 | Journal Article | IST-REx-ID: 2898
Paixao, Tiago, et al. “Sex Ratio Evolution under Probabilistic Sex Determination.” Evolution; International Journal of Organic Evolution, vol. 65, no. 7, Wiley-Blackwell, 2011, pp. 2050–60, doi:10.1111/j.1558-5646.2011.01266.x.
View | DOI
 
[6]
2010 | Journal Article | IST-REx-ID: 2899
Cooper, Tim, et al. “Within Host Competition Selects for Plasmid Encoded Toxin–Antitoxin Systems.” Proc R Soc B, vol. 277, no. 1697, Wiley-Blackwell, 2010, pp. 3149–55, doi:10.1098/rspb.2010.0831.
View | DOI
 
[5]
2008 | Journal Article | IST-REx-ID: 2892
Azevedo, Ricardo, et al. “Networking Networks.” Evolution & Development, vol. 10, no. 5, Wiley-Blackwell, 2008, pp. 514–15, doi:10.1111/j.1525-142X.2008.00265.x.
View | DOI
 
[4]
2007 | Journal Article | IST-REx-ID: 2893
Carneiro, Jorge, et al. “When Three Is Not a Crowd a Crossregulation Model of the Dynamics and Repertoire Selection of Regulatory CD4 T Cells.” Immunological Reviews, vol. 216, no. 1, Wiley-Blackwell, 2007, pp. 48–68, doi:10.1111/j.1600-065X.2007.00487.x.
View | DOI
 
[3]
2007 | Journal Article | IST-REx-ID: 2896
Paixao, Tiago, et al. “Quantitative Insights into Stochastic Monoallelic Expression of Cytokine Genes.” Immunology and Cell Biology, vol. 85, no. 4, Nature Publishing Group, 2007, pp. 315–22, doi:10.1038/sj.icb.7100057.
View | DOI
 
[2]
2006 | Journal Article | IST-REx-ID: 2894
Calado, Dinis, et al. “Stochastic Monoallelic Expression of IL 10 in T Cells.” Journal of Immunology, vol. 177, no. 8, American Association of Immunologists, 2006, pp. 5358–64, doi:10.4049/jimmunol.177.8.5358 .
View | DOI
 
[1]
2005 | Journal Article | IST-REx-ID: 2895
Carneiro, Jorge, et al. “Immunological Self Tolerance: Lessons from Mathematical Modeling.” Journal of Computational and Applied Mathematics, vol. 184, no. 1, Elsevier, 2005, pp. 77–100, doi:10.1016/j.cam.2004.10.025.
View | DOI
 

Search

Filter Publications

Display / Sort

Citation Style: MLA

Export / Embed